From 676a4b1c8bc1259d3e4f99fbd0ad581a8c185c14 Mon Sep 17 00:00:00 2001
From: Peter Robinson <peter.robinson@jax.org>
Date: Tue, 12 Dec 2023 15:07:46 +0100
Subject: [PATCH] Removing redundant phenopacket generation code

---
 ...nez_PMID_36446582_CreatePhenopackets.ipynb | 1330 -----------------
 .../input/Martinez-KBG-SupplTable-340-v2.xlsx |  Bin 51865 -> 0 bytes
 .../input/Martinez-KBG-SupplTable-340.xlsx    |  Bin 143628 -> 0 bytes
 ...2019.json => PMID_36446582_Alves2019.json} |   50 +-
 .../PMID_36446582_Behnert2018.json            |  173 +++
 .../PMID_36446582_Behnert_2018.json           |  242 ---
 ...18.json => PMID_36446582_Bianchi2018.json} |  115 +-
 .../PMID_36446582_Bucerzan2020.json           |  117 +-
 .../PMID_36446582_Crippa2015_P1.json          |  117 +-
 .../PMID_36446582_Crippa2015_P2.json          |  117 +-
 .../PMID_36446582_Crippa2015_P3.json          |   96 +-
 ...n => PMID_36446582_Cucco2020PatientB.json} |  101 +-
 .../PMID_36446582_DeBernardi2018.json         |  104 +-
 ....json => PMID_36446582_Gnazzo2020_P1.json} |   75 +-
 ...json => PMID_36446582_Gnazzo2020_P10.json} |   84 +-
 ...json => PMID_36446582_Gnazzo2020_P11.json} |   84 +-
 ...json => PMID_36446582_Gnazzo2020_P12.json} |   94 +-
 ...json => PMID_36446582_Gnazzo2020_P13.json} |   84 +-
 ...json => PMID_36446582_Gnazzo2020_P14.json} |   87 +-
 ...json => PMID_36446582_Gnazzo2020_P15.json} |  112 +-
 ...json => PMID_36446582_Gnazzo2020_P16.json} |   89 +-
 ...json => PMID_36446582_Gnazzo2020_P17.json} |   71 +-
 ...json => PMID_36446582_Gnazzo2020_P18.json} |   84 +-
 ...json => PMID_36446582_Gnazzo2020_P19.json} |   96 +-
 ....json => PMID_36446582_Gnazzo2020_P2.json} |   75 +-
 ...json => PMID_36446582_Gnazzo2020_P20.json} |   89 +-
 ...json => PMID_36446582_Gnazzo2020_P21.json} |   89 +-
 ...json => PMID_36446582_Gnazzo2020_P22.json} |   80 +-
 ...json => PMID_36446582_Gnazzo2020_P23.json} |   92 +-
 ...json => PMID_36446582_Gnazzo2020_P24.json} |   99 +-
 ...json => PMID_36446582_Gnazzo2020_P25.json} |   80 +-
 ...json => PMID_36446582_Gnazzo2020_P26.json} |   89 +-
 ...json => PMID_36446582_Gnazzo2020_P27.json} |   90 +-
 ...json => PMID_36446582_Gnazzo2020_P28.json} |   99 +-
 .../PMID_36446582_Gnazzo2020_P29.json         |  129 ++
 ....json => PMID_36446582_Gnazzo2020_P3.json} |   80 +-
 .../PMID_36446582_Gnazzo2020_P30.json         |  141 ++
 ...json => PMID_36446582_Gnazzo2020_P31.json} |   98 +-
 ....json => PMID_36446582_Gnazzo2020_P4.json} |   75 +-
 ....json => PMID_36446582_Gnazzo2020_P5.json} |   84 +-
 ....json => PMID_36446582_Gnazzo2020_P6.json} |   94 +-
 ....json => PMID_36446582_Gnazzo2020_P7.json} |   89 +-
 ....json => PMID_36446582_Gnazzo2020_P8.json} |   74 +-
 ....json => PMID_36446582_Gnazzo2020_P9.json} |   86 +-
 .../PMID_36446582_Gnazzo_2020_P29.json        |  163 --
 .../PMID_36446582_Gnazzo_2020_P30.json        |  185 ---
 .../PMID_36446582_Goldenberg2016_P1.json      |   78 +-
 .../PMID_36446582_Goldenberg2016_P10.json     |   79 +-
 .../PMID_36446582_Goldenberg2016_P11.json     |   54 +-
 .../PMID_36446582_Goldenberg2016_P12.json     |   74 +-
 .../PMID_36446582_Goldenberg2016_P13.json     |   59 +-
 .../PMID_36446582_Goldenberg2016_P14.json     |   54 +-
 .../PMID_36446582_Goldenberg2016_P15.json     |   49 +-
 .../PMID_36446582_Goldenberg2016_P16.json     |   49 +-
 .../PMID_36446582_Goldenberg2016_P17.json     |   64 +-
 .../PMID_36446582_Goldenberg2016_P18.json     |   78 +-
 .../PMID_36446582_Goldenberg2016_P19.json     |   82 +-
 .../PMID_36446582_Goldenberg2016_P2.json      |   78 +-
 .../PMID_36446582_Goldenberg2016_P20.json     |   73 +-
 .../PMID_36446582_Goldenberg2016_P21.json     |   87 +-
 .../PMID_36446582_Goldenberg2016_P22.json     |   92 +-
 .../PMID_36446582_Goldenberg2016_P23.json     |   66 +-
 .../PMID_36446582_Goldenberg2016_P24.json     |  108 +-
 .../PMID_36446582_Goldenberg2016_P25.json     |   78 +-
 .../PMID_36446582_Goldenberg2016_P26.json     |   65 +-
 .../PMID_36446582_Goldenberg2016_P27.json     |   64 +-
 .../PMID_36446582_Goldenberg2016_P28.json     |   88 +-
 .../PMID_36446582_Goldenberg2016_P29.json     |   89 +-
 .../PMID_36446582_Goldenberg2016_P3.json      |   61 +-
 .../PMID_36446582_Goldenberg2016_P30.json     |   75 +-
 .../PMID_36446582_Goldenberg2016_P31.json     |   47 +-
 .../PMID_36446582_Goldenberg2016_P32.json     |   96 +-
 .../PMID_36446582_Goldenberg2016_P33.json     |  103 +-
 .../PMID_36446582_Goldenberg2016_P34.json     |   54 +-
 .../PMID_36446582_Goldenberg2016_P35.json     |   60 +-
 .../PMID_36446582_Goldenberg2016_P36.json     |   74 +-
 .../PMID_36446582_Goldenberg2016_P38.json     |   55 +-
 .../PMID_36446582_Goldenberg2016_P39.json     |   53 +-
 .../PMID_36446582_Goldenberg2016_P4.json      |   70 +-
 .../PMID_36446582_Goldenberg2016_P5.json      |   87 +-
 .../PMID_36446582_Goldenberg2016_P6.json      |   72 +-
 .../PMID_36446582_Goldenberg2016_P7.json      |   84 +-
 .../PMID_36446582_Goldenberg2016_P8.json      |   72 +-
 .../PMID_36446582_Goldenberg2016_P9.json      |   62 +-
 .../PMID_36446582_Isrie2012_P1.json           |  153 ++
 .../PMID_36446582_Isrie2012_P2.json           |  154 ++
 .../PMID_36446582_Isrie_2012_P1.json          |  207 ---
 .../PMID_36446582_Isrie_2012_P2.json          |  208 ---
 ....json => PMID_36446582_JinKim2020_P1.json} |   81 +-
 ....json => PMID_36446582_JinKim2020_P2.json} |   87 +-
 .../KBG/phenopackets/PMID_36446582_KBG1.json  |  100 +-
 .../phenopackets/PMID_36446582_KBG10A.json    |   72 +-
 .../phenopackets/PMID_36446582_KBG10B.json    |  102 +-
 .../KBG/phenopackets/PMID_36446582_KBG11.json |  148 +-
 .../KBG/phenopackets/PMID_36446582_KBG12.json |  143 +-
 .../KBG/phenopackets/PMID_36446582_KBG13.json |  142 +-
 .../KBG/phenopackets/PMID_36446582_KBG14.json |  116 +-
 .../KBG/phenopackets/PMID_36446582_KBG15.json |  142 +-
 .../KBG/phenopackets/PMID_36446582_KBG16.json |  142 +-
 .../KBG/phenopackets/PMID_36446582_KBG17.json |  142 +-
 .../KBG/phenopackets/PMID_36446582_KBG18.json |  142 +-
 .../KBG/phenopackets/PMID_36446582_KBG19.json |  125 +-
 .../KBG/phenopackets/PMID_36446582_KBG2.json  |  101 +-
 .../KBG/phenopackets/PMID_36446582_KBG20.json |  130 +-
 .../KBG/phenopackets/PMID_36446582_KBG21.json |  139 +-
 .../KBG/phenopackets/PMID_36446582_KBG22.json |  163 +-
 .../KBG/phenopackets/PMID_36446582_KBG23.json |  181 +--
 .../KBG/phenopackets/PMID_36446582_KBG24.json |  122 +-
 .../KBG/phenopackets/PMID_36446582_KBG25.json |  179 +--
 .../KBG/phenopackets/PMID_36446582_KBG26.json |  160 +-
 .../KBG/phenopackets/PMID_36446582_KBG27.json |  136 +-
 .../KBG/phenopackets/PMID_36446582_KBG28.json |  148 +-
 .../KBG/phenopackets/PMID_36446582_KBG29.json |  152 +-
 .../KBG/phenopackets/PMID_36446582_KBG3.json  |   64 +-
 .../KBG/phenopackets/PMID_36446582_KBG30.json |  154 +-
 .../phenopackets/PMID_36446582_KBG31A.json    |  129 +-
 .../phenopackets/PMID_36446582_KBG31B.json    |   99 --
 .../KBG/phenopackets/PMID_36446582_KBG32.json |  131 +-
 .../KBG/phenopackets/PMID_36446582_KBG33.json |  132 +-
 .../KBG/phenopackets/PMID_36446582_KBG34.json |  106 +-
 .../KBG/phenopackets/PMID_36446582_KBG35.json |  111 +-
 .../KBG/phenopackets/PMID_36446582_KBG36.json |  107 +-
 .../KBG/phenopackets/PMID_36446582_KBG37.json |  125 +-
 .../KBG/phenopackets/PMID_36446582_KBG38.json |  144 +-
 .../KBG/phenopackets/PMID_36446582_KBG39.json |   68 +-
 .../KBG/phenopackets/PMID_36446582_KBG4.json  |  110 +-
 .../KBG/phenopackets/PMID_36446582_KBG40.json |   51 +-
 .../KBG/phenopackets/PMID_36446582_KBG41.json |   31 +-
 .../KBG/phenopackets/PMID_36446582_KBG42.json |  175 ---
 .../KBG/phenopackets/PMID_36446582_KBG43.json |   80 +-
 .../KBG/phenopackets/PMID_36446582_KBG44.json |  133 +-
 .../KBG/phenopackets/PMID_36446582_KBG45.json |  128 +-
 .../KBG/phenopackets/PMID_36446582_KBG46.json |  164 +-
 .../KBG/phenopackets/PMID_36446582_KBG47.json |  101 +-
 .../KBG/phenopackets/PMID_36446582_KBG48.json |  133 +-
 .../KBG/phenopackets/PMID_36446582_KBG49.json |  123 +-
 .../KBG/phenopackets/PMID_36446582_KBG5.json  |   33 +-
 .../KBG/phenopackets/PMID_36446582_KBG50.json |  132 +-
 .../KBG/phenopackets/PMID_36446582_KBG51.json |  145 +-
 .../KBG/phenopackets/PMID_36446582_KBG52.json |  147 +-
 .../KBG/phenopackets/PMID_36446582_KBG53.json |  143 +-
 .../KBG/phenopackets/PMID_36446582_KBG54.json |  114 +-
 .../KBG/phenopackets/PMID_36446582_KBG55.json |  132 +-
 .../KBG/phenopackets/PMID_36446582_KBG56.json |  152 +-
 .../KBG/phenopackets/PMID_36446582_KBG57.json |  156 +-
 .../KBG/phenopackets/PMID_36446582_KBG58.json |  166 +-
 .../KBG/phenopackets/PMID_36446582_KBG59.json |  133 +-
 .../KBG/phenopackets/PMID_36446582_KBG6.json  |  128 +-
 .../KBG/phenopackets/PMID_36446582_KBG62.json |  142 +-
 .../KBG/phenopackets/PMID_36446582_KBG63.json |  152 +-
 .../KBG/phenopackets/PMID_36446582_KBG64.json |   52 +-
 .../KBG/phenopackets/PMID_36446582_KBG65.json |  138 +-
 .../KBG/phenopackets/PMID_36446582_KBG66.json |  105 +-
 .../KBG/phenopackets/PMID_36446582_KBG7.json  |  148 +-
 .../KBG/phenopackets/PMID_36446582_KBG8A.json |  120 +-
 .../KBG/phenopackets/PMID_36446582_KBG8B.json |   94 +-
 .../KBG/phenopackets/PMID_36446582_KBG9.json  |  146 +-
 ...son => PMID_36446582_Khalifa2013_P1A.json} |  139 +-
 ...son => PMID_36446582_Khalifa2013_P1B.json} |  110 +-
 ..._P1.json => PMID_36446582_Kim2015_P1.json} |  100 +-
 ..._P2.json => PMID_36446582_Kim2015_P2.json} |  109 +-
 ..._P3.json => PMID_36446582_Kim2015_P3.json} |   85 +-
 ...16.json => PMID_36446582_Kleyner2016.json} |  108 +-
 ...36446582_Kutkowska-Kazmierczak2021_P1.json |   55 +-
 ...6446582_Kutkowska-Kazmierczak2021_P10.json |   77 +-
 ...6446582_Kutkowska-Kazmierczak2021_P11.json |   56 +-
 ...6446582_Kutkowska-Kazmierczak2021_P12.json |   67 +-
 ...6446582_Kutkowska-Kazmierczak2021_P13.json |   61 +-
 ...6446582_Kutkowska-Kazmierczak2021_P14.json |   74 +-
 ...6446582_Kutkowska-Kazmierczak2021_P15.json |   67 +-
 ...6446582_Kutkowska-Kazmierczak2021_P16.json |   76 +-
 ...6446582_Kutkowska-Kazmierczak2021_P17.json |  107 +-
 ...6446582_Kutkowska-Kazmierczak2021_P18.json |   74 +-
 ...6446582_Kutkowska-Kazmierczak2021_P19.json |   92 +-
 ...36446582_Kutkowska-Kazmierczak2021_P2.json |   62 +-
 ...6446582_Kutkowska-Kazmierczak2021_P20.json |   69 +-
 ...6446582_Kutkowska-Kazmierczak2021_P21.json |   72 +-
 ...6446582_Kutkowska-Kazmierczak2021_P22.json |   92 +-
 ...6446582_Kutkowska-Kazmierczak2021_P23.json |   93 +-
 ...36446582_Kutkowska-Kazmierczak2021_P3.json |   53 +-
 ...36446582_Kutkowska-Kazmierczak2021_P4.json |   73 +-
 ...36446582_Kutkowska-Kazmierczak2021_P5.json |   73 +-
 ...36446582_Kutkowska-Kazmierczak2021_P6.json |   80 +-
 ...36446582_Kutkowska-Kazmierczak2021_P7.json |   49 +-
 ...36446582_Kutkowska-Kazmierczak2021_P8.json |   72 +-
 ...36446582_Kutkowska-Kazmierczak2021_P9.json |   67 +-
 .../PMID_36446582_Libianto2019.json           |  100 +-
 .../phenopackets/PMID_36446582_Lim2014.json   |  123 +-
 ...).json => PMID_36446582_Low2016_3028.json} |   62 +-
 ...).json => PMID_36446582_Low2016_3129.json} |   63 +-
 ...).json => PMID_36446582_Low2016_3230.json} |   53 +-
 ...).json => PMID_36446582_Low2016_3331.json} |   66 +-
 ...).json => PMID_36446582_Low2016_3432.json} |   64 +-
 ....json => PMID_36446582_Low2016_P1018.json} |   64 +-
 ....json => PMID_36446582_Low2016_P1120.json} |   61 +-
 ...).json => PMID_36446582_Low2016_P119.json} |   66 +-
 ....json => PMID_36446582_Low2016_P1213.json} |   55 +-
 ....json => PMID_36446582_Low2016_P1327.json} |   69 +-
 ...).json => PMID_36446582_Low2016_P142.json} |   64 +-
 ...).json => PMID_36446582_Low2016_P153.json} |   66 +-
 ...).json => PMID_36446582_Low2016_P169.json} |   58 +-
 ....json => PMID_36446582_Low2016_P1710.json} |   75 +-
 ....json => PMID_36446582_Low2016_P1812.json} |   67 +-
 ....json => PMID_36446582_Low2016_P2014.json} |   66 +-
 ....json => PMID_36446582_Low2016_P2115.json} |   66 +-
 ....json => PMID_36446582_Low2016_P2216.json} |   66 +-
 ...).json => PMID_36446582_Low2016_P226.json} |   57 +-
 ....json => PMID_36446582_Low2016_P2317.json} |   56 +-
 ....json => PMID_36446582_Low2016_P2421.json} |   53 +-
 ....json => PMID_36446582_Low2016_P2522.json} |   53 +-
 ....json => PMID_36446582_Low2016_P2623.json} |   61 +-
 ....json => PMID_36446582_Low2016_P2724.json} |   64 +-
 ....json => PMID_36446582_Low2016_P2825.json} |   67 +-
 ....json => PMID_36446582_Low2016_P2927.json} |   64 +-
 ...4).json => PMID_36446582_Low2016_P34.json} |   53 +-
 ...5).json => PMID_36446582_Low2016_P45.json} |   64 +-
 ...6).json => PMID_36446582_Low2016_P56.json} |   64 +-
 ...7).json => PMID_36446582_Low2016_P67.json} |   55 +-
 .../PMID_36446582_Low2016_P78.json            |  136 ++
 ...).json => PMID_36446582_Low2016_P833.json} |   53 +-
 ...1).json => PMID_36446582_Low2016_P91.json} |   76 +-
 .../phenopackets/PMID_36446582_Low2017.json   |  106 +-
 .../PMID_36446582_Low_2016_P7_(8).json        |   87 --
 .../PMID_36446582_Mattei2021.json             |   89 +-
 .../PMID_36446582_Miyatake2013.json           |  175 +++
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 .../PMID_36446582_Miyatake_2013.json          |  244 ---
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 ...on => PMID_36446582_Murray2017_P1291.json} |   81 +-
 ...n => PMID_36446582_Murray2017_P13111.json} |   76 +-
 ...n => PMID_36446582_Murray2017_P16131.json} |   76 +-
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 ...son => PMID_36446582_Murray2017_P313.json} |   86 +-
 ...son => PMID_36446582_Murray2017_P421.json} |   87 +-
 ...son => PMID_36446582_Murray2017_P531.json} |  106 +-
 ...son => PMID_36446582_Murray2017_P632.json} |  109 +-
 ...son => PMID_36446582_Murray2017_P733.json} |   80 +-
 ...son => PMID_36446582_Murray2017_P841.json} |   86 +-
 ...son => PMID_36446582_Murray2017_P951.json} |  115 +-
 .../PMID_36446582_Novara2017_P1.json          |  160 ++
 .../PMID_36446582_Novara2017_P11.json         |  149 ++
 ...json => PMID_36446582_Novara2017_P12.json} |  100 +-
 .../PMID_36446582_Novara2017_P2.json          |  138 ++
 ....json => PMID_36446582_Novara2017_P3.json} |  105 +-
 ....json => PMID_36446582_Novara2017_P4.json} |  114 +-
 ....json => PMID_36446582_Novara2017_P5.json} |  107 +-
 ....json => PMID_36446582_Novara2017_P7.json} |   88 +-
 ....json => PMID_36446582_Novara2017_P8.json} |   70 +-
 ....json => PMID_36446582_Novara2017_P9.json} |   54 +-
 .../PMID_36446582_Novara_2017_P1.json         |  219 ---
 .../PMID_36446582_Novara_2017_P10.json        |  106 --
 .../PMID_36446582_Novara_2017_P11.json        |  198 ---
 .../PMID_36446582_Novara_2017_P2.json         |  177 ---
 .../PMID_36446582_Ockeloen2015_P1.json        |   68 +-
 .../PMID_36446582_Ockeloen2015_P10.json       |   61 +-
 .../PMID_36446582_Ockeloen2015_P11.json       |   71 +-
 .../PMID_36446582_Ockeloen2015_P12.json       |   72 +-
 .../PMID_36446582_Ockeloen2015_P13.json       |   61 +-
 .../PMID_36446582_Ockeloen2015_P14.json       |   87 +-
 .../PMID_36446582_Ockeloen2015_P15.json       |   66 +-
 .../PMID_36446582_Ockeloen2015_P16.json       |   63 +-
 .../PMID_36446582_Ockeloen2015_P17.json       |   76 +-
 .../PMID_36446582_Ockeloen2015_P18.json       |   61 +-
 .../PMID_36446582_Ockeloen2015_P19.json       |   61 +-
 .../PMID_36446582_Ockeloen2015_P2.json        |   73 +-
 .../PMID_36446582_Ockeloen2015_P20.json       |   97 +-
 .../PMID_36446582_Ockeloen2015_P3.json        |   81 +-
 .../PMID_36446582_Ockeloen2015_P4.json        |   95 +-
 .../PMID_36446582_Ockeloen2015_P5.json        |   66 +-
 .../PMID_36446582_Ockeloen2015_P6.json        |   66 +-
 .../PMID_36446582_Ockeloen2015_P7.json        |   45 +-
 .../PMID_36446582_Ockeloen2015_P8.json        |   90 +-
 .../PMID_36446582_Ockeloen2015_P9.json        |   76 +-
 .../PMID_36446582_Palumbo2016.json            |  150 ++
 .../PMID_36446582_Palumbo_2016.json           |  199 ---
 .../PMID_36446582_Parenti2016_P1.json         |  167 ++-
 .../PMID_36446582_Parenti2016_P2.json         |   85 +-
 .../PMID_36446582_Parenti2021_P1.json         |  117 +-
 .../PMID_36446582_Parenti2021_P10.json        |  112 +-
 .../PMID_36446582_Parenti2021_P11.json        |  116 +-
 .../PMID_36446582_Parenti2021_P12.json        |   89 +-
 .../PMID_36446582_Parenti2021_P13.json        |   75 +-
 .../PMID_36446582_Parenti2021_P14.json        |  101 +-
 .../PMID_36446582_Parenti2021_P15.json        |  106 +-
 .../PMID_36446582_Parenti2021_P16.json        |  102 +-
 .../PMID_36446582_Parenti2021_P17.json        |  116 +-
 .../PMID_36446582_Parenti2021_P18.json        |  104 +-
 .../PMID_36446582_Parenti2021_P19.json        |  125 +-
 .../PMID_36446582_Parenti2021_P2.json         |  111 +-
 .../PMID_36446582_Parenti2021_P20.json        |  101 +-
 .../PMID_36446582_Parenti2021_P21.json        |   94 +-
 .../PMID_36446582_Parenti2021_P22.json        |  132 +-
 .../PMID_36446582_Parenti2021_P23.json        |  103 +-
 .../PMID_36446582_Parenti2021_P3.json         |  108 +-
 .../PMID_36446582_Parenti2021_P4.json         |   99 +-
 .../PMID_36446582_Parenti2021_P5.json         |  111 +-
 .../PMID_36446582_Parenti2021_P6.json         |  108 +-
 .../PMID_36446582_Parenti2021_P7.json         |  109 +-
 .../PMID_36446582_Parenti2021_P8.json         |  121 +-
 .../PMID_36446582_Parenti2021_P9.json         |  110 +-
 .../PMID_36446582_Rentas2021_P1.json          |   58 +-
 .../PMID_36446582_Reuter2020.json             |   99 --
 .../PMID_36446582_Sacharow2012_P1.json        |  160 ++
 ...son => PMID_36446582_Sacharow2012_P2.json} |   68 +-
 .../PMID_36446582_Sacharow_2012_P1.json       |  219 ---
 ...1.json => PMID_36446582_Sayed2020_P1.json} |   99 +-
 ...2.json => PMID_36446582_Sayed2020_P2.json} |   85 +-
 ...json => PMID_36446582_Scarano2013_P1.json} |   81 +-
 .../PMID_36446582_Scarano2013_P10.json        |  142 ++
 .../PMID_36446582_Scarano2013_P11.json        |  147 ++
 ...son => PMID_36446582_Scarano2013_P12.json} |   96 +-
 ...json => PMID_36446582_Scarano2013_P2.json} |   57 +-
 ...json => PMID_36446582_Scarano2013_P3.json} |   71 +-
 ...json => PMID_36446582_Scarano2013_P4.json} |   76 +-
 ...json => PMID_36446582_Scarano2013_P5.json} |   76 +-
 ...json => PMID_36446582_Scarano2013_P6.json} |   76 +-
 ...json => PMID_36446582_Scarano2013_P7.json} |   71 +-
 ...json => PMID_36446582_Scarano2013_P8.json} |   74 +-
 ...json => PMID_36446582_Scarano2013_P9.json} |   76 +-
 .../PMID_36446582_Scarano_2013_P10.json       |  186 ---
 .../PMID_36446582_Scarano_2013_P11.json       |  196 ---
 ...011_P1F1previouslypublishedTekin2004.json} |   85 +-
 .../PMID_36446582_Sirmaci2011_P2.json         |   76 +-
 ...011_P2F1previouslypublishedTekin2004.json} |   95 +-
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 ...011_P3F1previouslypublishedTekin2004.json} |   85 +-
 ...11_P4previouslypublishedBrancati2004.json} |   81 +-
 .../PMID_36446582_Sirmaci2011_P5.json         |   76 +-
 ...3.json => PMID_36446582_Spengler2013.json} |  102 +-
 .../PMID_36446582_Srivastava2017_P1.json      |  148 ++
 .../PMID_36446582_Srivastava_2017_P1.json     |  186 ---
 .../PMID_36446582_VanDongen2019_P1.json       |   31 +-
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 .../PMID_36446582_VanDongen2019_P12.json      |   99 --
 .../PMID_36446582_VanDongen2019_P13.json      |   99 --
 .../PMID_36446582_VanDongen2019_P2.json       |   99 --
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 .../PMID_36446582_VanDongen2019_P4.json       |   99 --
 .../PMID_36446582_VanDongen2019_P5.json       |  106 --
 .../PMID_36446582_VanDongen2019_P6.json       |   31 +-
 .../PMID_36446582_VanDongen2019_P7.json       |  106 --
 .../PMID_36446582_VanDongen2019_P8.json       |   99 --
 .../PMID_36446582_VanDongen2019_P9.json       |   99 --
 .../PMID_36446582_Walz2015_PA.json            |   75 +-
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 .../PMID_36446582_Willemsen2010_P4.json       |   84 +-
 .../PMID_36446582_Youngs2011.json             |  113 +-
 358 files changed, 11885 insertions(+), 24093 deletions(-)
 delete mode 100644 notebooks/KBG/KBG_Martinez_PMID_36446582_CreatePhenopackets.ipynb
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diff --git a/notebooks/KBG/KBG_Martinez_PMID_36446582_CreatePhenopackets.ipynb b/notebooks/KBG/KBG_Martinez_PMID_36446582_CreatePhenopackets.ipynb
deleted file mode 100644
index 1cb67b35e..000000000
--- a/notebooks/KBG/KBG_Martinez_PMID_36446582_CreatePhenopackets.ipynb
+++ /dev/null
@@ -1,1330 +0,0 @@
-{
- "cells": [
-  {
-   "cell_type": "markdown",
-   "id": "5e60e1ea",
-   "metadata": {},
-   "source": [
-    "<h1>KBG Syndrome</h1>\n",
-    "<p>Data from <a href=\"https://pubmed.ncbi.nlm.nih.gov/36446582/\" target=\"__blank\">Martinez-Cayuelas E, et al. Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients. J Med Genet. 2022 Nov 29:jmedgenet-2022-108632. PMID: 36446582.</a>.</p>"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 1,
-   "id": "1cbf7b69",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "import os\n",
-    "import sys\n",
-    "import re\n",
-    "from collections import defaultdict\n",
-    "\n",
-    "import phenopackets as php\n",
-    "import pandas as pd\n",
-    "import numpy as np\n",
-    "\n",
-    "from google.protobuf.json_format import MessageToDict, MessageToJson\n",
-    "from google.protobuf.json_format import Parse, ParseDict\n",
-    "from pyliftover import LiftOver\n",
-    "from pyphetools.creation import *\n",
-    "\n",
-    "#sys.path.append('../')\n",
-    "pd.set_option('display.max_colwidth', None) # show entire column contents, important!"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 2,
-   "id": "1c2e2576",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "parser = HpoParser()\n",
-    "hpo_cr = parser.get_hpo_concept_recognizer()\n",
-    "hpo_version = parser.get_version()\n",
-    "metadata = MetaData(created_by=\"ORCID:0000-0003-2598-6622\")\n",
-    "metadata.default_versions_with_hpo(version=hpo_version)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 22,
-   "id": "fcc1c878",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "data = pd.read_excel('input/Martinez-KBG-SupplTable-340-v2.xlsx', dtype=str)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 23,
-   "id": "aa6fc7c3",
-   "metadata": {},
-   "outputs": [
-    {
-     "data": {
-      "text/plain": [
-       "Patient origin (1=our cohort; 2=literature)                                     object\n",
-       "Patient ID                                                                      object\n",
-       "Gender (1=male; 2=female)                                                       object\n",
-       "ID                                                                              object\n",
-       "ASD                                                                             object\n",
-       "ADHD                                                                            object\n",
-       "History of developmental delay (motor and language >18m)                        object\n",
-       "ID/ADHD/ASD                                                                     object\n",
-       "Macrodontia and/or other dental anomalies                                       object\n",
-       "Characteristic nose (anteverted, bulbous, and/or prominent)                     object\n",
-       "Triangular face                                                                 object\n",
-       "Characteristic eyebrows                                                         object\n",
-       "Long philtrum                                                                   object\n",
-       "Characteristic ears (large, prominent, and/or low-set)                          object\n",
-       "Hand anomalies (brachydactyly or clinodactyly)                                  object\n",
-       "Postnatal short stature <p10                                                    object\n",
-       "N comorbidities (N=7)                                                           object\n",
-       "Hearing Loss and/or otitis media                                                object\n",
-       "Other comorbidities (seizures, cardiopathy, visual, feeding, cryptorchydism)    object\n",
-       "Phenotypic score (columns F:P)                                                  object\n",
-       "Variant type (SNV vs CNV)                                                       object\n",
-       "Exon 9 (Yes/No)                                                                 object\n",
-       "c.1903_1907del;p.Lys635GInfs*26 (Yes/No)                                        object\n",
-       "Deletion size (CNV)                                                             object\n",
-       "Variant                                                                         object\n",
-       "dtype: object"
-      ]
-     },
-     "execution_count": 23,
-     "metadata": {},
-     "output_type": "execute_result"
-    }
-   ],
-   "source": [
-    "data.dtypes"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 4,
-   "id": "80654bf9",
-   "metadata": {},
-   "outputs": [
-    {
-     "data": {
-      "text/html": [
-       "<div>\n",
-       "<style scoped>\n",
-       "    .dataframe tbody tr th:only-of-type {\n",
-       "        vertical-align: middle;\n",
-       "    }\n",
-       "\n",
-       "    .dataframe tbody tr th {\n",
-       "        vertical-align: top;\n",
-       "    }\n",
-       "\n",
-       "    .dataframe thead th {\n",
-       "        text-align: right;\n",
-       "    }\n",
-       "</style>\n",
-       "<table border=\"1\" class=\"dataframe\">\n",
-       "  <thead>\n",
-       "    <tr style=\"text-align: right;\">\n",
-       "      <th></th>\n",
-       "      <th>Patient origin (1=our cohort; 2=literature)</th>\n",
-       "      <th>Patient ID</th>\n",
-       "      <th>Gender (1=male; 2=female)</th>\n",
-       "      <th>ID</th>\n",
-       "      <th>ASD</th>\n",
-       "      <th>ADHD</th>\n",
-       "      <th>History of developmental delay (motor and language &gt;18m)</th>\n",
-       "      <th>ID/ADHD/ASD</th>\n",
-       "      <th>Macrodontia and/or other dental anomalies</th>\n",
-       "      <th>Characteristic nose (anteverted, bulbous, and/or prominent)</th>\n",
-       "      <th>...</th>\n",
-       "      <th>Postnatal short stature &lt;p10</th>\n",
-       "      <th>N comorbidities (N=7)</th>\n",
-       "      <th>Hearing Loss and/or otitis media</th>\n",
-       "      <th>Other comorbidities (seizures, cardiopathy, visual, feeding, cryptorchydism)</th>\n",
-       "      <th>Phenotypic score (columns F:P)</th>\n",
-       "      <th>Variant type (SNV vs CNV)</th>\n",
-       "      <th>Exon 9 (Yes/No)</th>\n",
-       "      <th>c.1903_1907del;p.Lys635GInfs*26 (Yes/No)</th>\n",
-       "      <th>Deletion size (CNV)</th>\n",
-       "      <th>Variant</th>\n",
-       "    </tr>\n",
-       "  </thead>\n",
-       "  <tbody>\n",
-       "    <tr>\n",
-       "      <th>0</th>\n",
-       "      <td>1</td>\n",
-       "      <td>KBG1</td>\n",
-       "      <td>1</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>...</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>3</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>8</td>\n",
-       "      <td>CNV</td>\n",
-       "      <td>CNV</td>\n",
-       "      <td>CNV</td>\n",
-       "      <td>17000</td>\n",
-       "      <td>16q24.3(89336307_89354085)x1</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>1</th>\n",
-       "      <td>1</td>\n",
-       "      <td>KBG2</td>\n",
-       "      <td>1</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>No</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>...</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>1</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>4</td>\n",
-       "      <td>CNV</td>\n",
-       "      <td>CNV</td>\n",
-       "      <td>CNV</td>\n",
-       "      <td>250000</td>\n",
-       "      <td>16q24.3(89256478_89506223)x1</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>2</th>\n",
-       "      <td>1</td>\n",
-       "      <td>KBG3</td>\n",
-       "      <td>2</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>...</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>3</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>5</td>\n",
-       "      <td>SNV</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>No</td>\n",
-       "      <td>SNV</td>\n",
-       "      <td>c.2398_2401del;p.Glu800Asnfs*62</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>3</th>\n",
-       "      <td>1</td>\n",
-       "      <td>KBG4</td>\n",
-       "      <td>2</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>No</td>\n",
-       "      <td>...</td>\n",
-       "      <td>No</td>\n",
-       "      <td>1</td>\n",
-       "      <td>No</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>6</td>\n",
-       "      <td>SNV</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>No</td>\n",
-       "      <td>SNV</td>\n",
-       "      <td>c.7083del;p.Thr2362Profs*39</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>4</th>\n",
-       "      <td>1</td>\n",
-       "      <td>KBG5</td>\n",
-       "      <td>1</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>...</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>0</td>\n",
-       "      <td>SNV</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>Yes</td>\n",
-       "      <td>SNV</td>\n",
-       "      <td>c.1903_1907del;p.Lys635GInfs*26</td>\n",
-       "    </tr>\n",
-       "  </tbody>\n",
-       "</table>\n",
-       "<p>5 rows × 25 columns</p>\n",
-       "</div>"
-      ],
-      "text/plain": [
-       "  Patient origin (1=our cohort; 2=literature) Patient ID  \\\n",
-       "0                                           1       KBG1   \n",
-       "1                                           1       KBG2   \n",
-       "2                                           1       KBG3   \n",
-       "3                                           1       KBG4   \n",
-       "4                                           1       KBG5   \n",
-       "\n",
-       "  Gender (1=male; 2=female)   ID  ASD ADHD  \\\n",
-       "0                         1  Yes  NaN  NaN   \n",
-       "1                         1  Yes  NaN  NaN   \n",
-       "2                         2  NaN  NaN  NaN   \n",
-       "3                         2  Yes  NaN  NaN   \n",
-       "4                         1  NaN  NaN  NaN   \n",
-       "\n",
-       "  History of developmental delay (motor and language >18m) ID/ADHD/ASD  \\\n",
-       "0                                                      Yes         Yes   \n",
-       "1                                                       No         Yes   \n",
-       "2                                                      Yes         NaN   \n",
-       "3                                                      Yes         Yes   \n",
-       "4                                                      NaN         NaN   \n",
-       "\n",
-       "  Macrodontia and/or other dental anomalies  \\\n",
-       "0                                       NaN   \n",
-       "1                                       NaN   \n",
-       "2                                       NaN   \n",
-       "3                                       NaN   \n",
-       "4                                       NaN   \n",
-       "\n",
-       "  Characteristic nose (anteverted, bulbous, and/or prominent)  ...  \\\n",
-       "0                                                         NaN  ...   \n",
-       "1                                                         NaN  ...   \n",
-       "2                                                         NaN  ...   \n",
-       "3                                                          No  ...   \n",
-       "4                                                         NaN  ...   \n",
-       "\n",
-       "  Postnatal short stature <p10 N comorbidities (N=7)  \\\n",
-       "0                          NaN                     3   \n",
-       "1                          NaN                     1   \n",
-       "2                          NaN                     3   \n",
-       "3                           No                     1   \n",
-       "4                          NaN                   NaN   \n",
-       "\n",
-       "  Hearing Loss and/or otitis media  \\\n",
-       "0                              NaN   \n",
-       "1                              NaN   \n",
-       "2                              Yes   \n",
-       "3                               No   \n",
-       "4                              NaN   \n",
-       "\n",
-       "  Other comorbidities (seizures, cardiopathy, visual, feeding, cryptorchydism)  \\\n",
-       "0                                                                          Yes   \n",
-       "1                                                                          Yes   \n",
-       "2                                                                          Yes   \n",
-       "3                                                                          Yes   \n",
-       "4                                                                          NaN   \n",
-       "\n",
-       "  Phenotypic score (columns F:P) Variant type (SNV vs CNV) Exon 9 (Yes/No)  \\\n",
-       "0                              8                       CNV             CNV   \n",
-       "1                              4                       CNV             CNV   \n",
-       "2                              5                       SNV             Yes   \n",
-       "3                              6                       SNV             Yes   \n",
-       "4                              0                       SNV             Yes   \n",
-       "\n",
-       "  c.1903_1907del;p.Lys635GInfs*26 (Yes/No) Deletion size (CNV)  \\\n",
-       "0                                      CNV               17000   \n",
-       "1                                      CNV              250000   \n",
-       "2                                       No                 SNV   \n",
-       "3                                       No                 SNV   \n",
-       "4                                      Yes                 SNV   \n",
-       "\n",
-       "                           Variant  \n",
-       "0     16q24.3(89336307_89354085)x1  \n",
-       "1     16q24.3(89256478_89506223)x1  \n",
-       "2  c.2398_2401del;p.Glu800Asnfs*62  \n",
-       "3      c.7083del;p.Thr2362Profs*39  \n",
-       "4  c.1903_1907del;p.Lys635GInfs*26  \n",
-       "\n",
-       "[5 rows x 25 columns]"
-      ]
-     },
-     "execution_count": 4,
-     "metadata": {},
-     "output_type": "execute_result"
-    }
-   ],
-   "source": [
-    "data.head()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 5,
-   "id": "7a5f59e3",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "items = {\n",
-    "    'ID':['Intellectual disability','HP:0001249'],\n",
-    "    'ASD':['Autistic behavior','HP:0000729'],\n",
-    "    'ADHD':['Attention deficit hyperactivity disorder', 'HP:0007018'],\n",
-    "    'History of developmental delay (motor and language >18m)': ['Neurodevelopmental delay', 'HP:0012758'],\n",
-    "    'ID/ADHD/ASD':['Abnormality of higher mental function', 'HP:0011446'],\n",
-    "    'Macrodontia and/or other dental anomalies':['Abnormality of dental morphology', 'HP:0006482'],\n",
-    "    'Characteristic nose (anteverted, bulbous, and/or prominent)': ['Abnormal external nose morphology', 'HP:0010938'],\n",
-    "    'Triangular face': ['Triangular face', 'HP:0000325'],\n",
-    "    'Characteristic eyebrows': ['Abnormal eyebrow morphology', 'HP:0000534'],\n",
-    "    'Long philtrum': ['Long philtrum', 'HP:0000343'],\n",
-    "    'Characteristic ears (large, prominent, and/or low-set)': ['Abnormality of the outer ear', 'HP:0000356'],\n",
-    "    'Hand anomalies (brachydactyly or clinodactyly)': ['Abnormality of the hand', 'HP:0001155'],\n",
-    "    'Postnatal short stature <p10': ['Short stature', 'HP:0004322'],\n",
-    "    'Hearing Loss and/or otitis media': ['Hearing impairment', 'HP:0000365']\n",
-    "}"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 6,
-   "id": "2b1cc088",
-   "metadata": {},
-   "outputs": [
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "We created 14 simple column mappers\n"
-     ]
-    }
-   ],
-   "source": [
-    "column_mapper_d = defaultdict(ColumnMapper)\n",
-    "\n",
-    "item_column_mapper_d = hpo_cr.initialize_simple_column_maps(column_name_to_hpo_label_map=items, observed='Yes', excluded='No', non_measured='NA')\n",
-    "print(f\"We created {len(item_column_mapper_d)} simple column mappers\")\n",
-    "\n",
-    "for k, v in item_column_mapper_d.items():\n",
-    "    column_mapper_d[k] = v\n",
-    "\n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 7,
-   "id": "43a4c5e5",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "lift = LiftOver('hg19', 'hg38')"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 18,
-   "id": "854cbe51",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "count = 0\n",
-    "\n",
-    "#URL = \"https://rest.variantvalidator.org/VariantValidator/variantvalidator/%s/%s%%3A%s/%s?content-type=application%%2Fjson\"\n",
-    "\n",
-    "tempArray = []\n",
-    "for val in data['Variant']: \n",
-    "    want = re.findall(r'(.*);', str(val))\n",
-    "    if len(want) == 0:\n",
-    "        want = re.findall(r'.*\\((\\d*)[-|_](\\d*)\\)x.*', str(val))\n",
-    "        if len(want) == 0:\n",
-    "            finalWant = str(val)\n",
-    "        else:\n",
-    "            want = want[0] ## Double Check if this is 0-based or 1-based coordinates \n",
-    "            coord1 = want[0]\n",
-    "            coord2 = want[1]\n",
-    "            liftOut1 = lift.convert_coordinate(chromosome='chr16', position=int(coord1))\n",
-    "            liftOut2 = lift.convert_coordinate(chromosome='chr16', position=int(coord2))\n",
-    "            newCoord1 = str(liftOut1[0][1])\n",
-    "            newCoord2 = str(liftOut2[0][1])\n",
-    "            finalWant1 = re.sub(coord1, newCoord1, str(val))\n",
-    "            finalWant = re.sub(coord2, newCoord2, finalWant1)\n",
-    "    else:\n",
-    "        finalWant = want[0]\n",
-    "    tempArray.append(finalWant)\n",
-    "    count = count +1\n",
-    "\n",
-    "data['BetterVariants'] = tempArray\n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 19,
-   "id": "4c286889",
-   "metadata": {},
-   "outputs": [
-    {
-     "data": {
-      "text/plain": [
-       "0           16q24.3(89269899_89287677)x1\n",
-       "1           16q24.3(89190070_89439815)x1\n",
-       "2                         c.2398_2401del\n",
-       "3                              c.7083del\n",
-       "4                         c.1903_1907del\n",
-       "                     ...                \n",
-       "335         16q24.3(89056331_89434622)x1\n",
-       "336         16q24.3(89206684_89472351)x1\n",
-       "337    16q24.2-24.3(87464658_89530534)x1\n",
-       "338    16q24.2-24.3(88197355_89297194)x1\n",
-       "339         16q24.3(87886394-88066394)x1\n",
-       "Name: BetterVariants, Length: 340, dtype: object"
-      ]
-     },
-     "execution_count": 19,
-     "metadata": {},
-     "output_type": "execute_result"
-    }
-   ],
-   "source": [
-    "data['BetterVariants']"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 10,
-   "id": "ce167196",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "genome = 'hg38'\n",
-    "default_genotype = 'heterozygous'\n",
-    "transcript = 'NM_013275.6'\n",
-    "varMapper = VariantColumnMapper(assembly=genome,column_name='BetterVariants', \n",
-    "                                transcript=transcript, default_genotype=default_genotype, is_structural_symbol='CNV',\n",
-    "                               structure_column='Variant type (SNV vs CNV)')"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 11,
-   "id": "393dd538",
-   "metadata": {},
-   "outputs": [
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n"
-     ]
-    },
-    {
-     "data": {
-      "text/html": [
-       "<div>\n",
-       "<style scoped>\n",
-       "    .dataframe tbody tr th:only-of-type {\n",
-       "        vertical-align: middle;\n",
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-       "\n",
-       "    .dataframe tbody tr th {\n",
-       "        vertical-align: top;\n",
-       "    }\n",
-       "\n",
-       "    .dataframe thead th {\n",
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-       "    }\n",
-       "</style>\n",
-       "<table border=\"1\" class=\"dataframe\">\n",
-       "  <thead>\n",
-       "    <tr style=\"text-align: right;\">\n",
-       "      <th></th>\n",
-       "      <th>original column contents</th>\n",
-       "      <th>sex</th>\n",
-       "    </tr>\n",
-       "  </thead>\n",
-       "  <tbody>\n",
-       "    <tr>\n",
-       "      <th>0</th>\n",
-       "      <td>1</td>\n",
-       "      <td>MALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>1</th>\n",
-       "      <td>1</td>\n",
-       "      <td>MALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>2</th>\n",
-       "      <td>2</td>\n",
-       "      <td>FEMALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>3</th>\n",
-       "      <td>2</td>\n",
-       "      <td>FEMALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>4</th>\n",
-       "      <td>1</td>\n",
-       "      <td>MALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>...</th>\n",
-       "      <td>...</td>\n",
-       "      <td>...</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>335</th>\n",
-       "      <td>1</td>\n",
-       "      <td>MALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>336</th>\n",
-       "      <td>1</td>\n",
-       "      <td>MALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>337</th>\n",
-       "      <td>1</td>\n",
-       "      <td>MALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>338</th>\n",
-       "      <td>1</td>\n",
-       "      <td>MALE</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>339</th>\n",
-       "      <td>1</td>\n",
-       "      <td>MALE</td>\n",
-       "    </tr>\n",
-       "  </tbody>\n",
-       "</table>\n",
-       "<p>340 rows × 2 columns</p>\n",
-       "</div>"
-      ],
-      "text/plain": [
-       "    original column contents     sex\n",
-       "0                          1    MALE\n",
-       "1                          1    MALE\n",
-       "2                          2  FEMALE\n",
-       "3                          2  FEMALE\n",
-       "4                          1    MALE\n",
-       "..                       ...     ...\n",
-       "335                        1    MALE\n",
-       "336                        1    MALE\n",
-       "337                        1    MALE\n",
-       "338                        1    MALE\n",
-       "339                        1    MALE\n",
-       "\n",
-       "[340 rows x 2 columns]"
-      ]
-     },
-     "execution_count": 11,
-     "metadata": {},
-     "output_type": "execute_result"
-    }
-   ],
-   "source": [
-    "sexMapper = SexColumnMapper(male_symbol='1', female_symbol='2', unknown_symbol='NA', column_name='Gender (1=male; 2=female)')\n",
-    "ageMapper = AgeColumnMapper.by_year('Patient origin (1=our cohort; 2=literature)')\n",
-    "sexMapper.preview_column(data['Gender (1=male; 2=female)'])"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 12,
-   "id": "9abf177a",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "individual_colname = 'Patient ID'\n",
-    "pmid = 'PMID:36446582'"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 13,
-   "id": "560b1f68",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "encoder = CohortEncoder(df=data, hpo_cr=hpo_cr, column_mapper_d=column_mapper_d, \n",
-    "                          individual_column_name=individual_colname,\n",
-    "                            sexmapper=sexMapper,\n",
-    "                        agemapper=ageMapper,\n",
-    "                            variant_mapper=varMapper,\n",
-    "                        metadata=metadata,\n",
-    "                       pmid=pmid, )"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 14,
-   "id": "d3cc6844",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "encoder.set_disease(disease_id='OMIM:148050', label='KBG syndrome')"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 15,
-   "id": "bd4db71e",
-   "metadata": {},
-   "outputs": [
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n",
-      "Could not map sex symbol nan\n"
-     ]
-    },
-    {
-     "data": {
-      "text/html": [
-       "<div>\n",
-       "<style scoped>\n",
-       "    .dataframe tbody tr th:only-of-type {\n",
-       "        vertical-align: middle;\n",
-       "    }\n",
-       "\n",
-       "    .dataframe tbody tr th {\n",
-       "        vertical-align: top;\n",
-       "    }\n",
-       "\n",
-       "    .dataframe thead th {\n",
-       "        text-align: right;\n",
-       "    }\n",
-       "</style>\n",
-       "<table border=\"1\" class=\"dataframe\">\n",
-       "  <thead>\n",
-       "    <tr style=\"text-align: right;\">\n",
-       "      <th></th>\n",
-       "      <th>sex</th>\n",
-       "      <th>age</th>\n",
-       "      <th>phenotypic features</th>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>id</th>\n",
-       "      <th></th>\n",
-       "      <th></th>\n",
-       "      <th></th>\n",
-       "    </tr>\n",
-       "  </thead>\n",
-       "  <tbody>\n",
-       "    <tr>\n",
-       "      <th>KBG1</th>\n",
-       "      <td>MALE</td>\n",
-       "      <td>P1Y</td>\n",
-       "      <td>Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nTriangular face (HP:0000325)\\nAbnormal eyebrow morphology (HP:0000534)\\nLong philtrum (HP:0000343)\\nexcluded: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>KBG2</th>\n",
-       "      <td>MALE</td>\n",
-       "      <td>P1Y</td>\n",
-       "      <td>Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nexcluded: Neurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nTriangular face (HP:0000325)\\nAbnormal eyebrow morphology (HP:0000534)\\nexcluded: Long philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>KBG3</th>\n",
-       "      <td>FEMALE</td>\n",
-       "      <td>P1Y</td>\n",
-       "      <td>not measured: Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nnot measured: Abnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nAbnormal eyebrow morphology (HP:0000534)\\nexcluded: Long philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nHearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>KBG4</th>\n",
-       "      <td>FEMALE</td>\n",
-       "      <td>P1Y</td>\n",
-       "      <td>Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nexcluded: Abnormal external nose morphology (HP:0010938)\\nTriangular face (HP:0000325)\\nAbnormal eyebrow morphology (HP:0000534)\\nLong philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nexcluded: Abnormality of the hand (HP:0001155)\\nexcluded: Short stature (HP:0004322)\\nexcluded: Hearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>KBG5</th>\n",
-       "      <td>MALE</td>\n",
-       "      <td>P1Y</td>\n",
-       "      <td>not measured: Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nnot measured: Neurodevelopmental delay (HP:0012758)\\nnot measured: Abnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nexcluded: Long philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>...</th>\n",
-       "      <td>...</td>\n",
-       "      <td>...</td>\n",
-       "      <td>...</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>Willemsen2010_P1</th>\n",
-       "      <td>MALE</td>\n",
-       "      <td>P2Y</td>\n",
-       "      <td>Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nnot measured: Neurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nexcluded: Triangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nAbnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nShort stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>Willemsen2010_P2</th>\n",
-       "      <td>MALE</td>\n",
-       "      <td>P2Y</td>\n",
-       "      <td>Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nnot measured: Neurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nexcluded: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nexcluded: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>Willemsen2010_P3</th>\n",
-       "      <td>MALE</td>\n",
-       "      <td>P2Y</td>\n",
-       "      <td>Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nexcluded: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nexcluded: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nHearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>Willemsen2010_P4</th>\n",
-       "      <td>MALE</td>\n",
-       "      <td>P2Y</td>\n",
-       "      <td>Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nnot measured: Neurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nexcluded: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nexcluded: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>Youngs2011</th>\n",
-       "      <td>MALE</td>\n",
-       "      <td>P2Y</td>\n",
-       "      <td>Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nAttention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nAbnormality of dental morphology (HP:0006482)\\nAbnormal external nose morphology (HP:0010938)\\nTriangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nShort stature (HP:0004322)\\nHearing impairment (HP:0000365)</td>\n",
-       "    </tr>\n",
-       "  </tbody>\n",
-       "</table>\n",
-       "<p>340 rows × 3 columns</p>\n",
-       "</div>"
-      ],
-      "text/plain": [
-       "                     sex  age  \\\n",
-       "id                              \n",
-       "KBG1                MALE  P1Y   \n",
-       "KBG2                MALE  P1Y   \n",
-       "KBG3              FEMALE  P1Y   \n",
-       "KBG4              FEMALE  P1Y   \n",
-       "KBG5                MALE  P1Y   \n",
-       "...                  ...  ...   \n",
-       "Willemsen2010_P1    MALE  P2Y   \n",
-       "Willemsen2010_P2    MALE  P2Y   \n",
-       "Willemsen2010_P3    MALE  P2Y   \n",
-       "Willemsen2010_P4    MALE  P2Y   \n",
-       "Youngs2011          MALE  P2Y   \n",
-       "\n",
-       "                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      phenotypic features  \n",
-       "id                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         \n",
-       "KBG1                                                                                                  Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nTriangular face (HP:0000325)\\nAbnormal eyebrow morphology (HP:0000534)\\nLong philtrum (HP:0000343)\\nexcluded: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)  \n",
-       "KBG2                                                                          Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nexcluded: Neurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nTriangular face (HP:0000325)\\nAbnormal eyebrow morphology (HP:0000534)\\nexcluded: Long philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)  \n",
-       "KBG3                                                        not measured: Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nnot measured: Abnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nAbnormal eyebrow morphology (HP:0000534)\\nexcluded: Long philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nHearing impairment (HP:0000365)  \n",
-       "KBG4                                                                                                              Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nexcluded: Abnormal external nose morphology (HP:0010938)\\nTriangular face (HP:0000325)\\nAbnormal eyebrow morphology (HP:0000534)\\nLong philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nexcluded: Abnormality of the hand (HP:0001155)\\nexcluded: Short stature (HP:0004322)\\nexcluded: Hearing impairment (HP:0000365)  \n",
-       "KBG5              not measured: Intellectual disability (HP:0001249)\\nnot measured: Autistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nnot measured: Neurodevelopmental delay (HP:0012758)\\nnot measured: Abnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nexcluded: Long philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)  \n",
-       "...                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   ...  \n",
-       "Willemsen2010_P1                                                                        Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nnot measured: Neurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nexcluded: Triangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nAbnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nShort stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)  \n",
-       "Willemsen2010_P2                                                Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nnot measured: Neurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nexcluded: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nexcluded: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)  \n",
-       "Willemsen2010_P3                                                                            Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nexcluded: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nexcluded: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nnot measured: Short stature (HP:0004322)\\nHearing impairment (HP:0000365)  \n",
-       "Willemsen2010_P4                                                Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nnot measured: Attention deficit hyperactivity disorder (HP:0007018)\\nnot measured: Neurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nnot measured: Abnormality of dental morphology (HP:0006482)\\nnot measured: Abnormal external nose morphology (HP:0010938)\\nnot measured: Triangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nexcluded: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nexcluded: Short stature (HP:0004322)\\nnot measured: Hearing impairment (HP:0000365)  \n",
-       "Youngs2011                                                                                                                                                Intellectual disability (HP:0001249)\\nAutistic behavior (HP:0000729)\\nAttention deficit hyperactivity disorder (HP:0007018)\\nNeurodevelopmental delay (HP:0012758)\\nAbnormality of higher mental function (HP:0011446)\\nAbnormality of dental morphology (HP:0006482)\\nAbnormal external nose morphology (HP:0010938)\\nTriangular face (HP:0000325)\\nnot measured: Abnormal eyebrow morphology (HP:0000534)\\nnot measured: Long philtrum (HP:0000343)\\nnot measured: Abnormality of the outer ear (HP:0000356)\\nnot measured: Abnormality of the hand (HP:0001155)\\nShort stature (HP:0004322)\\nHearing impairment (HP:0000365)  \n",
-       "\n",
-       "[340 rows x 3 columns]"
-      ]
-     },
-     "execution_count": 15,
-     "metadata": {},
-     "output_type": "execute_result"
-    }
-   ],
-   "source": [
-    "encoder.preview_dataframe()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 16,
-   "id": "788499bd",
-   "metadata": {},
-   "outputs": [
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2398_2401del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7083del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7407C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6691dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3590_3594del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3590_3594del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6792dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6792dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3193A>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3309dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1381_1384del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2765_2766del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.548_551del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.831del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3046del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3905_3906del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4384dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1731dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1940_1941delinsT/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7180C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7570_7572del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6682del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.227G>A/NM_013275.6?content-type=application%2Fjson\n",
-      "Not able to get variant for c.227G>A: Expecting to get a gene_variant from Variant Validator but got warning\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1367_1370del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5790C>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2593dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1846G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.520C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6701del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2367del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2197C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7834G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7834G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3448C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4171C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3931C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4384dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7534C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3334del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6792dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2329_2332del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5790C>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6968_6975del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2329_2332del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6628G>T/NM_013275.6?content-type=application%2Fjson\n"
-     ]
-    },
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7753C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6792dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4529dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3704_3707del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.866dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5145C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3224_3227del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4528_4529del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1285_1286del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2398_2401del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3019C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3180dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3309dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3770_3771del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4107_4108del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4374_4375del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4389_4390del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1385_1388del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4498C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5146G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5205del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5712_5713insT/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6513dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7000C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7192C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7216C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7416C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1457C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1977C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1977C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2175_2178del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2175_2178del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2197C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1120G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3198_3199del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1381_1384del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1381_1384del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n"
-     ]
-    },
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3774_3775del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2647G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6792dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6766C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1367_1370del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4087C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4786G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.867C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1893dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1381_1384del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3153del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3045del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2398_2401del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5889del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3310dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2395_2398del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2395_2398del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2395_2398del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6015dup/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3295_3296del/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3771dup/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1385_1388del/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6053_6057del/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7607G>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4558del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2395A>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1389dup/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7552C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2828_2829del/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6340C>T/NM_013275.6?content-type=application%2Fjson\n"
-     ]
-    },
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3045del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4408A>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2182_2183del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2182_2183del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2182_2183del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2512C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2398_2401del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5426_5430del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5274dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3437_3461del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1381_1384del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4103_4104del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7362del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3208_3209del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4177_4189del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3582del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3704_3707del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4206C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5199_5227del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6364_6367del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1801C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "Not able to get variant for c.1903_1907del: HTTPSConnectionPool(host='rest.variantvalidator.org', port=443): Max retries exceeded with url: /VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson (Caused by SSLError(SSLEOFError(8, 'EOF occurred in violation of protocol (_ssl.c:997)')))\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7471-1G>C/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3224_3227del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6187G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7471A>C/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6409_6410del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3224_3227del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7216C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6472G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.505G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4406G>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4406G>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4406G>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1173C>G/NM_013275.6?content-type=application%2Fjson\n"
-     ]
-    },
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7481dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3832A>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3832A>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3832A>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2751dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3382_3383del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6513dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1318C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1318C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7481dup/NM_013275.6?content-type=application%2Fjson\n",
-      "Could not map sex symbol nan\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7481dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7481dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7481dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4391_4392del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6184del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3123_3126del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1460_1463del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5483G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "Not able to get variant for c.5483G>T: Expecting to get a gene_variant from Variant Validator but got warning\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2297_2300del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.915delA/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4218C>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4087C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7470+2T>C/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1381_1384del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3888dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3591_3594del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1381_1384del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1711_1723del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5123C>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1381_1384del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1977C>G/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2398_2401del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2408_2412del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2692C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7356dupC/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7411_7422del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.211_226+1del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5238_5239del/NM_013275.6?content-type=application%2Fjson\n"
-     ]
-    },
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5488G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5488G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2197C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3221_3222del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5957_5958del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3974del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3222dup/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2866G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7534C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2650del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3339G>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7570-1G>C/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2305del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7570-1G>C/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7189C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7570-1G>C/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5953_5954del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6071_6084del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1763C>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.3460G>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2092_2096del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.5162C>T/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7607G>C/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4964_4965del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2398_2401del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2175_2178del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2372del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1785_1786delGCinsTT/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.1903_1907del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.2130del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.4283_4286del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.6817_6833del/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/variantvalidator/hg38/NM_013275.6%3Ac.7535G>A/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "https://rest.variantvalidator.org/VariantValidator/tools/gene2transcripts/NM_013275.6?content-type=application%2Fjson\n",
-      "Wrote 340 phenopackets to phenopackets\n"
-     ]
-    }
-   ],
-   "source": [
-    "encoder.output_phenopackets(outdir='phenopackets')"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "a29941f9",
-   "metadata": {},
-   "outputs": [],
-   "source": []
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "4053abdd",
-   "metadata": {},
-   "outputs": [],
-   "source": []
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "181d0e20",
-   "metadata": {},
-   "outputs": [],
-   "source": []
-  }
- ],
- "metadata": {
-  "kernelspec": {
-   "display_name": "enviro",
-   "language": "python",
-   "name": "enviro"
-  },
-  "language_info": {
-   "codemirror_mode": {
-    "name": "ipython",
-    "version": 3
-   },
-   "file_extension": ".py",
-   "mimetype": "text/x-python",
-   "name": "python",
-   "nbconvert_exporter": "python",
-   "pygments_lexer": "ipython3",
-   "version": "3.10.10"
-  }
- },
- "nbformat": 4,
- "nbformat_minor": 5
-}
diff --git a/notebooks/KBG/input/Martinez-KBG-SupplTable-340-v2.xlsx b/notebooks/KBG/input/Martinez-KBG-SupplTable-340-v2.xlsx
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diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Alves_2019.json b/notebooks/KBG/phenopackets/PMID_36446582_Alves2019.json
similarity index 77%
rename from notebooks/KBG/phenopackets/PMID_36446582_Alves_2019.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Alves2019.json
index 2a65ef8be..68e292376 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Alves_2019.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Alves2019.json
@@ -1,5 +1,5 @@
 {
-  "id": "Alves, 2019",
+  "id": "PMID_36446582_Alves,_2019",
   "subject": {
     "id": "Alves, 2019",
     "timeAtLastEncounter": {
@@ -12,46 +12,26 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -70,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_rINdzLNehXDQccIlUhmVIRVBW",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -104,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.880573034Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -131,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Behnert2018.json b/notebooks/KBG/phenopackets/PMID_36446582_Behnert2018.json
new file mode 100644
index 000000000..f6fed2ce3
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Behnert2018.json
@@ -0,0 +1,173 @@
+{
+  "id": "PMID_36446582_Behnert,_2018",
+  "subject": {
+    "id": "Behnert, 2018",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Behnert, 2018",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Behnert, 2018",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_GntpvqcrHznGBFoutpNQVGWmu",
+                "label": "16q24.3(88854757_89577705)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:35.892725944Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Behnert_2018.json b/notebooks/KBG/phenopackets/PMID_36446582_Behnert_2018.json
deleted file mode 100644
index d14e8e517..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Behnert_2018.json
+++ /dev/null
@@ -1,242 +0,0 @@
-{
-  "id": "Behnert, 2018",
-  "subject": {
-    "id": "Behnert, 2018",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Behnert, 2018",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Behnert, 2018",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88788349"
-                          },
-                          "endNumber": {
-                            "value": "89511297"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(88788349_89511297)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Bianchi_2018.json b/notebooks/KBG/phenopackets/PMID_36446582_Bianchi2018.json
similarity index 69%
rename from notebooks/KBG/phenopackets/PMID_36446582_Bianchi_2018.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Bianchi2018.json
index da1bdd66a..85f4f948d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Bianchi_2018.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Bianchi2018.json
@@ -1,5 +1,5 @@
 {
-  "id": "Bianchi, 2018",
+  "id": "PMID_36446582_Bianchi,_2018",
   "subject": {
     "id": "Bianchi, 2018",
     "timeAtLastEncounter": {
@@ -14,124 +14,63 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -149,6 +88,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -183,8 +123,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.911002159Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -210,15 +150,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Bucerzan2020.json b/notebooks/KBG/phenopackets/PMID_36446582_Bucerzan2020.json
index 299294706..c41794a0b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Bucerzan2020.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Bucerzan2020.json
@@ -1,5 +1,5 @@
 {
-  "id": "Bucerzan2020",
+  "id": "PMID_36446582_Bucerzan2020",
   "subject": {
     "id": "Bucerzan2020",
     "timeAtLastEncounter": {
@@ -14,110 +14,54 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -136,34 +80,16 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89476287"
-                          },
-                          "endNumber": {
-                            "value": "89589843"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "3"
-                    }
-                  }
-                },
-                "description": "16q24.3(89476287_89589843)x3",
+                "id": "var_hdNWxZxSgczfCdiKMZNskODmr",
+                "label": "16q24.3(89542695_89656251)x3 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
+                  "id": "SO:1000037",
+                  "label": "chromosomal_duplication"
                 },
                 "allelicState": {
                   "id": "GENO:0000135",
@@ -177,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.918170928Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -204,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P1.json
index d244845b2..23983aecc 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Crippa2015_P1",
+  "id": "PMID_36446582_Crippa2015_P1",
   "subject": {
     "id": "Crippa2015_P1",
     "timeAtLastEncounter": {
@@ -14,110 +14,54 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -136,34 +80,16 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89284523"
-                          },
-                          "endNumber": {
-                            "value": "89373231"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "3"
-                    }
-                  }
-                },
-                "description": "16q24.3(89284523_89373231)x3",
+                "id": "var_pLyTLmGnnIWmyufZSuiGjlLNh",
+                "label": "16q24.3(89350931_89439639)x3 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
+                  "id": "SO:1000037",
+                  "label": "chromosomal_duplication"
                 },
                 "allelicState": {
                   "id": "GENO:0000135",
@@ -177,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.931535959Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -204,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P2.json
index 3aeefd314..f6b2ab4cc 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Crippa2015_P2",
+  "id": "PMID_36446582_Crippa2015_P2",
   "subject": {
     "id": "Crippa2015_P2",
     "timeAtLastEncounter": {
@@ -14,110 +14,54 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -136,34 +80,16 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89284523"
-                          },
-                          "endNumber": {
-                            "value": "89373231"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "3"
-                    }
-                  }
-                },
-                "description": "16q24.3(89284523_89373231)x3",
+                "id": "var_pLyTLmGnnIWmyufZSuiGjlLNh",
+                "label": "16q24.3(89350931_89439639)x3 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
+                  "id": "SO:1000037",
+                  "label": "chromosomal_duplication"
                 },
                 "allelicState": {
                   "id": "GENO:0000135",
@@ -177,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.939104080Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -204,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P3.json
index 1a5dc7218..08e423c80 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Crippa2015_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Crippa2015_P3",
+  "id": "PMID_36446582_Crippa2015_P3",
   "subject": {
     "id": "Crippa2015_P3",
     "timeAtLastEncounter": {
@@ -12,79 +12,44 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,34 +68,16 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89284523"
-                          },
-                          "endNumber": {
-                            "value": "89373231"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "3"
-                    }
-                  }
-                },
-                "description": "16q24.3(89284523_89373231)x3",
+                "id": "var_pLyTLmGnnIWmyufZSuiGjlLNh",
+                "label": "16q24.3(89350931_89439639)x3 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
+                  "id": "SO:1000037",
+                  "label": "chromosomal_duplication"
                 },
                 "allelicState": {
                   "id": "GENO:0000135",
@@ -144,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.954733133Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -171,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Cucco_2020_(Patient_B).json b/notebooks/KBG/phenopackets/PMID_36446582_Cucco2020PatientB.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Cucco_2020_(Patient_B).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Cucco2020PatientB.json
index 4345e48f2..4d5aff749 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Cucco_2020_(Patient_B).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Cucco2020PatientB.json
@@ -1,5 +1,5 @@
 {
-  "id": "Cucco, 2020 (Patient B)",
+  "id": "PMID_36446582_Cucco,_2020_(Patient_B)",
   "subject": {
     "id": "Cucco, 2020 (Patient B)",
     "timeAtLastEncounter": {
@@ -14,102 +14,51 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -127,6 +76,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_HQjwVnWbzvVEdGzBPwfqKfTCA",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -161,8 +111,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.967099905Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -188,15 +138,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_DeBernardi2018.json b/notebooks/KBG/phenopackets/PMID_36446582_DeBernardi2018.json
index eb2e83b25..50ace47b2 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_DeBernardi2018.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_DeBernardi2018.json
@@ -1,5 +1,5 @@
 {
-  "id": "DeBernardi2018",
+  "id": "PMID_36446582_DeBernardi2018",
   "subject": {
     "id": "DeBernardi2018",
     "timeAtLastEncounter": {
@@ -14,132 +14,66 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -158,6 +92,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_WbpLZvCBmaMGpkPvTAEgZHFxV",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -192,8 +127,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.973618984Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -219,15 +154,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P1.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P1.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P1.json
index 125b72517..72b868030 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P1",
+  "id": "PMID_36446582_Gnazzo,_2020_P1",
   "subject": {
     "id": "Gnazzo, 2020_P1",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ajbzFpHgnYebbtGwkNhVZLaHv",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.981895923Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P10.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P10.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P10.json
index 8676a9933..bea514cf9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P10.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P10.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P10",
+  "id": "PMID_36446582_Gnazzo,_2020_P10",
   "subject": {
     "id": "Gnazzo, 2020_P10",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_mpcOPrcBerHpzPWeOvlXUFtzx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.987694025Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P11.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P11.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P11.json
index 0c76ae404..882987d0a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P11.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P11.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P11",
+  "id": "PMID_36446582_Gnazzo,_2020_P11",
   "subject": {
     "id": "Gnazzo, 2020_P11",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.995351076Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P12.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P12.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P12.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P12.json
index def7d83e6..490088621 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P12.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P12.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P12",
+  "id": "PMID_36446582_Gnazzo,_2020_P12",
   "subject": {
     "id": "Gnazzo, 2020_P12",
     "timeAtLastEncounter": {
@@ -14,90 +14,44 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -115,6 +69,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_AiVEMYHFvAPHxgbrYLIkHdGAb",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -149,8 +104,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.005057096Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -176,15 +131,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P13.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P13.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P13.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P13.json
index 5276f822d..dffff9813 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P13.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P13.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P13",
+  "id": "PMID_36446582_Gnazzo,_2020_P13",
   "subject": {
     "id": "Gnazzo, 2020_P13",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gWgndtYFiWurXMRCRSxqwkbjd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.010389089Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P14.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P14.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P14.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P14.json
index 77a1736a0..4b1efebae 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P14.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P14.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P14",
+  "id": "PMID_36446582_Gnazzo,_2020_P14",
   "subject": {
     "id": "Gnazzo, 2020_P14",
     "timeAtLastEncounter": {
@@ -14,80 +14,39 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,6 +64,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_xRQicepTDYuGNRzzbgresFWVB",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -139,8 +99,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.015227794Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -166,15 +126,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P15.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P15.json
similarity index 70%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P15.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P15.json
index e2853b168..866cd9111 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P15.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P15.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P15",
+  "id": "PMID_36446582_Gnazzo,_2020_P15",
   "subject": {
     "id": "Gnazzo, 2020_P15",
     "timeAtLastEncounter": {
@@ -12,106 +12,54 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -129,6 +77,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_FWQugvRMEcSIWtsTrDhHuPgTd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -163,8 +112,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.020805120Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -190,15 +139,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P16.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P16.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P16.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P16.json
index b2ef3adcd..f68a8a93d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P16.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P16.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P16",
+  "id": "PMID_36446582_Gnazzo,_2020_P16",
   "subject": {
     "id": "Gnazzo, 2020_P16",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_PbyGjseeDuSASToxugckKeYgn",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.032566070Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P17.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P17.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P17.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P17.json
index a2e25de80..325b0f653 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P17.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P17.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P17",
+  "id": "PMID_36446582_Gnazzo,_2020_P17",
   "subject": {
     "id": "Gnazzo, 2020_P17",
     "timeAtLastEncounter": {
@@ -10,62 +10,37 @@
     "sex": "FEMALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -83,6 +58,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_wVhTQAEpXGFVOiceVtSVWVopx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -117,8 +93,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.038545846Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -144,15 +120,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P18.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P18.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P18.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P18.json
index b654bdd92..07bffe4a0 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P18.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P18.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P18",
+  "id": "PMID_36446582_Gnazzo,_2020_P18",
   "subject": {
     "id": "Gnazzo, 2020_P18",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_TYMvjetMhOKYQqyAIXwpxFpel",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.044794797Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P19.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P19.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P19.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P19.json
index 56391d897..6c22db36d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P19.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P19.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P19",
+  "id": "PMID_36446582_Gnazzo,_2020_P19",
   "subject": {
     "id": "Gnazzo, 2020_P19",
     "timeAtLastEncounter": {
@@ -14,91 +14,45 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -116,6 +70,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_qFFVNNUHzecbKwMMBwYVUWrYo",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -150,8 +105,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.051290988Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -177,15 +132,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P2.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P2.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P2.json
index 10c1997a1..83ac71e86 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P2",
+  "id": "PMID_36446582_Gnazzo,_2020_P2",
   "subject": {
     "id": "Gnazzo, 2020_P2",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_JlnDiPpDxemiPrURywqJIuSfd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.057837963Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P20.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P20.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P20.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P20.json
index adbb78b05..7b7927f0a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P20.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P20.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P20",
+  "id": "PMID_36446582_Gnazzo,_2020_P20",
   "subject": {
     "id": "Gnazzo, 2020_P20",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_vbbmVgDTYrffJjvHmMqjubMNM",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.071007966Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P21.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P21.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P21.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P21.json
index 08c32e4cb..924aff66e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P21.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P21.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P21",
+  "id": "PMID_36446582_Gnazzo,_2020_P21",
   "subject": {
     "id": "Gnazzo, 2020_P21",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_KnxNVGksVKycYccBqmJGzuYlE",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.078060150Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P22.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P22.json
similarity index 73%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P22.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P22.json
index 362d6db62..1c91a7738 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P22.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P22.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P22",
+  "id": "PMID_36446582_Gnazzo,_2020_P22",
   "subject": {
     "id": "Gnazzo, 2020_P22",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_NEVUyuKLxArIjaamtTSCPIkif",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.086039066Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P23.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P23.json
similarity index 73%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P23.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P23.json
index 63ac3f172..db6e07872 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P23.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P23.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P23",
+  "id": "PMID_36446582_Gnazzo,_2020_P23",
   "subject": {
     "id": "Gnazzo, 2020_P23",
     "timeAtLastEncounter": {
@@ -12,83 +12,41 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -106,6 +64,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_uKDTrrdPkiCGghgDoJcFUYPxY",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -140,8 +99,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.093029975Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -167,15 +126,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P24.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P24.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P24.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P24.json
index 592121ade..fad787df9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P24.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P24.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P24",
+  "id": "PMID_36446582_Gnazzo,_2020_P24",
   "subject": {
     "id": "Gnazzo, 2020_P24",
     "timeAtLastEncounter": {
@@ -14,101 +14,50 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -126,6 +75,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_VkYsYchclIZWUWgmjZLxUjAnq",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -160,8 +110,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.100709915Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -187,15 +137,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P25.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P25.json
similarity index 73%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P25.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P25.json
index 76dc6df2e..485e6b396 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P25.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P25.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P25",
+  "id": "PMID_36446582_Gnazzo,_2020_P25",
   "subject": {
     "id": "Gnazzo, 2020_P25",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_iYrlUMdulQgFPEGKtoyPTVqcd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.113007068Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P26.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P26.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P26.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P26.json
index 9f62b8255..49a526322 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P26.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P26.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P26",
+  "id": "PMID_36446582_Gnazzo,_2020_P26",
   "subject": {
     "id": "Gnazzo, 2020_P26",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_rigyrwKYKWAgbWwuHoFFHRFEL",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.126246929Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P27.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P27.json
similarity index 73%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P27.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P27.json
index 7592f5caf..1edd86e1e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P27.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P27.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P27",
+  "id": "PMID_36446582_Gnazzo,_2020_P27",
   "subject": {
     "id": "Gnazzo, 2020_P27",
     "timeAtLastEncounter": {
@@ -14,90 +14,44 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -115,6 +69,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_csxXhfgqHoQBxnMPqmMrnBSlN",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -149,8 +104,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.133774042Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -176,15 +131,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P28.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P28.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P28.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P28.json
index b2743c6f4..25ad575f5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P28.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P28.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P28",
+  "id": "PMID_36446582_Gnazzo,_2020_P28",
   "subject": {
     "id": "Gnazzo, 2020_P28",
     "timeAtLastEncounter": {
@@ -14,101 +14,50 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -126,6 +75,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_nJTelMZQINLXecEriHCDwbLEU",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -160,8 +110,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.140954017Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -187,15 +137,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P29.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P29.json
new file mode 100644
index 000000000..fb5f43b6c
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P29.json
@@ -0,0 +1,129 @@
+{
+  "id": "PMID_36446582_Gnazzo,_2020_P29",
+  "subject": {
+    "id": "Gnazzo, 2020_P29",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Gnazzo, 2020_P29",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Gnazzo, 2020_P29",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_PwvtiKyfUiaHTYaOXIqFXLfwf",
+                "label": "16q24.3(89283689_89572450)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:36.152088165Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P3.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P3.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P3.json
index aa1221601..a18a91732 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P3",
+  "id": "PMID_36446582_Gnazzo,_2020_P3",
   "subject": {
     "id": "Gnazzo, 2020_P3",
     "timeAtLastEncounter": {
@@ -14,68 +14,32 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_nTXcaUyGzOHJFbazXYQGRiiSG",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.159484863Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P30.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P30.json
new file mode 100644
index 000000000..40ec36de0
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P30.json
@@ -0,0 +1,141 @@
+{
+  "id": "PMID_36446582_Gnazzo,_2020_P30",
+  "subject": {
+    "id": "Gnazzo, 2020_P30",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      }
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Gnazzo, 2020_P30",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Gnazzo, 2020_P30",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_jhnqYsOZgVXLIPaxpwhElUxnW",
+                "label": "16q24.3(89273092_89577046)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:36.168964147Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P31.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P31.json
similarity index 63%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P31.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P31.json
index a87bda330..b9d0061f1 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P31.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P31.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P31",
+  "id": "PMID_36446582_Gnazzo,_2020_P31",
   "subject": {
     "id": "Gnazzo, 2020_P31",
     "timeAtLastEncounter": {
@@ -12,60 +12,35 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -83,31 +58,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87618420"
-                          },
-                          "endNumber": {
-                            "value": "89440922"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2q24.3(87618420_89440922)x1",
+                "id": "var_RgdjioFEhgNJEUYIlwMpyfWWp",
+                "label": "16q24.2q24.3(87652026_89507330)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -124,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.176509857Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -151,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P4.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P4.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P4.json
index c8cd29d86..9b99bb5e0 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P4.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P4",
+  "id": "PMID_36446582_Gnazzo,_2020_P4",
   "subject": {
     "id": "Gnazzo, 2020_P4",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.183593034Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P5.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P5.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P5.json
index e8d450331..1558aa67c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P5.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P5",
+  "id": "PMID_36446582_Gnazzo,_2020_P5",
   "subject": {
     "id": "Gnazzo, 2020_P5",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gbFKXZaEFAnSCvGbzXqDaCITC",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.196775913Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P6.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P6.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P6.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P6.json
index ac81d01f0..aab2466d4 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P6.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P6.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P6",
+  "id": "PMID_36446582_Gnazzo,_2020_P6",
   "subject": {
     "id": "Gnazzo, 2020_P6",
     "timeAtLastEncounter": {
@@ -14,90 +14,44 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -115,6 +69,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gbFKXZaEFAnSCvGbzXqDaCITC",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -149,8 +104,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.217278957Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -176,15 +131,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P7.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P7.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P7.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P7.json
index 048549211..2e733d7f3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P7.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P7.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P7",
+  "id": "PMID_36446582_Gnazzo,_2020_P7",
   "subject": {
     "id": "Gnazzo, 2020_P7",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_tvUGnPHCFXFCkoIVgQTeGHtWi",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.231991052Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P8.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P8.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P8.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P8.json
index 918a983cc..83083f649 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P8.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P8.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P8",
+  "id": "PMID_36446582_Gnazzo,_2020_P8",
   "subject": {
     "id": "Gnazzo, 2020_P8",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -92,6 +56,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_tvUGnPHCFXFCkoIVgQTeGHtWi",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -126,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.237772941Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -153,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P9.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P9.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P9.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P9.json
index 85298d451..58fa87220 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P9.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo2020_P9.json
@@ -1,5 +1,5 @@
 {
-  "id": "Gnazzo, 2020_P9",
+  "id": "PMID_36446582_Gnazzo,_2020_P9",
   "subject": {
     "id": "Gnazzo, 2020_P9",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -92,12 +51,7 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -115,6 +69,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_CLvWvkGjpVtXKgoLAuvVjRtcT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -149,8 +104,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.244076013Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -176,15 +131,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P29.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P29.json
deleted file mode 100644
index 8f8e25b47..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P29.json
+++ /dev/null
@@ -1,163 +0,0 @@
-{
-  "id": "Gnazzo, 2020_P29",
-  "subject": {
-    "id": "Gnazzo, 2020_P29",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Gnazzo, 2020_P29",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Gnazzo, 2020_P29",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89217281"
-                          },
-                          "endNumber": {
-                            "value": "89506042"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89217281_89506042)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P30.json b/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P30.json
deleted file mode 100644
index 798f10a79..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Gnazzo_2020_P30.json
+++ /dev/null
@@ -1,185 +0,0 @@
-{
-  "id": "Gnazzo, 2020_P30",
-  "subject": {
-    "id": "Gnazzo, 2020_P30",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Gnazzo, 2020_P30",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Gnazzo, 2020_P30",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89206684"
-                          },
-                          "endNumber": {
-                            "value": "89510638"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89206684_89510638)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P1.json
index 0e90478d2..b13917565 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P1",
+  "id": "PMID_36446582_Goldenberg2016_P1",
   "subject": {
     "id": "Goldenberg2016_P1",
     "timeAtLastEncounter": {
@@ -12,37 +12,22 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,31 +45,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89182741"
-                          },
-                          "endNumber": {
-                            "value": "89309778"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89182741_89309778)x1",
+                "id": "var_ixkEOXAEivTDitVaPdilBGFDY",
+                "label": "16q24.3(89249149_89376186)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -101,8 +68,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.255311012Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -128,15 +95,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P10.json
index 2d6c46a8d..beb087a28 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P10.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P10.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P10",
+  "id": "PMID_36446582_Goldenberg2016_P10",
   "subject": {
     "id": "Goldenberg2016_P10",
     "timeAtLastEncounter": {
@@ -12,35 +12,20 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -48,12 +33,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,31 +51,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89133199"
-                          },
-                          "endNumber": {
-                            "value": "89406219"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89133199_89406219)x1",
+                "id": "var_IlKsJSqXkbDBWwebcrVLJRTZJ",
+                "label": "16q24.3(89199607_89472627)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -112,8 +74,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.262351989Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -139,15 +101,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P11.json
index dc5b8cf25..1c874e93f 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P11.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P11.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P11",
+  "id": "PMID_36446582_Goldenberg2016_P11",
   "subject": {
     "id": "Goldenberg2016_P11",
     "timeAtLastEncounter": {
@@ -12,46 +12,26 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -70,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -104,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.271550893Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -131,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P12.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P12.json
index c910fa9b1..6052e440a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P12.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P12.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P12",
+  "id": "PMID_36446582_Goldenberg2016_P12",
   "subject": {
     "id": "Goldenberg2016_P12",
     "timeAtLastEncounter": {
@@ -12,24 +12,14 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
@@ -37,12 +27,7 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,31 +45,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89249290"
-                          },
-                          "endNumber": {
-                            "value": "89481685"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89249290_89481685)x1",
+                "id": "var_gpMuMPlVVbecubDJzokoJPDYP",
+                "label": "16q24.3(89315698_89548093)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -101,8 +68,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.279045820Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -128,15 +95,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P13.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P13.json
index 033447c4e..6e320f62b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P13.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P13.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P13",
+  "id": "PMID_36446582_Goldenberg2016_P13",
   "subject": {
     "id": "Goldenberg2016_P13",
     "timeAtLastEncounter": {
@@ -14,22 +14,12 @@
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -48,31 +38,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88743575"
-                          },
-                          "endNumber": {
-                            "value": "89406219"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(88743575_89406219)x1",
+                "id": "var_FGnouPFnVlGXfVCjDFWytLXgo",
+                "label": "16q24.3(88809983_89472627)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -89,8 +61,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.285970926Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -116,15 +88,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P14.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P14.json
index d99c13bfd..6af5ab68d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P14.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P14.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P14",
+  "id": "PMID_36446582_Goldenberg2016_P14",
   "subject": {
     "id": "Goldenberg2016_P14",
     "timeAtLastEncounter": {
@@ -12,46 +12,26 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -70,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_YxmgKQgDaYxlWbIpMJyNlJsSa",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -104,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.294745206Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -131,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P15.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P15.json
index baa4e96d3..6924b6855 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P15.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P15.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P15",
+  "id": "PMID_36446582_Goldenberg2016_P15",
   "subject": {
     "id": "Goldenberg2016_P15",
     "timeAtLastEncounter": {
@@ -12,13 +12,8 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
@@ -26,24 +21,14 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -61,6 +46,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_aEKukUwJMRyPmGhElEqMOhzQj",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -95,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.301853895Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -122,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P16.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P16.json
index 747457888..2936376bd 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P16.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P16.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P16",
+  "id": "PMID_36446582_Goldenberg2016_P16",
   "subject": {
     "id": "Goldenberg2016_P16",
     "timeAtLastEncounter": {
@@ -12,13 +12,8 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
@@ -26,24 +21,14 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -61,6 +46,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EioaIfduJfrzuNWQrpMTAzbKT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -95,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.309573888Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -122,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P17.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P17.json
index 05c9cb7c5..efff3b6bc 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P17.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P17.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P17",
+  "id": "PMID_36446582_Goldenberg2016_P17",
   "subject": {
     "id": "Goldenberg2016_P17",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EioaIfduJfrzuNWQrpMTAzbKT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.318832874Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P18.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P18.json
index b78b58ff4..b458c4ce2 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P18.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P18.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P18",
+  "id": "PMID_36446582_Goldenberg2016_P18",
   "subject": {
     "id": "Goldenberg2016_P18",
     "timeAtLastEncounter": {
@@ -12,37 +12,22 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,31 +45,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88555246"
-                          },
-                          "endNumber": {
-                            "value": "89317078"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3(88555246_89317078)x1",
+                "id": "var_ZvOZQWArZcVezNbWpnnIkpQEl",
+                "label": "16q24.2-q24.3(88621654_89383486)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -101,8 +68,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.326123952Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -128,15 +95,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P19.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P19.json
index 279eb4665..5f9f6131c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P19.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P19.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P19",
+  "id": "PMID_36446582_Goldenberg2016_P19",
   "subject": {
     "id": "Goldenberg2016_P19",
     "timeAtLastEncounter": {
@@ -12,57 +12,32 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -81,31 +56,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89262069"
-                          },
-                          "endNumber": {
-                            "value": "89410643"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89262069_89410643)x1",
+                "id": "var_ICTPWywNfkkGgcMyEtVljZuJf",
+                "label": "16q24.3(89328477_89477051)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -122,8 +79,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.335182189Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -149,15 +106,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P2.json
index f3729ec4f..f6d7b9587 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P2",
+  "id": "PMID_36446582_Goldenberg2016_P2",
   "subject": {
     "id": "Goldenberg2016_P2",
     "timeAtLastEncounter": {
@@ -12,37 +12,22 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,31 +45,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89182741"
-                          },
-                          "endNumber": {
-                            "value": "89309778"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89182741_89309778)x1",
+                "id": "var_ixkEOXAEivTDitVaPdilBGFDY",
+                "label": "16q24.3(89249149_89376186)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -101,8 +68,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.346118927Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -128,15 +95,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P20.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P20.json
index ab0313168..eafe02e27 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P20.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P20.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P20",
+  "id": "PMID_36446582_Goldenberg2016_P20",
   "subject": {
     "id": "Goldenberg2016_P20",
     "timeAtLastEncounter": {
@@ -12,46 +12,26 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -70,31 +50,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89262069"
-                          },
-                          "endNumber": {
-                            "value": "89410643"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89262069_89410643)x1",
+                "id": "var_ICTPWywNfkkGgcMyEtVljZuJf",
+                "label": "16q24.3(89328477_89477051)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -111,8 +73,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.353573083Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -138,15 +100,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P21.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P21.json
index 56e9af754..19ebfd458 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P21.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P21.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P21",
+  "id": "PMID_36446582_Goldenberg2016_P21",
   "subject": {
     "id": "Goldenberg2016_P21",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,31 +51,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89095276"
-                          },
-                          "endNumber": {
-                            "value": "89438698"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89095276-89438698)x1",
+                "id": "var_LjfTJkwczfRuSdWFYjMMQBbmo",
+                "label": "16q24.3(89161684-89505106)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -112,8 +74,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.373113155Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -139,15 +101,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P22.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P22.json
index 97491caed..471d659f6 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P22.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P22.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P22",
+  "id": "PMID_36446582_Goldenberg2016_P22",
   "subject": {
     "id": "Goldenberg2016_P22",
     "timeAtLastEncounter": {
@@ -12,59 +12,34 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,31 +57,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88197355"
-                          },
-                          "endNumber": {
-                            "value": "89317078"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3(88197355_89317078)x1",
+                "id": "var_WFILiTGmsovZgOTjjdkxkIilz",
+                "label": "16q24.2-q24.3(88230961_89383486)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -123,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.385163068Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -150,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P23.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P23.json
index c4c0352d3..d4ab5aea3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P23.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P23.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P23",
+  "id": "PMID_36446582_Goldenberg2016_P23",
   "subject": {
     "id": "Goldenberg2016_P23",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,6 +52,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_bhxzZVYndhmSUajQbuQVrVrnT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -106,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.389061927Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -133,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P24.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P24.json
index 2157de169..ce7313101 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P24.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P24.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P24",
+  "id": "PMID_36446582_Goldenberg2016_P24",
   "subject": {
     "id": "Goldenberg2016_P24",
     "timeAtLastEncounter": {
@@ -14,79 +14,38 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,31 +63,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89368850"
-                          },
-                          "endNumber": {
-                            "value": "89487299"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89368850-89487299)x1",
+                "id": "var_jigFCNLItgSFOTdQcqqnAqQpU",
+                "label": "16q24.3(89435258-89553707)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -145,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.394885778Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -172,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P25.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P25.json
index 5f68869e2..430626927 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P25.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P25.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P25",
+  "id": "PMID_36446582_Goldenberg2016_P25",
   "subject": {
     "id": "Goldenberg2016_P25",
     "timeAtLastEncounter": {
@@ -14,69 +14,33 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -94,6 +58,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_xUMNUTGfrxMUVMURBleGYOSnq",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -128,8 +93,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.400025129Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -155,15 +120,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P26.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P26.json
index b5730fa83..668b866ac 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P26.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P26.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P26",
+  "id": "PMID_36446582_Goldenberg2016_P26",
   "subject": {
     "id": "Goldenberg2016_P26",
     "timeAtLastEncounter": {
@@ -12,13 +12,8 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
@@ -26,12 +21,7 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -49,31 +39,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87892206"
-                          },
-                          "endNumber": {
-                            "value": "89455452"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3(87892206_89455452)x1",
+                "id": "var_cdceVHXhEQDlBYhjUnLUDJeJK",
+                "label": "16q24.2-q24.3(87925812_89521860)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -90,8 +62,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.405860185Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -117,15 +89,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P27.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P27.json
index cefee93a5..b43635036 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P27.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P27.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P27",
+  "id": "PMID_36446582_Goldenberg2016_P27",
   "subject": {
     "id": "Goldenberg2016_P27",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_BwDEWHqyZrvLHihXKcPIbNnXm",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.417328119Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P28.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P28.json
index 7d75f5433..1c21e8430 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P28.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P28.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P28",
+  "id": "PMID_36446582_Goldenberg2016_P28",
   "subject": {
     "id": "Goldenberg2016_P28",
     "timeAtLastEncounter": {
@@ -14,33 +14,12 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
@@ -48,24 +27,14 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -83,31 +52,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88697052"
-                          },
-                          "endNumber": {
-                            "value": "89277641"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(88697052_89277641)x1",
+                "id": "var_kRjNunLHIIiXaZBlsqzxVJBJi",
+                "label": "16q24.3(88763460_89344049)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -124,8 +75,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.428291082Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -151,15 +102,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P29.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P29.json
index eaa17a5c3..3e1cedc5d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P29.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P29.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P29",
+  "id": "PMID_36446582_Goldenberg2016_P29",
   "subject": {
     "id": "Goldenberg2016_P29",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,31 +52,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89395175"
-                          },
-                          "endNumber": {
-                            "value": "89492781"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89395175_89492781)x1",
+                "id": "var_tHVgbTboYpdloDmVLqBYNfXSW",
+                "label": "16q24.3(89461583_89559189)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -113,8 +75,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.441747903Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -140,15 +102,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P3.json
index e36a906db..f2fabe37d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P3",
+  "id": "PMID_36446582_Goldenberg2016_P3",
   "subject": {
     "id": "Goldenberg2016_P3",
     "timeAtLastEncounter": {
@@ -14,11 +14,6 @@
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -26,12 +21,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -49,31 +39,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89182741"
-                          },
-                          "endNumber": {
-                            "value": "89309778"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89182741_89309778)x1",
+                "id": "var_ixkEOXAEivTDitVaPdilBGFDY",
+                "label": "16q24.3(89249149_89376186)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -90,8 +62,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.450548887Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -117,15 +89,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P30.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P30.json
index d5120ac3c..f67ee5e39 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P30.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P30.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P30",
+  "id": "PMID_36446582_Goldenberg2016_P30",
   "subject": {
     "id": "Goldenberg2016_P30",
     "timeAtLastEncounter": {
@@ -12,60 +12,35 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -83,6 +58,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_DsbOcSpsrTkvULJlEwjLLxxci",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -117,8 +93,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.458930015Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -144,15 +120,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P31.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P31.json
index 34454dfeb..8f34987d1 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P31.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P31.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P31",
+  "id": "PMID_36446582_Goldenberg2016_P31",
   "subject": {
     "id": "Goldenberg2016_P31",
     "timeAtLastEncounter": {
@@ -12,24 +12,14 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -37,12 +27,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,6 +45,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ekSlRDHLaJzlFsNcCwdBYIaAc",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -94,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.466967105Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -121,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P32.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P32.json
index cc44e821a..0d78017a5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P32.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P32.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P32",
+  "id": "PMID_36446582_Goldenberg2016_P32",
   "subject": {
     "id": "Goldenberg2016_P32",
     "timeAtLastEncounter": {
@@ -12,59 +12,34 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,31 +57,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87766620"
-                          },
-                          "endNumber": {
-                            "value": "89492922"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(87766620-89492922)x1",
+                "id": "var_oUmTBNfrsMPICfJTDxXJCngJK",
+                "label": "16q24.3(87800226-89559330)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -123,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.474450826Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -150,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P33.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P33.json
index 276896e51..6c8952838 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P33.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P33.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P33",
+  "id": "PMID_36446582_Goldenberg2016_P33",
   "subject": {
     "id": "Goldenberg2016_P33",
     "timeAtLastEncounter": {
@@ -14,68 +14,32 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,31 +57,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89441368"
-                          },
-                          "endNumber": {
-                            "value": "89499248"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89441368_89499248)x1",
+                "id": "var_hTBZSoNOgzuLIatmPTzBPIZnK",
+                "label": "16q24.3(89507776_89565656)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -134,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.484771013Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -161,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P34.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P34.json
index 472d17f3f..cf25aa634 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P34.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P34.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P34",
+  "id": "PMID_36446582_Goldenberg2016_P34",
   "subject": {
     "id": "Goldenberg2016_P34",
     "timeAtLastEncounter": {
@@ -12,46 +12,26 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -70,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_WjgMKtWYMQTmlzzHteGpwBBma",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -104,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.497545957Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -131,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P35.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P35.json
index 9c9c092a5..256db877c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P35.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P35.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P35",
+  "id": "PMID_36446582_Goldenberg2016_P35",
   "subject": {
     "id": "Goldenberg2016_P35",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_MFwDjrYhdCzUGqzvMcCzwQePN",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.508285999Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P36.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P36.json
index 9daabf8d9..8ef204ef7 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P36.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P36.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P36",
+  "id": "PMID_36446582_Goldenberg2016_P36",
   "subject": {
     "id": "Goldenberg2016_P36",
     "timeAtLastEncounter": {
@@ -14,35 +14,20 @@
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,31 +45,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89228899"
-                          },
-                          "endNumber": {
-                            "value": "89492781"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89228899_89492781)x1",
+                "id": "var_ZBlFldCFxMfeKQpuQcfabBeph",
+                "label": "16q24.3(89295307_89559189)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -101,8 +68,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.516417980Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -128,15 +95,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P38.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P38.json
index d9cf95002..dee2b44b5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P38.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P38.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P38",
+  "id": "PMID_36446582_Goldenberg2016_P38",
   "subject": {
     "id": "Goldenberg2016_P38",
     "timeAtLastEncounter": {
@@ -12,37 +12,22 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,6 +45,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ELQkQxGTmoJRxryZwSbWQMrGk",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -94,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.524050951Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -121,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P39.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P39.json
index 863d34e7e..4be650770 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P39.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P39.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P39",
+  "id": "PMID_36446582_Goldenberg2016_P39",
   "subject": {
     "id": "Goldenberg2016_P39",
     "timeAtLastEncounter": {
@@ -12,38 +12,23 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -61,6 +46,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_DIVpeGtVUsYIjSYxgCznKWIeh",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -95,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.530921936Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -122,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P4.json
index 60eea5a8b..bb28a6e3c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P4.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P4",
+  "id": "PMID_36446582_Goldenberg2016_P4",
   "subject": {
     "id": "Goldenberg2016_P4",
     "timeAtLastEncounter": {
@@ -12,24 +12,14 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -37,12 +27,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,31 +45,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89182741"
-                          },
-                          "endNumber": {
-                            "value": "89309778"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89182741_89309778)x1",
+                "id": "var_ixkEOXAEivTDitVaPdilBGFDY",
+                "label": "16q24.3(89249149_89376186)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -101,8 +68,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.537877082Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -128,15 +95,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P5.json
index 8355a4524..aec40cc29 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P5.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P5",
+  "id": "PMID_36446582_Goldenberg2016_P5",
   "subject": {
     "id": "Goldenberg2016_P5",
     "timeAtLastEncounter": {
@@ -14,80 +14,39 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,6 +64,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EioaIfduJfrzuNWQrpMTAzbKT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -139,8 +99,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.545026063Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -166,15 +126,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P6.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P6.json
index b22008e66..236f192f3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P6.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P6.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P6",
+  "id": "PMID_36446582_Goldenberg2016_P6",
   "subject": {
     "id": "Goldenberg2016_P6",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -70,12 +39,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_tNhqYsySZKGiEQVwWGOSPryfd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.555724143Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P7.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P7.json
index 5644f0b41..f8fa6df28 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P7.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P7.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P7",
+  "id": "PMID_36446582_Goldenberg2016_P7",
   "subject": {
     "id": "Goldenberg2016_P7",
     "timeAtLastEncounter": {
@@ -12,71 +12,41 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -94,6 +64,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_KcEFmtaoEkUeERFebIvYoPiLt",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -128,8 +99,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.565450906Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -155,15 +126,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P8.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P8.json
index 3ea806690..ba52a9a07 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P8.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P8.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P8",
+  "id": "PMID_36446582_Goldenberg2016_P8",
   "subject": {
     "id": "Goldenberg2016_P8",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -70,12 +39,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_mpcOPrcBerHpzPWeOvlXUFtzx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.583665847Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P9.json b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P9.json
index 005ba02af..333594f4e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P9.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Goldenberg2016_P9.json
@@ -1,5 +1,5 @@
 {
-  "id": "Goldenberg2016_P9",
+  "id": "PMID_36446582_Goldenberg2016_P9",
   "subject": {
     "id": "Goldenberg2016_P9",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,6 +52,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -106,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.594670057Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -133,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Isrie2012_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Isrie2012_P1.json
new file mode 100644
index 000000000..fb8fd88b4
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Isrie2012_P1.json
@@ -0,0 +1,153 @@
+{
+  "id": "PMID_36446582_Isrie,_2012_P1",
+  "subject": {
+    "id": "Isrie, 2012_P1",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "FEMALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
+      }
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Isrie, 2012_P1",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Isrie, 2012_P1",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_zwEBFzBBcOuRvDvwUeXQDHEIj",
+                "label": "16q24.3(89343893_89565656)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:36.600950002Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Isrie2012_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Isrie2012_P2.json
new file mode 100644
index 000000000..070cf1f84
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Isrie2012_P2.json
@@ -0,0 +1,154 @@
+{
+  "id": "PMID_36446582_Isrie,_2012_P2",
+  "subject": {
+    "id": "Isrie, 2012_P2",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Isrie, 2012_P2",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Isrie, 2012_P2",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_YQZIaVyBaZHogjfwRBUduIGIu",
+                "label": "16q24.3(89335228-89472768)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:36.607806921Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Isrie_2012_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Isrie_2012_P1.json
deleted file mode 100644
index 925072b87..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Isrie_2012_P1.json
+++ /dev/null
@@ -1,207 +0,0 @@
-{
-  "id": "Isrie, 2012_P1",
-  "subject": {
-    "id": "Isrie, 2012_P1",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Isrie, 2012_P1",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Isrie, 2012_P1",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89277485"
-                          },
-                          "endNumber": {
-                            "value": "89499248"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89277485_89499248)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Isrie_2012_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Isrie_2012_P2.json
deleted file mode 100644
index 9f06c74b8..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Isrie_2012_P2.json
+++ /dev/null
@@ -1,208 +0,0 @@
-{
-  "id": "Isrie, 2012_P2",
-  "subject": {
-    "id": "Isrie, 2012_P2",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Isrie, 2012_P2",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Isrie, 2012_P2",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89268820"
-                          },
-                          "endNumber": {
-                            "value": "89406360"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89268820-89406360)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Jin_Kim_2020_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_JinKim2020_P1.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Jin_Kim_2020_P1.json
rename to notebooks/KBG/phenopackets/PMID_36446582_JinKim2020_P1.json
index 3708ae928..6e8e12e80 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Jin_Kim_2020_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_JinKim2020_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Jin Kim, 2020_P1",
+  "id": "PMID_36446582_Jin_Kim,_2020_P1",
   "subject": {
     "id": "Jin Kim, 2020_P1",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_RpqAVxQxtPhUxSzXjcirJYBDR",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.614593982Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Jin_Kim_2020_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_JinKim2020_P2.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Jin_Kim_2020_P2.json
rename to notebooks/KBG/phenopackets/PMID_36446582_JinKim2020_P2.json
index 160e2e890..62f118389 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Jin_Kim_2020_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_JinKim2020_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Jin Kim, 2020_P2",
+  "id": "PMID_36446582_Jin_Kim,_2020_P2",
   "subject": {
     "id": "Jin Kim, 2020_P2",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -103,12 +57,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -126,6 +75,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ByTYILheWJEuOsIqUvXruHTDE",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -160,8 +110,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.626496076Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -187,15 +137,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG1.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG1.json
index 3440b51a4..3bc88d175 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG1.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG1",
+  "id": "PMID_36446582_KBG1",
   "subject": {
     "id": "KBG1",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
@@ -81,12 +45,7 @@
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,31 +63,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89269899"
-                          },
-                          "endNumber": {
-                            "value": "89287677"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89269899_89287677)x1",
+                "id": "var_IXTNjijtVuSJzHjunkJtUdxzQ",
+                "label": "16q24.3(89336307_89354085)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -145,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.295936107Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -172,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG10A.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG10A.json
index fcf504b7c..0605e6d91 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG10A.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG10A.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG10A",
+  "id": "PMID_36446582_KBG10A",
   "subject": {
     "id": "KBG10A",
     "timeAtLastEncounter": {
@@ -14,44 +14,24 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
@@ -59,23 +39,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_zNomqNtRMMRbivGONPBhbADic",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.403497934Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG10B.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG10B.json
index 7fd9c0cc5..fe5b73f6a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG10B.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG10B.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG10B",
+  "id": "PMID_36446582_KBG10B",
   "subject": {
     "id": "KBG10B",
     "timeAtLastEncounter": {
@@ -12,95 +12,55 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -118,6 +78,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_zNomqNtRMMRbivGONPBhbADic",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -152,8 +113,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.409294128Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -179,15 +140,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG11.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG11.json
index 2befd088a..c6a8d83ad 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG11.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG11.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG11",
+  "id": "PMID_36446582_KBG11",
   "subject": {
     "id": "KBG11",
     "timeAtLastEncounter": {
@@ -14,158 +14,82 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -183,6 +107,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_GkowUOWeZuffzVPZSuZlkHkNY",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -217,8 +142,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.717885971Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -244,15 +169,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG12.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG12.json
index 99e3ee995..067b15dd1 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG12.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG12.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG12",
+  "id": "PMID_36446582_KBG12",
   "subject": {
     "id": "KBG12",
     "timeAtLastEncounter": {
@@ -14,147 +14,76 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -172,6 +101,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_BwDEWHqyZrvLHihXKcPIbNnXm",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -206,8 +136,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.725951910Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -233,15 +163,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG13.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG13.json
index a4903ea29..e824e029a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG13.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG13.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG13",
+  "id": "PMID_36446582_KBG13",
   "subject": {
     "id": "KBG13",
     "timeAtLastEncounter": {
@@ -14,157 +14,81 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -182,6 +106,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_eHrmYvJnIJeColJLxezVShXnF",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -216,8 +141,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.733669042Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -243,15 +168,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG14.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG14.json
index 650604922..90e0f4ccf 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG14.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG14.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG14",
+  "id": "PMID_36446582_KBG14",
   "subject": {
     "id": "KBG14",
     "timeAtLastEncounter": {
@@ -14,143 +14,72 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
@@ -158,12 +87,7 @@
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -181,6 +105,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_VVkYDrewyjJXudJznEwCeACym",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -215,8 +140,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.745703935Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -242,15 +167,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG15.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG15.json
index 14dc37417..b5780b8f8 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG15.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG15.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG15",
+  "id": "PMID_36446582_KBG15",
   "subject": {
     "id": "KBG15",
     "timeAtLastEncounter": {
@@ -14,159 +14,83 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -184,6 +108,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_eNPPYGHbnSRbnrOqafNYmvoYc",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -218,8 +143,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.753091096Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -245,15 +170,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG16.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG16.json
index b265e7e35..9675c89f4 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG16.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG16.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG16",
+  "id": "PMID_36446582_KBG16",
   "subject": {
     "id": "KBG16",
     "timeAtLastEncounter": {
@@ -10,161 +10,85 @@
     "sex": "MALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -182,6 +106,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_eHrmYvJnIJeColJLxezVShXnF",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -216,8 +141,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.775098085Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -243,15 +168,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG17.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG17.json
index 92243f78d..dc3727d57 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG17.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG17.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG17",
+  "id": "PMID_36446582_KBG17",
   "subject": {
     "id": "KBG17",
     "timeAtLastEncounter": {
@@ -14,157 +14,81 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -182,6 +106,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_xEjnhxywPAqjUKgwRGbqNlAgf",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -216,8 +141,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.782756090Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -243,15 +168,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG18.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG18.json
index f69708924..9fee32696 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG18.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG18.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG18",
+  "id": "PMID_36446582_KBG18",
   "subject": {
     "id": "KBG18",
     "timeAtLastEncounter": {
@@ -14,159 +14,83 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -184,6 +108,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EWYMMeGVdPtNwjXYyFWogyGMY",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -218,8 +143,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.790790796Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -245,15 +170,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG19.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG19.json
index 3615a5355..fd435c6c2 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG19.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG19.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG19",
+  "id": "PMID_36446582_KBG19",
   "subject": {
     "id": "KBG19",
     "timeAtLastEncounter": {
@@ -10,129 +10,68 @@
     "sex": "MALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -150,6 +89,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_TYEvLklXPxouyUvECfKLIHSGt",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -184,8 +124,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.639791011Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -211,15 +151,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG2.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG2.json
index ff360f4d8..ddc1c1d64 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG2.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG2",
+  "id": "PMID_36446582_KBG2",
   "subject": {
     "id": "KBG2",
     "timeAtLastEncounter": {
@@ -14,69 +14,33 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -94,31 +58,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89190070"
-                          },
-                          "endNumber": {
-                            "value": "89439815"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89190070_89439815)x1",
+                "id": "var_UaNEibPNgjyQYgWgPkTNpqbXj",
+                "label": "16q24.3(89256478_89506223)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -135,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.322968006Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -162,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG20.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG20.json
index 0c947aa54..98918f0ae 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG20.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG20.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG20",
+  "id": "PMID_36446582_KBG20",
   "subject": {
     "id": "KBG20",
     "timeAtLastEncounter": {
@@ -10,140 +10,74 @@
     "sex": "MALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -161,6 +95,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -195,8 +130,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.651216983Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -222,15 +157,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG21.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG21.json
index 26842da9b..b80b172ac 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG21.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG21.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG21",
+  "id": "PMID_36446582_KBG21",
   "subject": {
     "id": "KBG21",
     "timeAtLastEncounter": {
@@ -14,149 +14,78 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -174,6 +103,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_afvDxjoIAYuHgcTADcoMVITDK",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -208,8 +138,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.659560918Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -235,15 +165,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG22.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG22.json
index a7e740725..3efec1f20 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG22.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG22.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG22",
+  "id": "PMID_36446582_KBG22",
   "subject": {
     "id": "KBG22",
     "timeAtLastEncounter": {
@@ -12,139 +12,73 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -162,31 +96,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89293293"
-                          },
-                          "endNumber": {
-                            "value": "89312898"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89293293_89312898)x1",
+                "id": "var_zaiLIyqbFlzQYxfVyHmcvqUpG",
+                "label": "16q24.3(89359701_89379306)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -203,8 +119,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.670319080Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -230,15 +146,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG23.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG23.json
index 34d0e472b..7087f56c5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG23.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG23.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG23",
+  "id": "PMID_36446582_KBG23",
   "subject": {
     "id": "KBG23",
     "timeAtLastEncounter": {
@@ -14,159 +14,83 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -184,31 +108,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89258979"
-                          },
-                          "endNumber": {
-                            "value": "89342739"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89258979_89342739)x1",
+                "id": "var_EncgSBszEFjSgubbPpLcWNxcQ",
+                "label": "16q24.3(89325387_89409147)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -225,8 +131,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.802947044Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -252,15 +158,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG24.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG24.json
index bc6b1b879..e01a95f4b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG24.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG24.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG24",
+  "id": "PMID_36446582_KBG24",
   "subject": {
     "id": "KBG24",
     "timeAtLastEncounter": {
@@ -14,110 +14,54 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
@@ -125,48 +69,28 @@
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -184,6 +108,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_BwDEWHqyZrvLHihXKcPIbNnXm",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -218,8 +143,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.810472965Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -245,15 +170,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG25.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG25.json
index 71e56be80..6ca284f54 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG25.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG25.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG25",
+  "id": "PMID_36446582_KBG25",
   "subject": {
     "id": "KBG25",
     "timeAtLastEncounter": {
@@ -12,154 +12,82 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -177,31 +105,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89490210"
-                          },
-                          "endNumber": {
-                            "value": "89490596"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89490210_89490596)x1",
+                "id": "var_bynqQdtCGZwbfkMDSYLRRnYio",
+                "label": "16q24.3(89556618_89557004)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -218,8 +128,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.826119899Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -245,15 +155,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG26.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG26.json
index 77e5fcea5..02199261c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG26.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG26.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG26",
+  "id": "PMID_36446582_KBG26",
   "subject": {
     "id": "KBG26",
     "timeAtLastEncounter": {
@@ -14,150 +14,79 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -175,31 +104,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89194991"
-                          },
-                          "endNumber": {
-                            "value": "89352723"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89194991_89352723)x1",
+                "id": "var_pYXKuwFJZYTbTPAcqDLRaZrJl",
+                "label": "16q24.3(89261399_89419131)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -216,8 +127,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.834037065Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -243,15 +154,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG27.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG27.json
index e4b0f671d..bfff7de6f 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG27.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG27.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG27",
+  "id": "PMID_36446582_KBG27",
   "subject": {
     "id": "KBG27",
     "timeAtLastEncounter": {
@@ -14,158 +14,82 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -183,6 +107,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -217,8 +142,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.845494031Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -244,15 +169,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG28.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG28.json
index 1a76ae85e..582d8cf2e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG28.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG28.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG28",
+  "id": "PMID_36446582_KBG28",
   "subject": {
     "id": "KBG28",
     "timeAtLastEncounter": {
@@ -14,160 +14,84 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -185,6 +109,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_NpzFLrLWrSjFjhSUJAVdqHQfa",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -219,8 +144,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.853008985Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -246,15 +171,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG29.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG29.json
index bc3ed6c4f..4c7979390 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG29.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG29.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG29",
+  "id": "PMID_36446582_KBG29",
   "subject": {
     "id": "KBG29",
     "timeAtLastEncounter": {
@@ -14,160 +14,84 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -185,6 +109,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LLVAeAYnhXIKirSpwzLazUaBK",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -219,8 +144,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.860071897Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -246,15 +171,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG3.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG3.json
index 0ed647d0c..65f703248 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG3.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG3",
+  "id": "PMID_36446582_KBG3",
   "subject": {
     "id": "KBG3",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_mpcOPrcBerHpzPWeOvlXUFtzx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.333179950Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG30.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG30.json
index 620ad4c65..d79cbe572 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG30.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG30.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG30",
+  "id": "PMID_36446582_KBG30",
   "subject": {
     "id": "KBG30",
     "timeAtLastEncounter": {
@@ -14,161 +14,85 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -186,6 +110,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_GpcVnVteizeJdgOhgTBlVVHzz",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -220,8 +145,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.873366117Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -247,15 +172,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG31A.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG31A.json
index 83054b102..4d0d95040 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG31A.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG31A.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG31A",
+  "id": "PMID_36446582_KBG31A",
   "subject": {
     "id": "KBG31A",
     "timeAtLastEncounter": {
@@ -14,125 +14,64 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -150,6 +89,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ZjqRYlSogyFQrViUBWgipXmQK",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -184,8 +124,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.626739025Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -211,15 +151,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG31B.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG31B.json
deleted file mode 100644
index 09d3936f9..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG31B.json
+++ /dev/null
@@ -1,99 +0,0 @@
-{
-  "id": "KBG31B",
-  "subject": {
-    "id": "KBG31B",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P1Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "interpretations": [
-    {
-      "id": "KBG31B",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "KBG31B",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "expressions": [
-                  {
-                    "syntax": "hgvs.c",
-                    "value": "NM_013275.6:c.7834G>T"
-                  },
-                  {
-                    "syntax": "hgvs.g",
-                    "value": "NC_000016.10:g.89268636C>A"
-                  }
-                ],
-                "vcfRecord": {
-                  "genomeAssembly": "hg38",
-                  "chrom": "chr16",
-                  "pos": "89268636",
-                  "ref": "C",
-                  "alt": "A"
-                },
-                "moleculeContext": "genomic",
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG32.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG32.json
index 20d15889f..de9b91b10 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG32.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG32.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG32",
+  "id": "PMID_36446582_KBG32",
   "subject": {
     "id": "KBG32",
     "timeAtLastEncounter": {
@@ -10,153 +10,82 @@
     "sex": "MALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -174,6 +103,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_VCtSnTmCrQIPMulSABmVJjGyB",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -208,8 +138,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.452276945Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -235,15 +165,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG33.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG33.json
index 17becfcf4..a64f16d7b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG33.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG33.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG33",
+  "id": "PMID_36446582_KBG33",
   "subject": {
     "id": "KBG33",
     "timeAtLastEncounter": {
@@ -14,137 +14,71 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -162,6 +96,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_wBwDyiJdNegbFUwiQFfLQPIxg",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -196,8 +131,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.457455158Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -223,15 +158,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG34.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG34.json
index 7668e90fb..49559065d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG34.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG34.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG34",
+  "id": "PMID_36446582_KBG34",
   "subject": {
     "id": "KBG34",
     "timeAtLastEncounter": {
@@ -14,113 +14,57 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -138,6 +82,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LhjmRjJJyJmnfptfygkcIBlNS",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -172,8 +117,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.462556838Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -199,15 +144,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG35.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG35.json
index 018a3a3e4..fa6a4cabf 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG35.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG35.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG35",
+  "id": "PMID_36446582_KBG35",
   "subject": {
     "id": "KBG35",
     "timeAtLastEncounter": {
@@ -10,107 +10,56 @@
     "sex": "MALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -128,6 +77,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -162,8 +112,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.467714071Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -189,15 +139,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG36.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG36.json
index ffcc166ee..7c3fef908 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG36.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG36.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG36",
+  "id": "PMID_36446582_KBG36",
   "subject": {
     "id": "KBG36",
     "timeAtLastEncounter": {
@@ -14,103 +14,52 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -128,6 +77,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -162,8 +112,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.472809076Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -189,15 +139,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG37.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG37.json
index 6332276ca..4d3812ccb 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG37.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG37.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG37",
+  "id": "PMID_36446582_KBG37",
   "subject": {
     "id": "KBG37",
     "timeAtLastEncounter": {
@@ -12,117 +12,60 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -140,6 +83,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_VVFRSmuqRIOGKdhdLHpgDdRtm",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -174,8 +118,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.478133916Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -201,15 +145,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG38.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG38.json
index 8f0651b76..2bc03d29c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG38.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG38.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG38",
+  "id": "PMID_36446582_KBG38",
   "subject": {
     "id": "KBG38",
     "timeAtLastEncounter": {
@@ -14,125 +14,64 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -150,31 +89,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89283303"
-                          },
-                          "endNumber": {
-                            "value": "89541333"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89283303_89541333)x1",
+                "id": "var_jUorJlPgAHfDTaPYFtqAscNWf",
+                "label": "16q24.3(89349711_89607741)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -191,8 +112,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.482899904Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -218,15 +139,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG39.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG39.json
index ea66d0da6..e8fea3750 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG39.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG39.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG39",
+  "id": "PMID_36446582_KBG39",
   "subject": {
     "id": "KBG39",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
@@ -70,12 +39,7 @@
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_wQLmWQPHbMWVizyXfQUyZnRbe",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.433919906Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG4.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG4.json
index d6bf6d041..43c52dcb8 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG4.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG4",
+  "id": "PMID_36446582_KBG4",
   "subject": {
     "id": "KBG4",
     "timeAtLastEncounter": {
@@ -14,115 +14,59 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -140,6 +84,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LmaIZetYPfzgQtowMGjjpMmVo",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -174,8 +119,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.340381860Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -201,15 +146,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG40.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG40.json
index 6f0a801c0..69b440d05 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG40.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG40.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG40",
+  "id": "PMID_36446582_KBG40",
   "subject": {
     "id": "KBG40",
     "timeAtLastEncounter": {
@@ -14,33 +14,12 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     }
   ],
@@ -59,6 +38,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_FWQugvRMEcSIWtsTrDhHuPgTd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -93,8 +73,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.438740968Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -120,15 +100,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG41.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG41.json
index 90c4a5fae..a8ffcf116 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG41.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG41.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG41",
+  "id": "PMID_36446582_KBG41",
   "subject": {
     "id": "KBG41",
     "timeAtLastEncounter": {
@@ -14,11 +14,6 @@
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     }
   ],
@@ -37,6 +32,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EioaIfduJfrzuNWQrpMTAzbKT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -71,8 +67,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.446137189Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -98,15 +94,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG42.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG42.json
deleted file mode 100644
index 192a21449..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG42.json
+++ /dev/null
@@ -1,175 +0,0 @@
-{
-  "id": "KBG42",
-  "subject": {
-    "id": "KBG42",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P1Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG43.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG43.json
index 0acd07473..da985de3d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG43.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG43.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG43",
+  "id": "PMID_36446582_KBG43",
   "subject": {
     "id": "KBG43",
     "timeAtLastEncounter": {
@@ -14,68 +14,32 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ekSlRDHLaJzlFsNcCwdBYIaAc",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.539461135Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG44.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG44.json
index d3b47f7c4..19c02f123 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG44.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG44.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG44",
+  "id": "PMID_36446582_KBG44",
   "subject": {
     "id": "KBG44",
     "timeAtLastEncounter": {
@@ -14,146 +14,75 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -171,6 +100,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -205,8 +135,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.677654027Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -232,15 +162,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG45.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG45.json
index c31bd5248..d9caf2539 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG45.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG45.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG45",
+  "id": "PMID_36446582_KBG45",
   "subject": {
     "id": "KBG45",
     "timeAtLastEncounter": {
@@ -14,44 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
@@ -59,94 +45,42 @@
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -164,6 +98,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -198,8 +133,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.693933963Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -225,15 +160,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG46.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG46.json
index a139fe947..2838622f1 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG46.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG46.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG46",
+  "id": "PMID_36446582_KBG46",
   "subject": {
     "id": "KBG46",
     "timeAtLastEncounter": {
@@ -14,162 +14,86 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -187,6 +111,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EYbkUBOirDscCuDZTznVBgVUP",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -221,8 +146,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.709872245Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -248,15 +173,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG47.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG47.json
index f57f43cf7..0e1b7ee39 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG47.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG47.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG47",
+  "id": "PMID_36446582_KBG47",
   "subject": {
     "id": "KBG47",
     "timeAtLastEncounter": {
@@ -14,102 +14,51 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -127,6 +76,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_nVhPsJXbiHTlnzoFKJzRhoKtt",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -161,8 +111,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.632460117Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -188,15 +138,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG48.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG48.json
index f0622385c..6c538cf37 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG48.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG48.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG48",
+  "id": "PMID_36446582_KBG48",
   "subject": {
     "id": "KBG48",
     "timeAtLastEncounter": {
@@ -12,127 +12,66 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -150,6 +89,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -184,8 +124,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.532418012Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -211,15 +151,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG49.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG49.json
index 1b66dc9b7..de646e2a5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG49.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG49.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG49",
+  "id": "PMID_36446582_KBG49",
   "subject": {
     "id": "KBG49",
     "timeAtLastEncounter": {
@@ -14,145 +14,74 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000343",
+        "label": "Long philtrum"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -170,6 +99,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ioLxUgFqisjQOOdEvCvpbtVqK",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -204,8 +134,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.510622978Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -231,15 +161,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG5.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG5.json
index 04ecbc577..0d022ac3f 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG5.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG5",
+  "id": "PMID_36446582_KBG5",
   "subject": {
     "id": "KBG5",
     "timeAtLastEncounter": {
@@ -15,12 +15,7 @@
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -38,6 +33,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -72,8 +68,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.372948884Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -99,15 +95,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG50.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG50.json
index 399947c2b..b37c52c5d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG50.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG50.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG50",
+  "id": "PMID_36446582_KBG50",
   "subject": {
     "id": "KBG50",
     "timeAtLastEncounter": {
@@ -10,162 +10,86 @@
     "sex": "MALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -183,6 +107,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_PmigaovRiFNdBWLYDNHbxQhWP",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -217,8 +142,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.517930984Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -244,15 +169,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG51.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG51.json
index 72d8b3bb5..8a10ef872 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG51.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG51.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG51",
+  "id": "PMID_36446582_KBG51",
   "subject": {
     "id": "KBG51",
     "timeAtLastEncounter": {
@@ -14,148 +14,77 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -173,6 +102,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_VVkYDrewyjJXudJznEwCeACym",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -207,8 +137,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.546921014Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -234,15 +164,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG52.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG52.json
index 6a44f488a..3e3e10f09 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG52.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG52.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG52",
+  "id": "PMID_36446582_KBG52",
   "subject": {
     "id": "KBG52",
     "timeAtLastEncounter": {
@@ -14,149 +14,78 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -174,6 +103,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_xWYFacVHwvLSyFbpAZiwtlWBl",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -208,8 +138,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.554639101Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -235,15 +165,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG53.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG53.json
index cbe67c1a7..f24836060 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG53.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG53.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG53",
+  "id": "PMID_36446582_KBG53",
   "subject": {
     "id": "KBG53",
     "timeAtLastEncounter": {
@@ -14,151 +14,80 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -176,6 +105,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_VliMNyhhXwqkSZdOCuedahpeU",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -210,8 +140,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.569393873Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -237,15 +167,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG54.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG54.json
index 9866ba572..1125d639c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG54.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG54.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG54",
+  "id": "PMID_36446582_KBG54",
   "subject": {
     "id": "KBG54",
     "timeAtLastEncounter": {
@@ -14,115 +14,59 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -140,6 +84,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_MkfrkCDcRdLamIrmhiCruJjFs",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -174,8 +119,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.575836896Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -201,15 +146,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG55.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG55.json
index ac7d926c4..b7846691c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG55.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG55.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG55",
+  "id": "PMID_36446582_KBG55",
   "subject": {
     "id": "KBG55",
     "timeAtLastEncounter": {
@@ -14,137 +14,71 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -162,6 +96,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LzwtOeLBOQmYjZllDRbmkqrPC",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -196,8 +131,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.581711769Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -223,15 +158,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG56.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG56.json
index a8e666a79..9ba640950 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG56.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG56.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG56",
+  "id": "PMID_36446582_KBG56",
   "subject": {
     "id": "KBG56",
     "timeAtLastEncounter": {
@@ -14,158 +14,82 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -183,6 +107,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_dCebfKhYvutojtNzFEVZQYUcK",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -217,8 +142,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.592715978Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -244,15 +169,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG57.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG57.json
index 8f74dca55..c40f0d213 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG57.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG57.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG57",
+  "id": "PMID_36446582_KBG57",
   "subject": {
     "id": "KBG57",
     "timeAtLastEncounter": {
@@ -14,164 +14,88 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -189,6 +113,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_CLvWvkGjpVtXKgoLAuvVjRtcT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -223,8 +148,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.608327865Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -250,15 +175,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG58.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG58.json
index 8c9d7cc6e..40d5bb4b4 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG58.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG58.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG58",
+  "id": "PMID_36446582_KBG58",
   "subject": {
     "id": "KBG58",
     "timeAtLastEncounter": {
@@ -14,149 +14,78 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -174,31 +103,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89217281"
-                          },
-                          "endNumber": {
-                            "value": "89512722"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89217281-89512722)x1",
+                "id": "var_usrpGWLqGQIEkJgTyGPCaRuhv",
+                "label": "16q24.3(89283689-89579130)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -215,8 +126,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.614906072Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -242,15 +153,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG59.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG59.json
index b933115a9..ef0d62e60 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG59.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG59.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG59",
+  "id": "PMID_36446582_KBG59",
   "subject": {
     "id": "KBG59",
     "timeAtLastEncounter": {
@@ -14,148 +14,77 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -173,6 +102,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_CKQwxzhMSAeQqnratPspPeRZS",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -207,8 +137,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.499127149Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -234,15 +164,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG6.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG6.json
index bb4929f74..d854b0d15 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG6.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG6.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG6",
+  "id": "PMID_36446582_KBG6",
   "subject": {
     "id": "KBG6",
     "timeAtLastEncounter": {
@@ -14,156 +14,80 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -181,6 +105,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_wfBMNKTwmVwBWYNHfiouTgPOC",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -215,8 +140,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.392343997Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -242,15 +167,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG62.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG62.json
index 27c859a37..b6ef1e232 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG62.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG62.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG62",
+  "id": "PMID_36446582_KBG62",
   "subject": {
     "id": "KBG62",
     "timeAtLastEncounter": {
@@ -14,163 +14,87 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -188,6 +112,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_laxdqdAAGvmINSDpYalpMeZlM",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -222,8 +147,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.701441049Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -249,15 +174,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG63.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG63.json
index 98a4bcc15..4f1186c4e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG63.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG63.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG63",
+  "id": "PMID_36446582_KBG63",
   "subject": {
     "id": "KBG63",
     "timeAtLastEncounter": {
@@ -14,158 +14,82 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -183,6 +107,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_bZRsOnVmNyTuXVMMjjqxgKHMs",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -217,8 +142,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.525234937Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -244,15 +169,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG64.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG64.json
index 73d16d599..aeca934c2 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG64.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG64.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG64",
+  "id": "PMID_36446582_KBG64",
   "subject": {
     "id": "KBG64",
     "timeAtLastEncounter": {
@@ -14,44 +14,18 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     }
   ],
@@ -70,6 +44,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_JiDsfAIqHTrYnnKhkWyHTLwMW",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -104,8 +79,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.383330106Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -131,15 +106,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG65.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG65.json
index 0dbdc40d1..b39104890 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG65.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG65.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG65",
+  "id": "PMID_36446582_KBG65",
   "subject": {
     "id": "KBG65",
     "timeAtLastEncounter": {
@@ -12,140 +12,74 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
       }
     },
     {
       "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -163,6 +97,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_DzLxGkHVjSDNHnRTLZEYIGVYx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -197,8 +132,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.487523078Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -224,15 +159,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG66.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG66.json
index fb697af2d..02d056f90 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG66.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG66.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG66",
+  "id": "PMID_36446582_KBG66",
   "subject": {
     "id": "KBG66",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
@@ -103,36 +57,21 @@
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -150,6 +89,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_laxdqdAAGvmINSDpYalpMeZlM",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -184,8 +124,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.493133068Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -211,15 +151,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG7.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG7.json
index 1b97cf66e..f687767aa 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG7.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG7.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG7",
+  "id": "PMID_36446582_KBG7",
   "subject": {
     "id": "KBG7",
     "timeAtLastEncounter": {
@@ -14,158 +14,82 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -183,6 +107,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_UrTWXBRqqPnNHdZPtkdaUJWXP",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -217,8 +142,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.504033088Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -244,15 +169,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG8A.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG8A.json
index 2d01d431a..b64576546 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG8A.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG8A.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG8A",
+  "id": "PMID_36446582_KBG8A",
   "subject": {
     "id": "KBG8A",
     "timeAtLastEncounter": {
@@ -12,117 +12,67 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000343",
+        "label": "Long philtrum"
+      },
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -140,6 +90,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_BwDEWHqyZrvLHihXKcPIbNnXm",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -174,8 +125,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.416814088Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -201,15 +152,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG8B.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG8B.json
index 6619bae1e..1bfccc49b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG8B.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG8B.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG8B",
+  "id": "PMID_36446582_KBG8B",
   "subject": {
     "id": "KBG8B",
     "timeAtLastEncounter": {
@@ -12,93 +12,53 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -116,6 +76,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_BwDEWHqyZrvLHihXKcPIbNnXm",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -150,8 +111,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.424089193Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -177,15 +138,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_KBG9.json b/notebooks/KBG/phenopackets/PMID_36446582_KBG9.json
index adff50d3a..cdffa131b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_KBG9.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_KBG9.json
@@ -1,5 +1,5 @@
 {
-  "id": "KBG9",
+  "id": "PMID_36446582_KBG9",
   "subject": {
     "id": "KBG9",
     "timeAtLastEncounter": {
@@ -15,144 +15,77 @@
         "id": "HP:0001249",
         "label": "Intellectual disability"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P1Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -170,31 +103,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88788349"
-                          },
-                          "endNumber": {
-                            "value": "89454555"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(88788349_89454555)x1",
+                "id": "var_uGUdSceRBaDzuSNiqAuWqBbkj",
+                "label": "16q24.3(88854757_89520963)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -211,8 +126,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:35.429148912Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -238,15 +153,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Khalifa_2013_P1A.json b/notebooks/KBG/phenopackets/PMID_36446582_Khalifa2013_P1A.json
similarity index 59%
rename from notebooks/KBG/phenopackets/PMID_36446582_Khalifa_2013_P1A.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Khalifa2013_P1A.json
index dbf1f8645..18ee3c514 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Khalifa_2013_P1A.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Khalifa2013_P1A.json
@@ -1,5 +1,5 @@
 {
-  "id": "Khalifa, 2013_P1A",
+  "id": "PMID_36446582_Khalifa,_2013_P1A",
   "subject": {
     "id": "Khalifa, 2013_P1A",
     "timeAtLastEncounter": {
@@ -12,115 +12,65 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -138,31 +88,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89321705"
-                          },
-                          "endNumber": {
-                            "value": "89475518"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89321705_89475518)x1",
+                "id": "var_qGBNoYFnfcpCJhAWPuTqemXJA",
+                "label": "16q24.3(89388113_89541926)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -179,8 +111,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.633765220Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -206,15 +138,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Khalifa_2013_P1B.json b/notebooks/KBG/phenopackets/PMID_36446582_Khalifa2013_P1B.json
similarity index 62%
rename from notebooks/KBG/phenopackets/PMID_36446582_Khalifa_2013_P1B.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Khalifa2013_P1B.json
index 5a89141f7..ecbedcc7c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Khalifa_2013_P1B.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Khalifa2013_P1B.json
@@ -1,5 +1,5 @@
 {
-  "id": "Khalifa, 2013_P1B",
+  "id": "PMID_36446582_Khalifa,_2013_P1B",
   "subject": {
     "id": "Khalifa, 2013_P1B",
     "timeAtLastEncounter": {
@@ -12,85 +12,50 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -108,31 +73,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89321705"
-                          },
-                          "endNumber": {
-                            "value": "89475518"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89321705_89475518)x1",
+                "id": "var_qGBNoYFnfcpCJhAWPuTqemXJA",
+                "label": "16q24.3(89388113_89541926)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -149,8 +96,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.641245841Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -176,15 +123,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P1.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P1.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P1.json
index 94e099668..fc0a0ee2d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kim, 2015_P1",
+  "id": "PMID_36446582_Kim,_2015_P1",
   "subject": {
     "id": "Kim, 2015_P1",
     "timeAtLastEncounter": {
@@ -14,112 +14,56 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -137,6 +81,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_WLQgUadCphpZbfgEZFneQaFJx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -171,8 +116,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.653258085Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -198,15 +143,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P2.json
similarity index 70%
rename from notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P2.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P2.json
index db10268cd..669572a25 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kim, 2015_P2",
+  "id": "PMID_36446582_Kim,_2015_P2",
   "subject": {
     "id": "Kim, 2015_P2",
     "timeAtLastEncounter": {
@@ -14,123 +14,62 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -148,6 +87,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_WLQgUadCphpZbfgEZFneQaFJx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -182,8 +122,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.660639047Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -209,15 +149,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P3.json
similarity index 73%
rename from notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P3.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P3.json
index 214a73d28..de553c2c6 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kim_2015_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kim2015_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kim, 2015_P3",
+  "id": "PMID_36446582_Kim,_2015_P3",
   "subject": {
     "id": "Kim, 2015_P3",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_WLQgUadCphpZbfgEZFneQaFJx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.671454906Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kleyner_2016.json b/notebooks/KBG/phenopackets/PMID_36446582_Kleyner2016.json
similarity index 70%
rename from notebooks/KBG/phenopackets/PMID_36446582_Kleyner_2016.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Kleyner2016.json
index 4de6a51e4..92ec0126f 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kleyner_2016.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kleyner2016.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kleyner, 2016",
+  "id": "PMID_36446582_Kleyner,_2016",
   "subject": {
     "id": "Kleyner, 2016",
     "timeAtLastEncounter": {
@@ -14,112 +14,56 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -137,6 +81,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_eATSpFGGDvOOSZpXgHRahHJyW",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -171,8 +116,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.679077863Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -198,15 +143,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P1.json
index 58631b627..60c7842f6 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P1",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P1",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P1",
     "timeAtLastEncounter": {
@@ -9,39 +9,24 @@
     }
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -59,6 +44,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -93,8 +79,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.689326047Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -120,15 +106,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P10.json
index 436ec8189..545613522 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P10.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P10.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P10",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P10",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P10",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -81,12 +45,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,6 +63,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_nNIdKWigwVoaHPiHPQJOirZeX",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -138,8 +98,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.696186065Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -165,15 +125,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P11.json
index ef9fc7ade..5401ae35b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P11.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P11.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P11",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P11",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P11",
     "timeAtLastEncounter": {
@@ -13,44 +13,18 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -69,6 +43,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_lyKKZOAtYXjfsexAMHBrNSzOb",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -103,8 +78,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.703124046Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -130,15 +105,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P12.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P12.json
index 230ba222b..cc753a8da 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P12.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P12.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P12",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P12",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P12",
     "timeAtLastEncounter": {
@@ -13,44 +13,18 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
@@ -58,12 +32,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -81,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_JlnDiPpDxemiPrURywqJIuSfd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.726621866Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P13.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P13.json
index 499e05725..b424abf6d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P13.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P13.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P13",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P13",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P13",
     "timeAtLastEncounter": {
@@ -11,46 +11,26 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -58,12 +38,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -81,6 +56,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_MESiVmKKGJkQETMqiwLyBxfwz",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.738373041Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P14.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P14.json
index ecbeace6f..7fddbab21 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P14.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P14.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P14",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P14",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P14",
     "timeAtLastEncounter": {
@@ -11,24 +11,14 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
@@ -36,12 +26,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -59,31 +44,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87921245"
-                          },
-                          "endNumber": {
-                            "value": "89417758"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-24.3(87921245-89417758)x1",
+                "id": "var_FpxeoHMhWdqGwJKGAZreNgqYV",
+                "label": "16q24.2-24.3(87954851-89484166)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -100,8 +67,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.748608112Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -127,15 +94,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P15.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P15.json
index 2d44fc822..cdc0400c9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P15.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P15.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P15",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P15",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P15",
     "timeAtLastEncounter": {
@@ -11,27 +11,17 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -49,31 +39,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89171712"
-                          },
-                          "endNumber": {
-                            "value": "89274753"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89171712-89274753)x1",
+                "id": "var_LaBQCENbytVKafldSLXwIlXBP",
+                "label": "16q24.3(89238120-89341161)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -90,8 +62,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.752521991Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -117,15 +89,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P16.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P16.json
index 6e08a9055..e4bb52180 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P16.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P16.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P16",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P16",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P16",
     "timeAtLastEncounter": {
@@ -11,38 +11,23 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,31 +45,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89277485"
-                          },
-                          "endNumber": {
-                            "value": "89517986"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89277485-89517986)x1",
+                "id": "var_igJjinhiYcepYUKSaMkQIkzIb",
+                "label": "16q24.3(89343893-89584394)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -101,8 +68,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.757539987Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -128,15 +95,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P17.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P17.json
index 5f2bce7af..9b81cba75 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P17.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P17.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P17",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P17",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P17",
     "timeAtLastEncounter": {
@@ -9,74 +9,38 @@
     }
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -94,34 +58,16 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89195406"
-                          },
-                          "endNumber": {
-                            "value": "89489612"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "3"
-                    }
-                  }
-                },
-                "description": "16q24.3(89195406-89489612)x3",
+                "id": "var_sgSTmPGBgTtgAEctYuVUXfsKh",
+                "label": "16q24.3(89261814-89556020)x3 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
+                  "id": "SO:1000037",
+                  "label": "chromosomal_duplication"
                 },
                 "allelicState": {
                   "id": "GENO:0000135",
@@ -135,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.770246982Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -162,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P18.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P18.json
index 4bb5c14f2..3e241cc0e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P18.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P18.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P18",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P18",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P18",
     "timeAtLastEncounter": {
@@ -14,36 +14,21 @@
         "id": "HP:0001249",
         "label": "Intellectual disability"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -61,31 +46,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89266045"
-                          },
-                          "endNumber": {
-                            "value": "89305443"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89266045-89305443)x1",
+                "id": "var_rQpwxksUQskrOxBjJharnRWJv",
+                "label": "16q24.3(89332453-89371851)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -102,8 +69,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.779308080Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -129,15 +96,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P19.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P19.json
index fd458a699..01e5615b9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P19.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P19.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P19",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P19",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P19",
     "timeAtLastEncounter": {
@@ -13,58 +13,27 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,31 +51,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89277485"
-                          },
-                          "endNumber": {
-                            "value": "89431539"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89277485-89431539)x1",
+                "id": "var_wtnHpSItKEKcEwDqyjvDydnst",
+                "label": "16q24.3(89343893-89497947)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -123,8 +74,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.786789178Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -150,15 +101,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P2.json
index bb4dd6142..394b291be 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P2",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P2",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P2",
     "timeAtLastEncounter": {
@@ -11,49 +11,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.798066854Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P20.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P20.json
index fb0868a55..812be867a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P20.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P20.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P20",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P20",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P20",
     "timeAtLastEncounter": {
@@ -11,26 +11,16 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -48,31 +38,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89458995"
-                          },
-                          "endNumber": {
-                            "value": "89487166"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89458995-89487166)x1",
+                "id": "var_VEQjlzOTDomiIzicVgXjtCrhp",
+                "label": "16q24.3(89525403-89553574)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -89,8 +61,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.809198141Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -116,15 +88,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P21.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P21.json
index 134319d38..df66b0bca 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P21.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P21.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P21",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P21",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P21",
     "timeAtLastEncounter": {
@@ -11,35 +11,20 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -58,31 +43,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89481147"
-                          },
-                          "endNumber": {
-                            "value": "89489612"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89481147-89489612)x1",
+                "id": "var_rzocWzVbCQqnZAhrwhjtQwFIy",
+                "label": "16q24.3(89547555-89556020)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -99,8 +66,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.820513010Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -126,15 +93,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P22.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P22.json
index 53e054a2a..3f0d173c1 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P22.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P22.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P22",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P22",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P22",
     "timeAtLastEncounter": {
@@ -13,58 +13,27 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,31 +51,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89409759"
-                          },
-                          "endNumber": {
-                            "value": "89418313"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89409759-89418313)x1",
+                "id": "var_JdVzkClCTxqOwxUeTZgsdGIDR",
+                "label": "16q24.3(89476167-89484721)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -123,8 +74,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.827512025Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -150,15 +101,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P23.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P23.json
index fe86a038e..f4034de92 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P23.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P23.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P23",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P23",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P23",
     "timeAtLastEncounter": {
@@ -13,66 +13,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -91,31 +55,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89277485"
-                          },
-                          "endNumber": {
-                            "value": "89489140"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89277485-89489140)x1",
+                "id": "var_tdeMHznGevnrntiNGkJtCjAmC",
+                "label": "16q24.3(89343893-89555548)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -132,8 +78,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.834349155Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -159,15 +105,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P3.json
index 36ff1725b..260323329 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P3",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P3",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P3",
     "timeAtLastEncounter": {
@@ -11,38 +11,23 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,6 +45,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_QvmNYxosnnPeFUtsWjzYgxiZA",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -94,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.842842102Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -121,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P4.json
index c1d67ffa8..8ab5cbc12 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P4.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P4",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P4",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P4",
     "timeAtLastEncounter": {
@@ -12,59 +12,34 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_wrGzrTsttxChuFFCOxoGyDKLI",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -116,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.852018833Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -143,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P5.json
index abfcfb93b..aa24cb932 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P5.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P5",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P5",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P5",
     "timeAtLastEncounter": {
@@ -12,61 +12,36 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000325",
+        "label": "Triangular face"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -84,6 +59,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_qVYjKcxfzvGyNcedibiICZUzR",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -118,8 +94,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.859175920Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -145,15 +121,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P6.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P6.json
index 2056234c7..eb2a677c5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P6.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P6.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P6",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P6",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P6",
     "timeAtLastEncounter": {
@@ -14,68 +14,32 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_MewcColkXBfsgBTggLjYmGRzt",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.866209030Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P7.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P7.json
index 33070a506..803509af7 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P7.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P7.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P7",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P7",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P7",
     "timeAtLastEncounter": {
@@ -11,35 +11,20 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -58,6 +43,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_nWbHllhesrutNAldaVqiewIvn",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -92,8 +78,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.879183769Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -119,15 +105,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P8.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P8.json
index deeee5bcc..5968891eb 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P8.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P8.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P8",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P8",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P8",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -70,12 +39,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_UdFgENPpEZovIrKFDZjHBOQzt",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.886452913Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P9.json b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P9.json
index b76e631ae..e3b9c4f95 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P9.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Kutkowska-Kazmierczak2021_P9.json
@@ -1,5 +1,5 @@
 {
-  "id": "Kutkowska-Kazmierczak2021_P9",
+  "id": "PMID_36446582_Kutkowska-Kazmierczak2021_P9",
   "subject": {
     "id": "Kutkowska-Kazmierczak2021_P9",
     "timeAtLastEncounter": {
@@ -13,44 +13,18 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
@@ -58,12 +32,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -81,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LgjlIjozInuzgJnDWsJBRTUAh",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.894191026Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Libianto2019.json b/notebooks/KBG/phenopackets/PMID_36446582_Libianto2019.json
index 5444b67f9..0646a55e9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Libianto2019.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Libianto2019.json
@@ -1,5 +1,5 @@
 {
-  "id": "Libianto2019",
+  "id": "PMID_36446582_Libianto2019",
   "subject": {
     "id": "Libianto2019",
     "timeAtLastEncounter": {
@@ -14,91 +14,45 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -116,6 +70,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_KcEFmtaoEkUeERFebIvYoPiLt",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -150,8 +105,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.905045986Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -177,15 +132,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Lim2014.json b/notebooks/KBG/phenopackets/PMID_36446582_Lim2014.json
index f88297362..a6f60ca49 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Lim2014.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Lim2014.json
@@ -1,5 +1,5 @@
 {
-  "id": "Lim2014",
+  "id": "PMID_36446582_Lim2014",
   "subject": {
     "id": "Lim2014",
     "timeAtLastEncounter": {
@@ -14,112 +14,56 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -137,31 +81,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89283558"
-                          },
-                          "endNumber": {
-                            "value": "89527445"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89283558-89527445)x1",
+                "id": "var_bGdGMYurPoBvqKRiyXayHlzPE",
+                "label": "16q24.3(89349966-89593853)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -178,8 +104,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.913460969Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -205,15 +131,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_30_(28).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3028.json
similarity index 79%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_30_(28).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_3028.json
index 814126bec..9deb9dadc 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_30_(28).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3028.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_30 (28)",
+  "id": "PMID_36446582_Low,_2016_30_(28)",
   "subject": {
     "id": "Low, 2016_30 (28)",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -92,6 +56,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sZzpooyAFCeoahDjoKRIKOyHa",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -126,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.923834800Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -153,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_31_(29).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3129.json
similarity index 77%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_31_(29).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_3129.json
index 518347b82..ad7143cc3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_31_(29).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3129.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_31 (29)",
+  "id": "PMID_36446582_Low,_2016_31_(29)",
   "subject": {
     "id": "Low, 2016_31 (29)",
     "timeAtLastEncounter": {
@@ -14,44 +14,18 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
@@ -59,12 +33,7 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_GBvqBgYHiFjBkOJPuIvceaaKQ",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -116,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.931154012Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -143,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_32_(30).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3230.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_32_(30).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_3230.json
index 7f2c5865e..dd5abfb18 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_32_(30).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3230.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_32 (30)",
+  "id": "PMID_36446582_Low,_2016_32_(30)",
   "subject": {
     "id": "Low, 2016_32 (30)",
     "timeAtLastEncounter": {
@@ -12,38 +12,23 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -61,6 +46,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_GBvqBgYHiFjBkOJPuIvceaaKQ",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -95,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.938040971Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -122,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_33_(31).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3331.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_33_(31).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_3331.json
index 9c97b8870..29514cd85 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_33_(31).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3331.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_33 (31)",
+  "id": "PMID_36446582_Low,_2016_33_(31)",
   "subject": {
     "id": "Low, 2016_33 (31)",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,6 +52,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_GBvqBgYHiFjBkOJPuIvceaaKQ",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -106,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.953786849Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -133,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_34_(32).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3432.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_34_(32).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_3432.json
index b6f52eb22..802c5732d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_34_(32).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_3432.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_34 (32)",
+  "id": "PMID_36446582_Low,_2016_34_(32)",
   "subject": {
     "id": "Low, 2016_34 (32)",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_CMakBchehRYaBTpLcaNswQIjc",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.962031126Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P10_(18).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1018.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P10_(18).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1018.json
index fa9747be5..10550e008 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P10_(18).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1018.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P10 (18)",
+  "id": "PMID_36446582_Low,_2016_P10_(18)",
   "subject": {
     "id": "Low, 2016_P10 (18)",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.976378917Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P11_(20).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1120.json
similarity index 77%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P11_(20).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1120.json
index fcb298294..d2f97a3d6 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P11_(20).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1120.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P11 (20)",
+  "id": "PMID_36446582_Low,_2016_P11_(20)",
   "subject": {
     "id": "Low, 2016_P11 (20)",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -81,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.984401941Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P1_(19).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P119.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P1_(19).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P119.json
index e514373fe..27a2cb6de 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P1_(19).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P119.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P1 (19)",
+  "id": "PMID_36446582_Low,_2016_P1_(19)",
   "subject": {
     "id": "Low, 2016_P1 (19)",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,6 +52,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -106,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.969182968Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -133,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P12_(13).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1213.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P12_(13).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1213.json
index bbc2df5cc..8ee9e8541 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P12_(13).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1213.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P12 (13)",
+  "id": "PMID_36446582_Low,_2016_P12_(13)",
   "subject": {
     "id": "Low, 2016_P12 (13)",
     "timeAtLastEncounter": {
@@ -12,37 +12,22 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,6 +45,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -94,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:36.999124050Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -121,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P13_(27).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1327.json
similarity index 76%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P13_(27).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1327.json
index cd0349b16..2bce951e9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P13_(27).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1327.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P13 (27)",
+  "id": "PMID_36446582_Low,_2016_P13_(27)",
   "subject": {
     "id": "Low, 2016_P13 (27)",
     "timeAtLastEncounter": {
@@ -12,59 +12,34 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -116,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.006474018Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -143,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P14_(2).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P142.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P14_(2).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P142.json
index 406d9356e..4fd6f637d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P14_(2).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P142.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P14 (2)",
+  "id": "PMID_36446582_Low,_2016_P14_(2)",
   "subject": {
     "id": "Low, 2016_P14 (2)",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_mpcOPrcBerHpzPWeOvlXUFtzx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.013607025Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P15_(3).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P153.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P15_(3).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P153.json
index 22edd4b77..c9b5a0fe8 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P15_(3).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P153.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P15 (3)",
+  "id": "PMID_36446582_Low,_2016_P15_(3)",
   "subject": {
     "id": "Low, 2016_P15 (3)",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,6 +52,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_OOWmPNuozzcuYgwhPVrFcxhfS",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -106,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.020764827Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -133,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P16_(9).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P169.json
similarity index 76%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P16_(9).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P169.json
index 43e195ccb..71577e412 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P16_(9).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P169.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P16 (9)",
+  "id": "PMID_36446582_Low,_2016_P16_(9)",
   "subject": {
     "id": "Low, 2016_P16 (9)",
     "timeAtLastEncounter": {
@@ -14,33 +14,12 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
@@ -48,12 +27,7 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +45,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_SxIpCEJwldwwSbbwumyPRPbUo",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.028553009Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P17_(10).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1710.json
similarity index 76%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P17_(10).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1710.json
index 2a670767a..75c1923b0 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P17_(10).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1710.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P17 (10)",
+  "id": "PMID_36446582_Low,_2016_P17_(10)",
   "subject": {
     "id": "Low, 2016_P17 (10)",
     "timeAtLastEncounter": {
@@ -12,60 +12,35 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -83,6 +58,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_AMUeqTRHMWjtCYLSrzSJOEOZb",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -117,8 +93,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.037396907Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -144,15 +120,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P18_(12).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1812.json
similarity index 76%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P18_(12).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1812.json
index 1c6f601ec..d45050149 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P18_(12).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P1812.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P18 (12)",
+  "id": "PMID_36446582_Low,_2016_P18_(12)",
   "subject": {
     "id": "Low, 2016_P18 (12)",
     "timeAtLastEncounter": {
@@ -14,33 +14,18 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
@@ -48,23 +33,7 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EioaIfduJfrzuNWQrpMTAzbKT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -116,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.049240112Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -143,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P20_(14).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2014.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P20_(14).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2014.json
index 0f091bf07..b2e5c4458 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P20_(14).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2014.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P20 (14)",
+  "id": "PMID_36446582_Low,_2016_P20_(14)",
   "subject": {
     "id": "Low, 2016_P20 (14)",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,6 +52,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_lrSFGMrdlOwWcwmYgKPTCNcmh",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -106,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.073509216Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -133,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P21_(15).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2115.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P21_(15).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2115.json
index b8fe7eeae..c553c6ceb 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P21_(15).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2115.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P21 (15)",
+  "id": "PMID_36446582_Low,_2016_P21_(15)",
   "subject": {
     "id": "Low, 2016_P21 (15)",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,6 +52,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_duhOYbsWHWvvumZAIIBmSBNhl",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -106,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.081100940Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -133,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P22_(16).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2216.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P22_(16).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2216.json
index d32a9b12b..e640d7dd3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P22_(16).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2216.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P22 (16)",
+  "id": "PMID_36446582_Low,_2016_P22_(16)",
   "subject": {
     "id": "Low, 2016_P22 (16)",
     "timeAtLastEncounter": {
@@ -12,49 +12,29 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -72,6 +52,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_uuaqWjwaTkcZDMLBHWsuLjQOc",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -106,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.089663982Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -133,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P2_(26).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P226.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P2_(26).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P226.json
index b70b6af7c..026221289 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P2_(26).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P226.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P2 (26)",
+  "id": "PMID_36446582_Low,_2016_P2_(26)",
   "subject": {
     "id": "Low, 2016_P2 (26)",
     "timeAtLastEncounter": {
@@ -12,38 +12,23 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -61,6 +46,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -95,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.065328836Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -122,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P23_(17).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2317.json
similarity index 76%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P23_(17).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2317.json
index bdd0c6342..6e90154aa 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P23_(17).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2317.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P23 (17)",
+  "id": "PMID_36446582_Low,_2016_P23_(17)",
   "subject": {
     "id": "Low, 2016_P23 (17)",
     "timeAtLastEncounter": {
@@ -14,44 +14,18 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -70,6 +44,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EBCbUvNEdMvEDeGHVMwXfpumQ",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -104,8 +79,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.103435039Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -131,15 +106,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P24_(21).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2421.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P24_(21).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2421.json
index ef11e7fa0..ce0b854a7 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P24_(21).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2421.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P24 (21)",
+  "id": "PMID_36446582_Low,_2016_P24_(21)",
   "subject": {
     "id": "Low, 2016_P24 (21)",
     "timeAtLastEncounter": {
@@ -12,38 +12,23 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -61,6 +46,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EtQBeWQBCAIZxIBiHGdvobQkS",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -95,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.111597061Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -122,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P25_(22).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2522.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P25_(22).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2522.json
index 1f921a331..60b9bc040 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P25_(22).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2522.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P25 (22)",
+  "id": "PMID_36446582_Low,_2016_P25_(22)",
   "subject": {
     "id": "Low, 2016_P25 (22)",
     "timeAtLastEncounter": {
@@ -13,38 +13,23 @@
     {
       "type": {
         "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -62,6 +47,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LLVAeAYnhXIKirSpwzLazUaBK",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -96,8 +82,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.118995904Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -123,15 +109,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P26_(23).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2623.json
similarity index 77%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P26_(23).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2623.json
index a44a39157..3f3b5b8e3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P26_(23).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2623.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P26 (23)",
+  "id": "PMID_36446582_Low,_2016_P26_(23)",
   "subject": {
     "id": "Low, 2016_P26 (23)",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -81,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_pWpJWdwHwdOQdPyOgbcTYuOPS",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.127846002Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P27_(24).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2724.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P27_(24).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2724.json
index 7fabda4b1..e8bc38324 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P27_(24).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2724.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P27 (24)",
+  "id": "PMID_36446582_Low,_2016_P27_(24)",
   "subject": {
     "id": "Low, 2016_P27 (24)",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_YQRVWlHMOFZKJIasOgjarbIIY",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.141018152Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P28_(25).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2825.json
similarity index 77%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P28_(25).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2825.json
index 06d513296..2a9519db1 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P28_(25).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2825.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P28 (25)",
+  "id": "PMID_36446582_Low,_2016_P28_(25)",
   "subject": {
     "id": "Low, 2016_P28 (25)",
     "timeAtLastEncounter": {
@@ -14,33 +14,18 @@
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
@@ -48,23 +33,7 @@
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_TfWtbfObqZQXShdwQHXuFTylY",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -116,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.156826019Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -143,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P29_(27).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2927.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P29_(27).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2927.json
index b5257bd8e..c073b0073 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P29_(27).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P2927.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P29 (27)",
+  "id": "PMID_36446582_Low,_2016_P29_(27)",
   "subject": {
     "id": "Low, 2016_P29 (27)",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_TMUfjODoQJILISYrnWkafsFqV",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.166316032Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P3_(4).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P34.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P3_(4).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P34.json
index 9b9b29dc7..d63619e0e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P3_(4).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P34.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P3 (4)",
+  "id": "PMID_36446582_Low,_2016_P3_(4)",
   "subject": {
     "id": "Low, 2016_P3 (4)",
     "timeAtLastEncounter": {
@@ -12,38 +12,23 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -61,6 +46,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -95,8 +81,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.173999071Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -122,15 +108,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P4_(5).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P45.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P4_(5).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P45.json
index c7aaeb7d8..0d09bd343 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P4_(5).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P45.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P4 (5)",
+  "id": "PMID_36446582_Low,_2016_P4_(5)",
   "subject": {
     "id": "Low, 2016_P4 (5)",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.181028127Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P5_(6).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P56.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P5_(6).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P56.json
index 314b3a045..349c834fa 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P5_(6).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P56.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P5 (6)",
+  "id": "PMID_36446582_Low,_2016_P5_(6)",
   "subject": {
     "id": "Low, 2016_P5 (6)",
     "timeAtLastEncounter": {
@@ -12,48 +12,28 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.188826799Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P6_(7).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P67.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P6_(7).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P67.json
index 90ff6a67b..21f679eb0 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P6_(7).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P67.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P6 (7)",
+  "id": "PMID_36446582_Low,_2016_P6_(7)",
   "subject": {
     "id": "Low, 2016_P6 (7)",
     "timeAtLastEncounter": {
@@ -12,37 +12,22 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -60,6 +45,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -94,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.195842027Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -121,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P78.json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P78.json
new file mode 100644
index 000000000..8adb0dcea
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P78.json
@@ -0,0 +1,136 @@
+{
+  "id": "PMID_36446582_Low,_2016_P7_(8)",
+  "subject": {
+    "id": "Low, 2016_P7 (8)",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0011446",
+        "label": "Abnormality of mental function"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Low, 2016_P7 (8)",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Low, 2016_P7 (8)",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "expressions": [
+                  {
+                    "syntax": "hgvs.c",
+                    "value": "NM_013275.6:c.1903_1907del"
+                  },
+                  {
+                    "syntax": "hgvs.g",
+                    "value": "NC_000016.10:g.89284641_89284645del"
+                  }
+                ],
+                "vcfRecord": {
+                  "genomeAssembly": "hg38",
+                  "chrom": "chr16",
+                  "pos": "89284634",
+                  "ref": "GTGTTT",
+                  "alt": "G"
+                },
+                "moleculeContext": "genomic",
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:37.203180074Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P8_(33).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P833.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P8_(33).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P833.json
index a85512039..f5f200184 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P8_(33).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P833.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P8 (33)",
+  "id": "PMID_36446582_Low,_2016_P8_(33)",
   "subject": {
     "id": "Low, 2016_P8 (33)",
     "timeAtLastEncounter": {
@@ -13,38 +13,23 @@
     {
       "type": {
         "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
+        "label": "Abnormality of mental function"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -62,6 +47,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -96,8 +82,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.212258100Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -123,15 +109,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P9_(1).json b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P91.json
similarity index 77%
rename from notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P9_(1).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Low2016_P91.json
index 8ce417b4b..8503be359 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P9_(1).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2016_P91.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low, 2016_P9 (1)",
+  "id": "PMID_36446582_Low,_2016_P9_(1)",
   "subject": {
     "id": "Low, 2016_P9 (1)",
     "timeAtLastEncounter": {
@@ -14,68 +14,32 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.249806165Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low2017.json b/notebooks/KBG/phenopackets/PMID_36446582_Low2017.json
index f78c2ead9..b34c54e63 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low2017.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Low2017.json
@@ -1,5 +1,5 @@
 {
-  "id": "Low2017",
+  "id": "PMID_36446582_Low2017",
   "subject": {
     "id": "Low2017",
     "timeAtLastEncounter": {
@@ -14,121 +14,60 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -136,12 +75,7 @@
         "id": "HP:0000365",
         "label": "Hearing impairment"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -159,6 +93,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_orACxEaHcHdmSGdfWkORrouVt",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -193,8 +128,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.266165971Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -220,15 +155,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P7_(8).json b/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P7_(8).json
deleted file mode 100644
index a1811b019..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Low_2016_P7_(8).json
+++ /dev/null
@@ -1,87 +0,0 @@
-{
-  "id": "Low, 2016_P7 (8)",
-  "subject": {
-    "id": "Low, 2016_P7 (8)",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Mattei2021.json b/notebooks/KBG/phenopackets/PMID_36446582_Mattei2021.json
index 775ed5ab7..9634c78c2 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Mattei2021.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Mattei2021.json
@@ -1,5 +1,5 @@
 {
-  "id": "Mattei2021",
+  "id": "PMID_36446582_Mattei2021",
   "subject": {
     "id": "Mattei2021",
     "timeAtLastEncounter": {
@@ -12,82 +12,47 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,6 +70,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -139,8 +105,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.276037931Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -166,15 +132,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2013.json b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2013.json
new file mode 100644
index 000000000..5afdd979d
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2013.json
@@ -0,0 +1,175 @@
+{
+  "id": "PMID_36446582_Miyatake,_2013",
+  "subject": {
+    "id": "Miyatake, 2013",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000343",
+        "label": "Long philtrum"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Miyatake, 2013",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Miyatake, 2013",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_cJuGEjFCubPQpkrXxnVOyBUlJ",
+                "label": "16q24.2-q24.3(88641808-89332049)x1  (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:37.284332036Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P1.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P1.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P1.json
index 500b76c47..77804b3bb 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Miyatake, 2017_P1",
+  "id": "PMID_36446582_Miyatake,_2017_P1",
   "subject": {
     "id": "Miyatake, 2017_P1",
     "timeAtLastEncounter": {
@@ -14,80 +14,39 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,6 +64,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -139,8 +99,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.295639991Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -166,15 +126,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P2.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P2.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P2.json
index bba61b817..33a1418d5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Miyatake, 2017_P2",
+  "id": "PMID_36446582_Miyatake,_2017_P2",
   "subject": {
     "id": "Miyatake, 2017_P2",
     "timeAtLastEncounter": {
@@ -14,90 +14,44 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -115,6 +69,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_HQjwVnWbzvVEdGzBPwfqKfTCA",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -149,8 +104,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.303210973Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -176,15 +131,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P3.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P3.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P3.json
index 0da2b32d9..8eab313a4 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2017_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake2017_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Miyatake, 2017_P3",
+  "id": "PMID_36446582_Miyatake,_2017_P3",
   "subject": {
     "id": "Miyatake, 2017_P3",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
@@ -70,24 +39,14 @@
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,6 +64,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_DcDeEtOqtFUUcbsNpkAeDCTgr",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -139,8 +99,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.310875892Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -166,15 +126,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2013.json b/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2013.json
deleted file mode 100644
index c818358b5..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Miyatake_2013.json
+++ /dev/null
@@ -1,244 +0,0 @@
-{
-  "id": "Miyatake, 2013",
-  "subject": {
-    "id": "Miyatake, 2013",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Miyatake, 2013",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Miyatake, 2013",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88575400"
-                          },
-                          "endNumber": {
-                            "value": "89265641"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3(88575400-89265641)x1 ",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P10_(7.1.).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1071.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P10_(7.1.).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1071.json
index 04396d4de..75173504d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P10_(7.1.).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1071.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P10 (7.1.)",
+  "id": "PMID_36446582_Murray,_2017_P10_(7.1.)",
   "subject": {
     "id": "Murray, 2017_P10 (7.1.)",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -81,12 +45,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,6 +63,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_HQVBBBYxQUFVQoeuwDQnBQCto",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -138,8 +98,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.329539060Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -165,15 +125,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P1_(1.1).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P111.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P1_(1.1).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P111.json
index 0df4c80bd..4a9beadeb 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P1_(1.1).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P111.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P1 (1.1)",
+  "id": "PMID_36446582_Murray,_2017_P1_(1.1)",
   "subject": {
     "id": "Murray, 2017_P1 (1.1)",
     "timeAtLastEncounter": {
@@ -14,113 +14,57 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -138,6 +82,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -172,8 +117,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.318548917Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -199,15 +144,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P11_(8.1.).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1181.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P11_(8.1.).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1181.json
index 73bf8c46d..8aa1edb42 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P11_(8.1.).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1181.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P11 (8.1.)",
+  "id": "PMID_36446582_Murray,_2017_P11_(8.1.)",
   "subject": {
     "id": "Murray, 2017_P11 (8.1.)",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ISAesQnPWoUvxfoUiiZniGvpS",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.337402820Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P12_(9.1).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1291.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P12_(9.1).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1291.json
index 59e573ace..c8f9296dc 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P12_(9.1).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P1291.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P12 (9.1)",
+  "id": "PMID_36446582_Murray,_2017_P12_(9.1)",
   "subject": {
     "id": "Murray, 2017_P12 (9.1)",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_HQjwVnWbzvVEdGzBPwfqKfTCA",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.348753929Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P13_(11.1).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P13111.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P13_(11.1).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P13111.json
index c783f34a2..3c92e3a3f 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P13_(11.1).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P13111.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P13 (11.1)",
+  "id": "PMID_36446582_Murray,_2017_P13_(11.1)",
   "subject": {
     "id": "Murray, 2017_P13 (11.1)",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_csxXhfgqHoQBxnMPqmMrnBSlN",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.356770038Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P16_(13.1).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P16131.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P16_(13.1).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P16131.json
index aaac590d6..3d9689875 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P16_(13.1).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P16131.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P16 (13.1)",
+  "id": "PMID_36446582_Murray,_2017_P16_(13.1)",
   "subject": {
     "id": "Murray, 2017_P16 (13.1)",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_bFuvmKQIubUVZCQmIcdUMSBnf",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.366202831Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P2_(1.2).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P212.json
similarity index 76%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P2_(1.2).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P212.json
index 29c1d2fbf..3c468a9ff 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P2_(1.2).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P212.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P2 (1.2)",
+  "id": "PMID_36446582_Murray,_2017_P2_(1.2)",
   "subject": {
     "id": "Murray, 2017_P2 (1.2)",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.396808862Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P3_(1.3).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P313.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P3_(1.3).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P313.json
index 111930d15..4d19f9f94 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P3_(1.3).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P313.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P3 (1.3)",
+  "id": "PMID_36446582_Murray,_2017_P3_(1.3)",
   "subject": {
     "id": "Murray, 2017_P3 (1.3)",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
@@ -70,36 +39,21 @@
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -117,6 +71,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -151,8 +106,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.411711931Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -178,15 +133,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P4_(2.1).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P421.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P4_(2.1).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P421.json
index f800abb44..f828d899a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P4_(2.1).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P421.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P4 (2.1)",
+  "id": "PMID_36446582_Murray,_2017_P4_(2.1)",
   "subject": {
     "id": "Murray, 2017_P4 (2.1)",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -103,12 +57,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -126,6 +75,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LZdxFCcajVLuVmWxBGsqnkRUd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -160,8 +110,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.419851064Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -187,15 +137,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P5_(3.1).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P531.json
similarity index 70%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P5_(3.1).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P531.json
index 02ad3fb78..6d2fb9640 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P5_(3.1).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P531.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P5 (3.1)",
+  "id": "PMID_36446582_Murray,_2017_P5_(3.1)",
   "subject": {
     "id": "Murray, 2017_P5 (3.1)",
     "timeAtLastEncounter": {
@@ -14,113 +14,57 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -138,6 +82,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_yfQJzuvTNxeUIBjVeFDfDbFvM",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -172,8 +117,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.427378892Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -199,15 +144,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P6_(3.2).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P632.json
similarity index 72%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P6_(3.2).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P632.json
index 379700f6d..19076b27c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P6_(3.2).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P632.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P6 (3.2)",
+  "id": "PMID_36446582_Murray,_2017_P6_(3.2)",
   "subject": {
     "id": "Murray, 2017_P6 (3.2)",
     "timeAtLastEncounter": {
@@ -14,102 +14,51 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -127,6 +76,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_yfQJzuvTNxeUIBjVeFDfDbFvM",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -161,8 +111,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.441271066Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -188,15 +138,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P7_(3.3).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P733.json
similarity index 77%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P7_(3.3).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P733.json
index ffd20d54d..833363e7b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P7_(3.3).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P733.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P7 (3.3)",
+  "id": "PMID_36446582_Murray,_2017_P7_(3.3)",
   "subject": {
     "id": "Murray, 2017_P7 (3.3)",
     "timeAtLastEncounter": {
@@ -14,68 +14,32 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000343",
+        "label": "Long philtrum"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_yfQJzuvTNxeUIBjVeFDfDbFvM",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.448905944Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P8_(4.1).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P841.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P8_(4.1).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P841.json
index 9704a6aff..a6e9db066 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P8_(4.1).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P841.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P8 (4.1)",
+  "id": "PMID_36446582_Murray,_2017_P8_(4.1)",
   "subject": {
     "id": "Murray, 2017_P8 (4.1)",
     "timeAtLastEncounter": {
@@ -14,110 +14,54 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -136,6 +80,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -170,8 +115,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.461282968Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -197,15 +142,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P9_(5.1.).json b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P951.json
similarity index 68%
rename from notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P9_(5.1.).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P951.json
index 6abb52578..c41156d83 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Murray_2017_P9_(5.1.).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Murray2017_P951.json
@@ -1,5 +1,5 @@
 {
-  "id": "Murray, 2017_P9 (5.1.)",
+  "id": "PMID_36446582_Murray,_2017_P9_(5.1.)",
   "subject": {
     "id": "Murray, 2017_P9 (5.1.)",
     "timeAtLastEncounter": {
@@ -14,110 +14,54 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -125,36 +69,21 @@
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -172,6 +101,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_pVVhWgQHfsucMFOyOLvgZQbis",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -206,8 +136,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.469546079Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -233,15 +163,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P1.json
new file mode 100644
index 000000000..5cb01b785
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P1.json
@@ -0,0 +1,160 @@
+{
+  "id": "PMID_36446582_Novara,_2017_P1",
+  "subject": {
+    "id": "Novara, 2017_P1",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Novara, 2017_P1",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Novara, 2017_P1",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_lGaDZOXrDqfqQyJlEnWMhEkVt",
+                "label": "16q24.2-q24.3 (88635000_89628950)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:37.486618041Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P11.json
new file mode 100644
index 000000000..eee8146e0
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P11.json
@@ -0,0 +1,149 @@
+{
+  "id": "PMID_36446582_Novara,_2017_P11",
+  "subject": {
+    "id": "Novara, 2017_P11",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "FEMALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Novara, 2017_P11",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Novara, 2017_P11",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_FpkOOTIysEPSVZpDmKgVqmahH",
+                "label": "16q24.3 (89161684_89505106)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:37.494459867Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P12.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P12.json
similarity index 65%
rename from notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P12.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P12.json
index 2ff5d33b5..c8f475af4 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P12.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P12.json
@@ -1,5 +1,5 @@
 {
-  "id": "Novara, 2017_P12",
+  "id": "PMID_36446582_Novara,_2017_P12",
   "subject": {
     "id": "Novara, 2017_P12",
     "timeAtLastEncounter": {
@@ -12,61 +12,36 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -84,31 +59,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88599769"
-                          },
-                          "endNumber": {
-                            "value": "89406219"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3(88599769_89406219)x1",
+                "id": "var_cyhhdwjOFljdKzhBUsOAmIlLo",
+                "label": "16q24.2-q24.3(88666177_89472627)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -125,8 +82,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.501691818Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -152,15 +109,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P2.json
new file mode 100644
index 000000000..272997237
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P2.json
@@ -0,0 +1,138 @@
+{
+  "id": "PMID_36446582_Novara,_2017_P2",
+  "subject": {
+    "id": "Novara, 2017_P2",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Novara, 2017_P2",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Novara, 2017_P2",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_WqTwGolKqoDWrueIvbQUFXsZr",
+                "label": "16q24.2-q24.3 (87340135_89335428)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:37.512911081Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P3.json
similarity index 61%
rename from notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P3.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P3.json
index fd5248395..f90da5590 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Novara, 2017_P3",
+  "id": "PMID_36446582_Novara,_2017_P3",
   "subject": {
     "id": "Novara, 2017_P3",
     "timeAtLastEncounter": {
@@ -12,24 +12,20 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
@@ -37,47 +33,21 @@
         "id": "HP:0000325",
         "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -95,31 +65,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88197355"
-                          },
-                          "endNumber": {
-                            "value": "89297194"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (88197355_89297194)x1",
+                "id": "var_IYBWJmMOUuvRYeINLQUyhKDmM",
+                "label": "16q24.2-q24.3 (88230961_89363602)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -136,8 +88,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.520253896Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -163,15 +115,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P4.json
similarity index 61%
rename from notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P4.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P4.json
index 09d3f0999..fc14ad32b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P4.json
@@ -1,5 +1,5 @@
 {
-  "id": "Novara, 2017_P4",
+  "id": "PMID_36446582_Novara,_2017_P4",
   "subject": {
     "id": "Novara, 2017_P4",
     "timeAtLastEncounter": {
@@ -12,83 +12,48 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -106,31 +71,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88688904"
-                          },
-                          "endNumber": {
-                            "value": "89518004"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (88688904_89518004)x1",
+                "id": "var_WzkNWKkLQXLzBsBPUGeuZtyqc",
+                "label": "16q24.2-q24.3 (88755312_89584412)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -147,8 +94,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.528460025Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -174,15 +121,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P5.json
similarity index 61%
rename from notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P5.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P5.json
index da880fa2d..54e1cf1b8 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P5.json
@@ -1,5 +1,5 @@
 {
-  "id": "Novara, 2017_P5",
+  "id": "PMID_36446582_Novara,_2017_P5",
   "subject": {
     "id": "Novara, 2017_P5",
     "timeAtLastEncounter": {
@@ -12,13 +12,14 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
@@ -26,59 +27,28 @@
         "id": "HP:0000325",
         "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -96,31 +66,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88489783"
-                          },
-                          "endNumber": {
-                            "value": "89491503"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (88489783_89491503)x1",
+                "id": "var_prhdHsXINJDYAnbaJZiSWirrU",
+                "label": "16q24.2-q24.3 (88556191_89557911)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -137,8 +89,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.537399053Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +116,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P7.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P7.json
similarity index 62%
rename from notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P7.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P7.json
index 4be557e3e..71d955a62 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P7.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P7.json
@@ -1,5 +1,5 @@
 {
-  "id": "Novara, 2017_P7",
+  "id": "PMID_36446582_Novara,_2017_P7",
   "subject": {
     "id": "Novara, 2017_P7",
     "timeAtLastEncounter": {
@@ -12,24 +12,14 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
@@ -37,36 +27,21 @@
         "id": "HP:0000325",
         "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -84,31 +59,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88197154"
-                          },
-                          "endNumber": {
-                            "value": "89297334"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (88197154-89297334)x1",
+                "id": "var_dFuCQVvklXuKxmKcjovIacjQo",
+                "label": "16q24.2-q24.3 (88230760-89363742)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -125,8 +82,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.548702955Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -152,15 +109,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P8.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P8.json
similarity index 64%
rename from notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P8.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P8.json
index 6d663c1de..d93d44571 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P8.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P8.json
@@ -1,5 +1,5 @@
 {
-  "id": "Novara, 2017_P8",
+  "id": "PMID_36446582_Novara,_2017_P8",
   "subject": {
     "id": "Novara, 2017_P8",
     "timeAtLastEncounter": {
@@ -14,33 +14,12 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -59,31 +38,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88564199"
-                          },
-                          "endNumber": {
-                            "value": "89541334"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (88564199_89541334)x1",
+                "id": "var_EmbAMtToXqbpfwCYqUbtsStXP",
+                "label": "16q24.2-q24.3 (88630607_89607742)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -100,8 +61,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.565572023Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -127,15 +88,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P9.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P9.json
similarity index 69%
rename from notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P9.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P9.json
index c5eec466a..86383ba59 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P9.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Novara2017_P9.json
@@ -1,5 +1,5 @@
 {
-  "id": "Novara, 2017_P9",
+  "id": "PMID_36446582_Novara,_2017_P9",
   "subject": {
     "id": "Novara, 2017_P9",
     "timeAtLastEncounter": {
@@ -14,11 +14,6 @@
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -37,31 +32,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87150055"
-                          },
-                          "endNumber": {
-                            "value": "89454395"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (87150055_89454395)x1",
+                "id": "var_tazzYsyZmQndjoicFfUqDOOXH",
+                "label": "16q24.2-q24.3 (87183661_89520803)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -78,8 +55,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.572369813Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -105,15 +82,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P1.json
deleted file mode 100644
index 28deccf7e..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P1.json
+++ /dev/null
@@ -1,219 +0,0 @@
-{
-  "id": "Novara, 2017_P1",
-  "subject": {
-    "id": "Novara, 2017_P1",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Novara, 2017_P1",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Novara, 2017_P1",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88568592"
-                          },
-                          "endNumber": {
-                            "value": "89562542"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (88568592_89562542)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P10.json
deleted file mode 100644
index 0bb22eb19..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P10.json
+++ /dev/null
@@ -1,106 +0,0 @@
-{
-  "id": "Novara, 2017_P10",
-  "subject": {
-    "id": "Novara, 2017_P10",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "interpretations": [
-    {
-      "id": "Novara, 2017_P10",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Novara, 2017_P10",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89409043"
-                          },
-                          "endNumber": {
-                            "value": "89585740"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89409043_89585740)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P11.json
deleted file mode 100644
index 969f6da1b..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P11.json
+++ /dev/null
@@ -1,198 +0,0 @@
-{
-  "id": "Novara, 2017_P11",
-  "subject": {
-    "id": "Novara, 2017_P11",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Novara, 2017_P11",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Novara, 2017_P11",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89095276"
-                          },
-                          "endNumber": {
-                            "value": "89438698"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3 (89095276_89438698)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P2.json
deleted file mode 100644
index 3c0a28bce..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Novara_2017_P2.json
+++ /dev/null
@@ -1,177 +0,0 @@
-{
-  "id": "Novara, 2017_P2",
-  "subject": {
-    "id": "Novara, 2017_P2",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Novara, 2017_P2",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Novara, 2017_P2",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87306529"
-                          },
-                          "endNumber": {
-                            "value": "89269020"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (87306529_89269020)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P1.json
index cc4a90b57..bb75f00a9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P1",
+  "id": "PMID_36446582_Ockeloen2015_P1",
   "subject": {
     "id": "Ockeloen2015_P1",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -70,12 +39,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gmbqyjrpCXrqnWukNDbOiRETs",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.576944112Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P10.json
index e5dc5b416..e0be8c847 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P10.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P10.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P10",
+  "id": "PMID_36446582_Ockeloen2015_P10",
   "subject": {
     "id": "Ockeloen2015_P10",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -81,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.583030939Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P11.json
index 280a5d459..ff3aa00e6 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P11.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P11.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P11",
+  "id": "PMID_36446582_Ockeloen2015_P11",
   "subject": {
     "id": "Ockeloen2015_P11",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EnWnKEoCoHkNWfLpwGQQbPdux",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.594689130Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P12.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P12.json
index 94254d4aa..fb4de91de 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P12.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P12.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P12",
+  "id": "PMID_36446582_Ockeloen2015_P12",
   "subject": {
     "id": "Ockeloen2015_P12",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -70,12 +39,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EnWnKEoCoHkNWfLpwGQQbPdux",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.601581096Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P13.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P13.json
index 12b272853..e392f9513 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P13.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P13.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P13",
+  "id": "PMID_36446582_Ockeloen2015_P13",
   "subject": {
     "id": "Ockeloen2015_P13",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -81,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EnWnKEoCoHkNWfLpwGQQbPdux",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.609125852Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P14.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P14.json
index 89950d2c9..de4e69559 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P14.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P14.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P14",
+  "id": "PMID_36446582_Ockeloen2015_P14",
   "subject": {
     "id": "Ockeloen2015_P14",
     "timeAtLastEncounter": {
@@ -10,84 +10,43 @@
     "sex": "MALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,6 +64,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_WfBIBVJmpHvzUzhoyQoeBJaWJ",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -139,8 +99,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.619272947Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -166,15 +126,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P15.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P15.json
index d5e7bf6d9..56e25b9af 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P15.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P15.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P15",
+  "id": "PMID_36446582_Ockeloen2015_P15",
   "subject": {
     "id": "Ockeloen2015_P15",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -92,6 +56,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_nFEyAEURLCjlUGdTSEVqTrTWC",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -126,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.627759218Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -153,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P16.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P16.json
index 5df94725a..7dae899ce 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P16.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P16.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P16",
+  "id": "PMID_36446582_Ockeloen2015_P16",
   "subject": {
     "id": "Ockeloen2015_P16",
     "timeAtLastEncounter": {
@@ -14,44 +14,18 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -59,12 +33,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,6 +51,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -116,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.642772912Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -143,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P17.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P17.json
index 3eac1be17..e3d137e23 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P17.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P17.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P17",
+  "id": "PMID_36446582_Ockeloen2015_P17",
   "subject": {
     "id": "Ockeloen2015_P17",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_VkYsYchclIZWUWgmjZLxUjAnq",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.655905961Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P18.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P18.json
index 730dbbfe5..9d5c5f7a0 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P18.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P18.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P18",
+  "id": "PMID_36446582_Ockeloen2015_P18",
   "subject": {
     "id": "Ockeloen2015_P18",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -81,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_txezHVdjRrpkHdtuNnBnoDjAQ",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.664405107Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P19.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P19.json
index aaf66633a..b81f1c1b1 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P19.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P19.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P19",
+  "id": "PMID_36446582_Ockeloen2015_P19",
   "subject": {
     "id": "Ockeloen2015_P19",
     "timeAtLastEncounter": {
@@ -14,55 +14,24 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -81,6 +50,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_txezHVdjRrpkHdtuNnBnoDjAQ",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -115,8 +85,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.676096916Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -142,15 +112,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P2.json
index a01c848b1..c65160f49 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P2",
+  "id": "PMID_36446582_Ockeloen2015_P2",
   "subject": {
     "id": "Ockeloen2015_P2",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -81,12 +45,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,6 +63,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gmbqyjrpCXrqnWukNDbOiRETs",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -138,8 +98,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.683420896Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -165,15 +125,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P20.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P20.json
index fd576fc7e..6a1f72cd2 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P20.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P20.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P20",
+  "id": "PMID_36446582_Ockeloen2015_P20",
   "subject": {
     "id": "Ockeloen2015_P20",
     "timeAtLastEncounter": {
@@ -13,33 +13,18 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
@@ -47,35 +32,14 @@
         "id": "HP:0000325",
         "label": "Triangular face"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,31 +57,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88197484"
-                          },
-                          "endNumber": {
-                            "value": "89321695"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(88197484-89321695)x1",
+                "id": "var_nHRPHKmyuJInHOHtcuTSZtolq",
+                "label": "16q24.3(88231090-89388103)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -134,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.694876909Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -161,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P3.json
index 598a0f258..14bb90961 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P3",
+  "id": "PMID_36446582_Ockeloen2015_P3",
   "subject": {
     "id": "Ockeloen2015_P3",
     "timeAtLastEncounter": {
@@ -14,79 +14,38 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,6 +63,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gmbqyjrpCXrqnWukNDbOiRETs",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -138,8 +98,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.702023029Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -165,15 +125,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P4.json
index de423a0a9..cd594c303 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P4.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P4",
+  "id": "PMID_36446582_Ockeloen2015_P4",
   "subject": {
     "id": "Ockeloen2015_P4",
     "timeAtLastEncounter": {
@@ -14,101 +14,50 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -126,6 +75,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gmbqyjrpCXrqnWukNDbOiRETs",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -160,8 +110,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.709336042Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -187,15 +137,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P5.json
index 5c8ecacd2..36bfdbd73 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P5.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P5",
+  "id": "PMID_36446582_Ockeloen2015_P5",
   "subject": {
     "id": "Ockeloen2015_P5",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -92,6 +56,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gmbqyjrpCXrqnWukNDbOiRETs",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -126,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.717428922Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -153,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P6.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P6.json
index 6cd6c8590..528150408 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P6.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P6.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P6",
+  "id": "PMID_36446582_Ockeloen2015_P6",
   "subject": {
     "id": "Ockeloen2015_P6",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -92,6 +56,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_pLbuksWnEJPwdWIhkJXNMWmYW",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -126,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.724604845Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -153,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P7.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P7.json
index d6c00c1bd..79e991f9c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P7.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P7.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P7",
+  "id": "PMID_36446582_Ockeloen2015_P7",
   "subject": {
     "id": "Ockeloen2015_P7",
     "timeAtLastEncounter": {
@@ -12,35 +12,20 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -59,6 +44,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_dmzrkHUlrMOoQdAMWGnHKSwFj",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -93,8 +79,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.731855869Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -120,15 +106,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P8.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P8.json
index b491293d4..1429d5025 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P8.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P8.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P8",
+  "id": "PMID_36446582_Ockeloen2015_P8",
   "subject": {
     "id": "Ockeloen2015_P8",
     "timeAtLastEncounter": {
@@ -10,94 +10,48 @@
     "sex": "FEMALE"
   },
   "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -115,6 +69,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_OhfjQVAqJanTDDMAlfrAScEiS",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -149,8 +104,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.759907007Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -176,15 +131,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P9.json b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P9.json
index a0cff77d4..462bf6817 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P9.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Ockeloen2015_P9.json
@@ -1,5 +1,5 @@
 {
-  "id": "Ockeloen2015_P9",
+  "id": "PMID_36446582_Ockeloen2015_P9",
   "subject": {
     "id": "Ockeloen2015_P9",
     "timeAtLastEncounter": {
@@ -14,68 +14,32 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_JHQVRzfXdpPhzFcMYuwYyBZbd",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.774317979Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Palumbo2016.json b/notebooks/KBG/phenopackets/PMID_36446582_Palumbo2016.json
new file mode 100644
index 000000000..351243251
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Palumbo2016.json
@@ -0,0 +1,150 @@
+{
+  "id": "PMID_36446582_Palumbo_2016",
+  "subject": {
+    "id": "Palumbo 2016",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Palumbo 2016",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Palumbo 2016",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_BDHzQRzncOnHcaJyVjdNAUUFy",
+                "label": "16q24.2q24.3 (87502161_89688617)x3 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000037",
+                  "label": "chromosomal_duplication"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:37.784629106Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Palumbo_2016.json b/notebooks/KBG/phenopackets/PMID_36446582_Palumbo_2016.json
deleted file mode 100644
index 9d35f6e0c..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Palumbo_2016.json
+++ /dev/null
@@ -1,199 +0,0 @@
-{
-  "id": "Palumbo 2016",
-  "subject": {
-    "id": "Palumbo 2016",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Palumbo 2016",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Palumbo 2016",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87468555"
-                          },
-                          "endNumber": {
-                            "value": "89622209"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "3"
-                    }
-                  }
-                },
-                "description": "16q24.2q24.3 (87468555_89622209)x3",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2016_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2016_P1.json
index a81f5b077..f2afa72a9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2016_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2016_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2016_P1",
+  "id": "PMID_36446582_Parenti2016_P1",
   "subject": {
     "id": "Parenti2016_P1",
     "timeAtLastEncounter": {
@@ -14,130 +14,118 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Parenti2016_P1",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Parenti2016_P1",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_YdnMUIULwQHzjCSOlhzDwSiHb",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "expressions": [
+                  {
+                    "syntax": "hgvs.c",
+                    "value": "NM_013275.6:c.5483C>A"
+                  },
+                  {
+                    "syntax": "hgvs.g",
+                    "value": "NC_000016.10:g.89281059G>T"
+                  }
+                ],
+                "vcfRecord": {
+                  "genomeAssembly": "hg38",
+                  "chrom": "chr16",
+                  "pos": "89281059",
+                  "ref": "G",
+                  "alt": "T"
+                },
+                "moleculeContext": "genomic",
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
       }
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.796135902Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -163,15 +151,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2016_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2016_P2.json
index 2ccfafc59..a26fbda46 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2016_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2016_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2016_P2",
+  "id": "PMID_36446582_Parenti2016_P2",
   "subject": {
     "id": "Parenti2016_P2",
     "timeAtLastEncounter": {
@@ -12,82 +12,47 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,6 +70,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_eZxvpMUwYpMrAGiCbhjOPGfFX",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -139,8 +105,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.803756952Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -166,15 +132,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P1.json
index 1205544d8..8f2e9b1ce 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P1",
+  "id": "PMID_36446582_Parenti2021_P1",
   "subject": {
     "id": "Parenti2021_P1",
     "timeAtLastEncounter": {
@@ -14,125 +14,64 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -150,6 +89,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_JqwvyXkUkvZvjqRBVCoSfnbZq",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -184,8 +124,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.816329002Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -211,15 +151,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P10.json
index 4e5f0e3a1..9cb12dbef 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P10.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P10.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P10",
+  "id": "PMID_36446582_Parenti2021_P10",
   "subject": {
     "id": "Parenti2021_P10",
     "timeAtLastEncounter": {
@@ -14,114 +14,58 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -139,6 +83,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_tyOnEfByfUHkgxMEhxLtfvsvG",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -173,8 +118,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.823988914Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -200,15 +145,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P11.json
index e987c5bed..079adcc74 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P11.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P11.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P11",
+  "id": "PMID_36446582_Parenti2021_P11",
   "subject": {
     "id": "Parenti2021_P11",
     "timeAtLastEncounter": {
@@ -14,114 +14,58 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -139,6 +83,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_WjgMKtWYMQTmlzzHteGpwBBma",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -173,8 +118,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.835558891Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -200,15 +145,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P12.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P12.json
index 89829537b..f556371d6 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P12.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P12.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P12",
+  "id": "PMID_36446582_Parenti2021_P12",
   "subject": {
     "id": "Parenti2021_P12",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_RBImmrSEKEoiFvhaqzIVGVyRX",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.843338012Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P13.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P13.json
index 49b1fc1d6..daf964d0a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P13.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P13.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P13",
+  "id": "PMID_36446582_Parenti2021_P13",
   "subject": {
     "id": "Parenti2021_P13",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EioaIfduJfrzuNWQrpMTAzbKT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.850795030Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P14.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P14.json
index ec7396575..aabb13537 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P14.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P14.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P14",
+  "id": "PMID_36446582_Parenti2021_P14",
   "subject": {
     "id": "Parenti2021_P14",
     "timeAtLastEncounter": {
@@ -14,102 +14,51 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -127,6 +76,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -161,8 +111,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.860005855Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -188,15 +138,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P15.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P15.json
index 63d7f390f..c96445c8b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P15.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P15.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P15",
+  "id": "PMID_36446582_Parenti2021_P15",
   "subject": {
     "id": "Parenti2021_P15",
     "timeAtLastEncounter": {
@@ -14,113 +14,57 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -138,6 +82,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_DjiwuAFQQNEhttduwJbhNxdwO",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -172,8 +117,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.867952108Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -199,15 +144,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P16.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P16.json
index 85142e70c..d0fcd16f2 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P16.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P16.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P16",
+  "id": "PMID_36446582_Parenti2021_P16",
   "subject": {
     "id": "Parenti2021_P16",
     "timeAtLastEncounter": {
@@ -12,93 +12,53 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -116,6 +76,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_TeSjRuXlwEADyYdzohxxDrVXJ",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -150,8 +111,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.875968933Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -177,15 +138,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P17.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P17.json
index c4223f96d..52979ef00 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P17.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P17.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P17",
+  "id": "PMID_36446582_Parenti2021_P17",
   "subject": {
     "id": "Parenti2021_P17",
     "timeAtLastEncounter": {
@@ -14,114 +14,58 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -139,6 +83,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EioaIfduJfrzuNWQrpMTAzbKT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -173,8 +118,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.888041973Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -200,15 +145,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P18.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P18.json
index b82860637..ca941c50c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P18.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P18.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P18",
+  "id": "PMID_36446582_Parenti2021_P18",
   "subject": {
     "id": "Parenti2021_P18",
     "timeAtLastEncounter": {
@@ -14,112 +14,56 @@
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
+        "id": "HP:0004322",
+        "label": "Short stature"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -137,6 +81,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -171,8 +116,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.895584106Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -198,15 +143,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P19.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P19.json
index 2d5540269..1066d7f70 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P19.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P19.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P19",
+  "id": "PMID_36446582_Parenti2021_P19",
   "subject": {
     "id": "Parenti2021_P19",
     "timeAtLastEncounter": {
@@ -14,125 +14,64 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -150,6 +89,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -184,8 +124,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.905309915Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -211,15 +151,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P2.json
index 5d0c71422..57d698d71 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P2",
+  "id": "PMID_36446582_Parenti2021_P2",
   "subject": {
     "id": "Parenti2021_P2",
     "timeAtLastEncounter": {
@@ -12,106 +12,61 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -129,6 +84,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_PtoEjQpjovouwIxDtsezoBuaP",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -163,8 +119,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.913245916Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -190,15 +146,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P20.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P20.json
index b370090ed..2905fb06a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P20.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P20.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P20",
+  "id": "PMID_36446582_Parenti2021_P20",
   "subject": {
     "id": "Parenti2021_P20",
     "timeAtLastEncounter": {
@@ -14,102 +14,51 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -127,6 +76,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -161,8 +111,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.920720815Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -188,15 +138,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P21.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P21.json
index 16952cc7f..1b507a218 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P21.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P21.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P21",
+  "id": "PMID_36446582_Parenti2021_P21",
   "subject": {
     "id": "Parenti2021_P21",
     "timeAtLastEncounter": {
@@ -14,110 +14,54 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -136,6 +80,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_kUXDvIwPnncgdZCkAaivnEJdb",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -170,8 +115,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.930548906Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -197,15 +142,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P22.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P22.json
index 5c84d0b82..b7fcddfd9 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P22.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P22.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P22",
+  "id": "PMID_36446582_Parenti2021_P22",
   "subject": {
     "id": "Parenti2021_P22",
     "timeAtLastEncounter": {
@@ -14,135 +14,69 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000729",
-        "label": "Autistic behavior"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000729",
+        "label": "Autistic behavior"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -160,6 +94,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EioaIfduJfrzuNWQrpMTAzbKT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -194,8 +129,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.942883014Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -221,15 +156,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P23.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P23.json
index 7c703d975..c89f559f3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P23.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P23.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P23",
+  "id": "PMID_36446582_Parenti2021_P23",
   "subject": {
     "id": "Parenti2021_P23",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,31 +68,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89269018"
-                          },
-                          "endNumber": {
-                            "value": "89305395"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89269018-89305395)x1",
+                "id": "var_jKYXkkrmGIInOffBOjLfqxScj",
+                "label": "16q24.3(89335426-89371803)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -155,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.950515031Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -182,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P3.json
index c6b28a8a8..8cd6255ec 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P3",
+  "id": "PMID_36446582_Parenti2021_P3",
   "subject": {
     "id": "Parenti2021_P3",
     "timeAtLastEncounter": {
@@ -14,112 +14,56 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -137,6 +81,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_gbFKXZaEFAnSCvGbzXqDaCITC",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -171,8 +116,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.961313962Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -198,15 +143,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P4.json
index 965d1980b..efc5bd082 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P4.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P4",
+  "id": "PMID_36446582_Parenti2021_P4",
   "subject": {
     "id": "Parenti2021_P4",
     "timeAtLastEncounter": {
@@ -14,101 +14,50 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -126,6 +75,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_mpcOPrcBerHpzPWeOvlXUFtzx",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -160,8 +110,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.969048023Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -187,15 +137,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P5.json
index 53537e972..273b5f972 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P5.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P5",
+  "id": "PMID_36446582_Parenti2021_P5",
   "subject": {
     "id": "Parenti2021_P5",
     "timeAtLastEncounter": {
@@ -12,104 +12,59 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -127,6 +82,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EHhqaQBRxKgsHsNwdPxwKVzft",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -161,8 +117,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.976933956Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -188,15 +144,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P6.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P6.json
index ae93838d1..cd6ce62d8 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P6.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P6.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P6",
+  "id": "PMID_36446582_Parenti2021_P6",
   "subject": {
     "id": "Parenti2021_P6",
     "timeAtLastEncounter": {
@@ -14,114 +14,58 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -139,6 +83,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_BlrpooJFuHmpvfXtqLobpTIaT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -173,8 +118,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:37.996962070Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -200,15 +145,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P7.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P7.json
index 0e8c8e76c..7b31347c5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P7.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P7.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P7",
+  "id": "PMID_36446582_Parenti2021_P7",
   "subject": {
     "id": "Parenti2021_P7",
     "timeAtLastEncounter": {
@@ -12,107 +12,62 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0010938",
+        "label": "Abnormal external nose morphology"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
-        "id": "HP:0010938",
-        "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -130,6 +85,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_euTrMEgSBYxmPzGnTXKkyYvCU",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -164,8 +120,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.012223005Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -191,15 +147,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P8.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P8.json
index 9dce64146..dc699aba7 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P8.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P8.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P8",
+  "id": "PMID_36446582_Parenti2021_P8",
   "subject": {
     "id": "Parenti2021_P8",
     "timeAtLastEncounter": {
@@ -14,125 +14,64 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000343",
+        "label": "Long philtrum"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
       }
     },
     {
       "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       }
     },
     {
       "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
+        "id": "HP:0000325",
+        "label": "Triangular face"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -150,6 +89,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LbKafBHZBLddsALxEdxVHKquX",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -184,8 +124,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.020620107Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -211,15 +151,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P9.json b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P9.json
index 27744ab38..a4ba205a7 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P9.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Parenti2021_P9.json
@@ -1,5 +1,5 @@
 {
-  "id": "Parenti2021_P9",
+  "id": "PMID_36446582_Parenti2021_P9",
   "subject": {
     "id": "Parenti2021_P9",
     "timeAtLastEncounter": {
@@ -14,113 +14,57 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
+    },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -138,6 +82,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -172,8 +117,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.032032966Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -199,15 +144,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Rentas2021_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Rentas2021_P1.json
index 04954eb5f..70ce73650 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Rentas2021_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Rentas2021_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Rentas2021_P1",
+  "id": "PMID_36446582_Rentas2021_P1",
   "subject": {
     "id": "Rentas2021_P1",
     "timeAtLastEncounter": {
@@ -14,33 +14,12 @@
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
@@ -48,12 +27,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -71,6 +45,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sUTuhqpjgtmrpAgfpksIzhveX",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -105,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.041140079Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -132,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Reuter2020.json b/notebooks/KBG/phenopackets/PMID_36446582_Reuter2020.json
deleted file mode 100644
index b459f936f..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Reuter2020.json
+++ /dev/null
@@ -1,99 +0,0 @@
-{
-  "id": "Reuter2020",
-  "subject": {
-    "id": "Reuter2020",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "interpretations": [
-    {
-      "id": "Reuter2020",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Reuter2020",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "expressions": [
-                  {
-                    "syntax": "hgvs.c",
-                    "value": "NM_013275.6:c.5238_5239del"
-                  },
-                  {
-                    "syntax": "hgvs.g",
-                    "value": "NC_000016.10:g.89281304_89281305del"
-                  }
-                ],
-                "vcfRecord": {
-                  "genomeAssembly": "hg38",
-                  "chrom": "chr16",
-                  "pos": "89281302",
-                  "ref": "GGC",
-                  "alt": "G"
-                },
-                "moleculeContext": "genomic",
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sacharow2012_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Sacharow2012_P1.json
new file mode 100644
index 000000000..386fb3bfe
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sacharow2012_P1.json
@@ -0,0 +1,160 @@
+{
+  "id": "PMID_36446582_Sacharow,_2012_P1",
+  "subject": {
+    "id": "Sacharow, 2012_P1",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0007018",
+        "label": "Attention deficit hyperactivity disorder"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Sacharow, 2012_P1",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Sacharow, 2012_P1",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_QWAlyhUOEGHahfQvhkvOCtWuE",
+                "label": "16q24.3(89283689_89603390)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:38.049637079Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sacharow_2012_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Sacharow2012_P2.json
similarity index 65%
rename from notebooks/KBG/phenopackets/PMID_36446582_Sacharow_2012_P2.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Sacharow2012_P2.json
index 27f296cf3..79d92799a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sacharow_2012_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sacharow2012_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sacharow, 2012_P2",
+  "id": "PMID_36446582_Sacharow,_2012_P2",
   "subject": {
     "id": "Sacharow, 2012_P2",
     "timeAtLastEncounter": {
@@ -12,35 +12,20 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -59,31 +44,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89228899"
-                          },
-                          "endNumber": {
-                            "value": "89593971"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89228899-89593971)x1",
+                "id": "var_qIFYmGgFIoiACldxPOrSUJdpt",
+                "label": "16q24.3(89295307-89660379)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -100,8 +67,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.057210922Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -127,15 +94,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sacharow_2012_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Sacharow_2012_P1.json
deleted file mode 100644
index b502b8794..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sacharow_2012_P1.json
+++ /dev/null
@@ -1,219 +0,0 @@
-{
-  "id": "Sacharow, 2012_P1",
-  "subject": {
-    "id": "Sacharow, 2012_P1",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0007018",
-        "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Sacharow, 2012_P1",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Sacharow, 2012_P1",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89217281"
-                          },
-                          "endNumber": {
-                            "value": "89536982"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89217281_89536982)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sayed_2020_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Sayed2020_P1.json
similarity index 70%
rename from notebooks/KBG/phenopackets/PMID_36446582_Sayed_2020_P1.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Sayed2020_P1.json
index edc0a2fbe..b879f7477 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sayed_2020_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sayed2020_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sayed, 2020_P1",
+  "id": "PMID_36446582_Sayed,_2020_P1",
   "subject": {
     "id": "Sayed, 2020_P1",
     "timeAtLastEncounter": {
@@ -14,121 +14,60 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -147,6 +86,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_bzFlFrmsGhhHALELNxKHGyzxB",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -181,8 +121,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.065692901Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -208,15 +148,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sayed_2020_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Sayed2020_P2.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Sayed_2020_P2.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Sayed2020_P2.json
index 75600d28a..760a1205b 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sayed_2020_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sayed2020_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sayed, 2020_P2",
+  "id": "PMID_36446582_Sayed,_2020_P2",
   "subject": {
     "id": "Sayed, 2020_P2",
     "timeAtLastEncounter": {
@@ -12,82 +12,47 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0004322",
+        "label": "Short stature"
       }
     },
     {
       "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
       },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,6 +70,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_bzFlFrmsGhhHALELNxKHGyzxB",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -139,8 +105,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.074233055Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -166,15 +132,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P1.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P1.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P1.json
index adf7329ef..69e78fa31 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P1",
+  "id": "PMID_36446582_Scarano,_2013_P1",
   "subject": {
     "id": "Scarano, 2013_P1",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_CLvWvkGjpVtXKgoLAuvVjRtcT",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.082464933Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P10.json
new file mode 100644
index 000000000..4eeaaed95
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P10.json
@@ -0,0 +1,142 @@
+{
+  "id": "PMID_36446582_Scarano,_2013_P10",
+  "subject": {
+    "id": "Scarano, 2013_P10",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000343",
+        "label": "Long philtrum"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Scarano, 2013_P10",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Scarano, 2013_P10",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_lCItMWtaCBpnRjFKjFVpkuCXs",
+                "label": "16q24.2-q24.3 (89283689_89429735)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:38.099841117Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P11.json
new file mode 100644
index 000000000..71fdf72ad
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P11.json
@@ -0,0 +1,147 @@
+{
+  "id": "PMID_36446582_Scarano,_2013_P11",
+  "subject": {
+    "id": "Scarano, 2013_P11",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000343",
+        "label": "Long philtrum"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000356",
+        "label": "Abnormality of the outer ear"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      }
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Scarano, 2013_P11",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Scarano, 2013_P11",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_zVsuLsDtWGNWEdpJcpyUSJxMe",
+                "label": "16q24.3 (89335428_89559189)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:38.107559919Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P12.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P12.json
similarity index 61%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P12.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P12.json
index 655261a45..519a2e90a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P12.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P12.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P12",
+  "id": "PMID_36446582_Scarano,_2013_P12",
   "subject": {
     "id": "Scarano, 2013_P12",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -81,12 +45,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,31 +63,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89363268"
-                          },
-                          "endNumber": {
-                            "value": "89492781"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3 (89363268_89492781)x1",
+                "id": "var_DcVQWFkuMqjXSRkvhKfeqzbjZ",
+                "label": "16q24.3 (89429676_89559189)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -145,8 +86,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.115072011Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -172,15 +113,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P2.json
similarity index 77%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P2.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P2.json
index aff91ae12..90e8723d0 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P2",
+  "id": "PMID_36446582_Scarano,_2013_P2",
   "subject": {
     "id": "Scarano, 2013_P2",
     "timeAtLastEncounter": {
@@ -12,46 +12,26 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -59,12 +39,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_UgOWPmhCVOXEFrTEYXZBQIbqq",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -116,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.122590065Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -143,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P3.json
similarity index 76%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P3.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P3.json
index 706408a53..09e0e50d7 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P3",
+  "id": "PMID_36446582_Scarano,_2013_P3",
   "subject": {
     "id": "Scarano, 2013_P3",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_IUGLIRxySYIlcrtgUPgtBbPBe",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.128911018Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P4.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P4.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P4.json
index dd0227080..92e387da5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P4.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P4",
+  "id": "PMID_36446582_Scarano,_2013_P4",
   "subject": {
     "id": "Scarano, 2013_P4",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_JkBTJMsMuYnrighofRPhKLddM",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.135581016Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P5.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P5.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P5.json
index f2e37bf5a..0586e6c55 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P5.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P5",
+  "id": "PMID_36446582_Scarano,_2013_P5",
   "subject": {
     "id": "Scarano, 2013_P5",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_rvFfoLuIiTeKLRxQtRqrwIVXa",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.141706943Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P6.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P6.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P6.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P6.json
index 3f64a0e7c..da436ed2c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P6.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P6.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P6",
+  "id": "PMID_36446582_Scarano,_2013_P6",
   "subject": {
     "id": "Scarano, 2013_P6",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_KdRjTnaKxMWoaxTdPfYeHHucO",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.148621082Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P7.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P7.json
similarity index 76%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P7.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P7.json
index f2d1530ea..ef09666fe 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P7.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P7.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P7",
+  "id": "PMID_36446582_Scarano,_2013_P7",
   "subject": {
     "id": "Scarano, 2013_P7",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_EYbkUBOirDscCuDZTznVBgVUP",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.155023813Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P8.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P8.json
similarity index 78%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P8.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P8.json
index 759b6c94b..f5fc6117c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P8.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P8.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P8",
+  "id": "PMID_36446582_Scarano,_2013_P8",
   "subject": {
     "id": "Scarano, 2013_P8",
     "timeAtLastEncounter": {
@@ -12,70 +12,40 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,6 +63,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_dGCaUHdGXPzBbjtTRiqlMTPXF",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -127,8 +98,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.160068035Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -154,15 +125,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P9.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P9.json
similarity index 75%
rename from notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P9.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P9.json
index 510e32f51..01d86f78f 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P9.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Scarano2013_P9.json
@@ -1,5 +1,5 @@
 {
-  "id": "Scarano, 2013_P9",
+  "id": "PMID_36446582_Scarano,_2013_P9",
   "subject": {
     "id": "Scarano, 2013_P9",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_tyuLNQePTKmrgdfShycilIIPv",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.167344093Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P10.json
deleted file mode 100644
index 22ee76a90..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P10.json
+++ /dev/null
@@ -1,186 +0,0 @@
-{
-  "id": "Scarano, 2013_P10",
-  "subject": {
-    "id": "Scarano, 2013_P10",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Scarano, 2013_P10",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Scarano, 2013_P10",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89217281"
-                          },
-                          "endNumber": {
-                            "value": "89363327"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-q24.3 (89217281_89363327)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P11.json b/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P11.json
deleted file mode 100644
index 6a76da738..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Scarano_2013_P11.json
+++ /dev/null
@@ -1,196 +0,0 @@
-{
-  "id": "Scarano, 2013_P11",
-  "subject": {
-    "id": "Scarano, 2013_P11",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000356",
-        "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Scarano, 2013_P11",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Scarano, 2013_P11",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89269020"
-                          },
-                          "endNumber": {
-                            "value": "89492781"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3 (89269020_89492781)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P1F1_(previously_published_Tekin_2004).json b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P1F1previouslypublishedTekin2004.json
similarity index 73%
rename from notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P1F1_(previously_published_Tekin_2004).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P1F1previouslypublishedTekin2004.json
index 02ca812be..164ebd0e3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P1F1_(previously_published_Tekin_2004).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P1F1previouslypublishedTekin2004.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sirmaci2011_P1/F1? (previously published Tekin, 2004)",
+  "id": "PMID_36446582_Sirmaci2011_P1/F1?_(previously_published_Tekin,_2004)",
   "subject": {
     "id": "Sirmaci2011_P1/F1? (previously published Tekin, 2004)",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LWGNgLqmaVNlIuKqHMAIlzIrV",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.172732830Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2.json
index 6c6be44ef..ef029349c 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sirmaci2011_P2",
+  "id": "PMID_36446582_Sirmaci2011_P2",
   "subject": {
     "id": "Sirmaci2011_P2",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_PZihAMcHWxoUzwPBiDQFxKoeK",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.178345918Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2F1_(previously_published_Tekin_2004).json b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2F1previouslypublishedTekin2004.json
similarity index 71%
rename from notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2F1_(previously_published_Tekin_2004).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2F1previouslypublishedTekin2004.json
index 8315eab15..6a2078905 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2F1_(previously_published_Tekin_2004).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P2F1previouslypublishedTekin2004.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sirmaci2011_P2/F1? (previously published Tekin, 2004)",
+  "id": "PMID_36446582_Sirmaci2011_P2/F1?_(previously_published_Tekin,_2004)",
   "subject": {
     "id": "Sirmaci2011_P2/F1? (previously published Tekin, 2004)",
     "timeAtLastEncounter": {
@@ -14,121 +14,60 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -147,6 +86,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LWGNgLqmaVNlIuKqHMAIlzIrV",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -181,8 +121,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.182862043Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -208,15 +148,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3.json
index 7f3155dd1..f797f47f5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sirmaci2011_P3",
+  "id": "PMID_36446582_Sirmaci2011_P3",
   "subject": {
     "id": "Sirmaci2011_P3",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_hgFBobfyCrCngGTEEDsIryzEb",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.187815904Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3F1_(previously_published_Tekin_2004).json b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3F1previouslypublishedTekin2004.json
similarity index 73%
rename from notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3F1_(previously_published_Tekin_2004).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3F1previouslypublishedTekin2004.json
index b9b872f0f..49e5e5c9d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3F1_(previously_published_Tekin_2004).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P3F1previouslypublishedTekin2004.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sirmaci2011_P3/F1? (previously published Tekin, 2004)",
+  "id": "PMID_36446582_Sirmaci2011_P3/F1?_(previously_published_Tekin,_2004)",
   "subject": {
     "id": "Sirmaci2011_P3/F1? (previously published Tekin, 2004)",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_LWGNgLqmaVNlIuKqHMAIlzIrV",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.194332838Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P4_(previously_published_Brancati_2004).json b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P4previouslypublishedBrancati2004.json
similarity index 74%
rename from notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P4_(previously_published_Brancati_2004).json
rename to notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P4previouslypublishedBrancati2004.json
index a6d49dc36..4601f8ef2 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P4_(previously_published_Brancati_2004).json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P4previouslypublishedBrancati2004.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sirmaci2011_P4 (previously published Brancati, 2004)",
+  "id": "PMID_36446582_Sirmaci2011_P4_(previously_published_Brancati,_2004)",
   "subject": {
     "id": "Sirmaci2011_P4 (previously published Brancati, 2004)",
     "timeAtLastEncounter": {
@@ -14,99 +14,48 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -125,6 +74,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_iQBrpeUTJfoQqUOVKFFQwhTJG",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -159,8 +109,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.199973106Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -186,15 +136,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P5.json
index 5b309d0bb..abc3e8a9d 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P5.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Sirmaci2011_P5.json
@@ -1,5 +1,5 @@
 {
-  "id": "Sirmaci2011_P5",
+  "id": "PMID_36446582_Sirmaci2011_P5",
   "subject": {
     "id": "Sirmaci2011_P5",
     "timeAtLastEncounter": {
@@ -14,88 +14,42 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0000343",
         "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -114,6 +68,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_avoFGbbcrtIuzSiMZzqxNDgPG",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -148,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.208304166Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -175,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Spengler_2013.json b/notebooks/KBG/phenopackets/PMID_36446582_Spengler2013.json
similarity index 63%
rename from notebooks/KBG/phenopackets/PMID_36446582_Spengler_2013.json
rename to notebooks/KBG/phenopackets/PMID_36446582_Spengler2013.json
index c3ac8fff0..6d43140c5 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Spengler_2013.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Spengler2013.json
@@ -1,5 +1,5 @@
 {
-  "id": "Spengler, 2013",
+  "id": "PMID_36446582_Spengler,_2013",
   "subject": {
     "id": "Spengler, 2013",
     "timeAtLastEncounter": {
@@ -12,81 +12,46 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,31 +69,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89305430"
-                          },
-                          "endNumber": {
-                            "value": "89541006"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89305430_89541006)x1",
+                "id": "var_blvCIEHrJkbNWSZOWMreJgOcL",
+                "label": "16q24.3(89371838_89607414)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -145,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.217509984Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -172,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Srivastava2017_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Srivastava2017_P1.json
new file mode 100644
index 000000000..ab5ba7304
--- /dev/null
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Srivastava2017_P1.json
@@ -0,0 +1,148 @@
+{
+  "id": "PMID_36446582_Srivastava,_2017_P1",
+  "subject": {
+    "id": "Srivastava, 2017_P1",
+    "timeAtLastEncounter": {
+      "age": {
+        "iso8601duration": "P2Y"
+      }
+    },
+    "sex": "MALE"
+  },
+  "phenotypicFeatures": [
+    {
+      "type": {
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001572",
+        "label": "Macrodontia"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000343",
+        "label": "Long philtrum"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0004322",
+        "label": "Short stature"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
+      }
+    },
+    {
+      "type": {
+        "id": "HP:0001155",
+        "label": "Abnormality of the hand"
+      },
+      "excluded": true
+    }
+  ],
+  "interpretations": [
+    {
+      "id": "Srivastava, 2017_P1",
+      "progressStatus": "SOLVED",
+      "diagnosis": {
+        "disease": {
+          "id": "OMIM:148050",
+          "label": "KBG syndrome"
+        },
+        "genomicInterpretations": [
+          {
+            "subjectOrBiosampleId": "Srivastava, 2017_P1",
+            "interpretationStatus": "CAUSATIVE",
+            "variantInterpretation": {
+              "variationDescriptor": {
+                "id": "var_AKmAFTMoAmupEBTKwZlOBAnoR",
+                "label": "16q24.1q24.3 (86680657_89578069)x1 (hg19)",
+                "geneContext": {
+                  "valueId": "HGNC:21316",
+                  "symbol": "ANKRD11"
+                },
+                "moleculeContext": "genomic",
+                "structuralType": {
+                  "id": "SO:1000029",
+                  "label": "chromosomal_deletion"
+                },
+                "allelicState": {
+                  "id": "GENO:0000135",
+                  "label": "heterozygous"
+                }
+              }
+            }
+          }
+        ]
+      }
+    }
+  ],
+  "metaData": {
+    "created": "2023-11-25T12:07:38.222004890Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
+    "resources": [
+      {
+        "id": "geno",
+        "name": "Genotype Ontology",
+        "url": "http://purl.obolibrary.org/obo/geno.owl",
+        "version": "2022-03-05",
+        "namespacePrefix": "GENO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
+      },
+      {
+        "id": "hgnc",
+        "name": "HUGO Gene Nomenclature Committee",
+        "url": "https://www.genenames.org",
+        "version": "06/01/23",
+        "namespacePrefix": "HGNC",
+        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
+      },
+      {
+        "id": "omim",
+        "name": "An Online Catalog of Human Genes and Genetic Disorders",
+        "url": "https://www.omim.org",
+        "version": "January 4, 2023",
+        "namespacePrefix": "OMIM",
+        "iriPrefix": "https://www.omim.org/entry/"
+      },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
+      {
+        "id": "hp",
+        "name": "human phenotype ontology",
+        "url": "http://purl.obolibrary.org/obo/hp.owl",
+        "version": "2023-10-09",
+        "namespacePrefix": "HP",
+        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
+      }
+    ],
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
+  }
+}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Srivastava_2017_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Srivastava_2017_P1.json
deleted file mode 100644
index 881cfdf1b..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_Srivastava_2017_P1.json
+++ /dev/null
@@ -1,186 +0,0 @@
-{
-  "id": "Srivastava, 2017_P1",
-  "subject": {
-    "id": "Srivastava, 2017_P1",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "phenotypicFeatures": [
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000343",
-        "label": "Long philtrum"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0001155",
-        "label": "Abnormality of the hand"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0004322",
-        "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    }
-  ],
-  "interpretations": [
-    {
-      "id": "Srivastava, 2017_P1",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "Srivastava, 2017_P1",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "86647051"
-                          },
-                          "endNumber": {
-                            "value": "89511661"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.1q24.3 (86647051_89511661)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P1.json
index 2c987f156..1d48f6444 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "VanDongen2019_P1",
+  "id": "PMID_36446582_VanDongen2019_P1",
   "subject": {
     "id": "VanDongen2019_P1",
     "timeAtLastEncounter": {
@@ -14,11 +14,6 @@
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -37,6 +32,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_chywWnQtjOKUEMKojXxgdxxHf",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -71,8 +67,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.226713180Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -98,15 +94,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P10.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P10.json
index 48ea0f650..c76020aed 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P10.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P10.json
@@ -1,5 +1,5 @@
 {
-  "id": "VanDongen2019_P10",
+  "id": "PMID_36446582_VanDongen2019_P10",
   "subject": {
     "id": "VanDongen2019_P10",
     "timeAtLastEncounter": {
@@ -14,11 +14,6 @@
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -37,6 +32,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_HPteJkZVzCbYcknUYIBUqkIrI",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -71,8 +67,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.233969926Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -98,15 +94,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P12.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P12.json
deleted file mode 100644
index 7f9291dc8..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P12.json
+++ /dev/null
@@ -1,99 +0,0 @@
-{
-  "id": "VanDongen2019_P12",
-  "subject": {
-    "id": "VanDongen2019_P12",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "interpretations": [
-    {
-      "id": "VanDongen2019_P12",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "VanDongen2019_P12",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "expressions": [
-                  {
-                    "syntax": "hgvs.c",
-                    "value": "NM_013275.6:c.2092_2096del"
-                  },
-                  {
-                    "syntax": "hgvs.g",
-                    "value": "NC_000016.10:g.89284450_89284454del"
-                  }
-                ],
-                "vcfRecord": {
-                  "genomeAssembly": "hg38",
-                  "chrom": "chr16",
-                  "pos": "89284445",
-                  "ref": "TTTCTC",
-                  "alt": "T"
-                },
-                "moleculeContext": "genomic",
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P13.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P13.json
deleted file mode 100644
index 1b21b172f..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P13.json
+++ /dev/null
@@ -1,99 +0,0 @@
-{
-  "id": "VanDongen2019_P13",
-  "subject": {
-    "id": "VanDongen2019_P13",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "interpretations": [
-    {
-      "id": "VanDongen2019_P13",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "VanDongen2019_P13",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "expressions": [
-                  {
-                    "syntax": "hgvs.c",
-                    "value": "NM_013275.6:c.5162C>T"
-                  },
-                  {
-                    "syntax": "hgvs.g",
-                    "value": "NC_000016.10:g.89281380G>A"
-                  }
-                ],
-                "vcfRecord": {
-                  "genomeAssembly": "hg38",
-                  "chrom": "chr16",
-                  "pos": "89281380",
-                  "ref": "G",
-                  "alt": "A"
-                },
-                "moleculeContext": "genomic",
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P2.json
deleted file mode 100644
index b65c277e2..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P2.json
+++ /dev/null
@@ -1,99 +0,0 @@
-{
-  "id": "VanDongen2019_P2",
-  "subject": {
-    "id": "VanDongen2019_P2",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "interpretations": [
-    {
-      "id": "VanDongen2019_P2",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "VanDongen2019_P2",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "expressions": [
-                  {
-                    "syntax": "hgvs.c",
-                    "value": "NM_013275.6:c.7607G>C"
-                  },
-                  {
-                    "syntax": "hgvs.g",
-                    "value": "NC_000016.10:g.89274920C>G"
-                  }
-                ],
-                "vcfRecord": {
-                  "genomeAssembly": "hg38",
-                  "chrom": "chr16",
-                  "pos": "89274920",
-                  "ref": "C",
-                  "alt": "G"
-                },
-                "moleculeContext": "genomic",
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P3.json
index 1fdcd3488..d5f295808 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "VanDongen2019_P3",
+  "id": "PMID_36446582_VanDongen2019_P3",
   "subject": {
     "id": "VanDongen2019_P3",
     "timeAtLastEncounter": {
@@ -14,11 +14,6 @@
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -37,6 +32,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_ExZnPatayUkqRXcqIsfBUpuvf",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -71,8 +67,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.238312005Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -98,15 +94,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P4.json
deleted file mode 100644
index c21b6f7ee..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P4.json
+++ /dev/null
@@ -1,99 +0,0 @@
-{
-  "id": "VanDongen2019_P4",
-  "subject": {
-    "id": "VanDongen2019_P4",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "interpretations": [
-    {
-      "id": "VanDongen2019_P4",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "VanDongen2019_P4",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "expressions": [
-                  {
-                    "syntax": "hgvs.c",
-                    "value": "NM_013275.6:c.2398_2401del"
-                  },
-                  {
-                    "syntax": "hgvs.g",
-                    "value": "NC_000016.10:g.89284144_89284147del"
-                  }
-                ],
-                "vcfRecord": {
-                  "genomeAssembly": "hg38",
-                  "chrom": "chr16",
-                  "pos": "89284140",
-                  "ref": "TTTTC",
-                  "alt": "T"
-                },
-                "moleculeContext": "genomic",
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P5.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P5.json
deleted file mode 100644
index 19c26ee6f..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P5.json
+++ /dev/null
@@ -1,106 +0,0 @@
-{
-  "id": "VanDongen2019_P5",
-  "subject": {
-    "id": "VanDongen2019_P5",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "interpretations": [
-    {
-      "id": "VanDongen2019_P5",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "VanDongen2019_P5",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89223568"
-                          },
-                          "endNumber": {
-                            "value": "89414599"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89223568-89414599)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P6.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P6.json
index f22ab84bf..3eaea657e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P6.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P6.json
@@ -1,5 +1,5 @@
 {
-  "id": "VanDongen2019_P6",
+  "id": "PMID_36446582_VanDongen2019_P6",
   "subject": {
     "id": "VanDongen2019_P6",
     "timeAtLastEncounter": {
@@ -14,11 +14,6 @@
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -37,6 +32,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_tvUGnPHCFXFCkoIVgQTeGHtWi",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -71,8 +67,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.242450952Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -98,15 +94,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P7.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P7.json
deleted file mode 100644
index 3b4dcdebc..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P7.json
+++ /dev/null
@@ -1,106 +0,0 @@
-{
-  "id": "VanDongen2019_P7",
-  "subject": {
-    "id": "VanDongen2019_P7",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "interpretations": [
-    {
-      "id": "VanDongen2019_P7",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "VanDongen2019_P7",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89414598"
-                          },
-                          "endNumber": {
-                            "value": "89516032"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89414598-89516032)x1",
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "structuralType": {
-                  "id": "SO:1000029",
-                  "label": "chromosomal_deletion"
-                },
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P8.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P8.json
deleted file mode 100644
index 389b1338b..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P8.json
+++ /dev/null
@@ -1,99 +0,0 @@
-{
-  "id": "VanDongen2019_P8",
-  "subject": {
-    "id": "VanDongen2019_P8",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "MALE"
-  },
-  "interpretations": [
-    {
-      "id": "VanDongen2019_P8",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "VanDongen2019_P8",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "expressions": [
-                  {
-                    "syntax": "hgvs.c",
-                    "value": "NM_013275.6:c.2372del"
-                  },
-                  {
-                    "syntax": "hgvs.g",
-                    "value": "NC_000016.10:g.89284171del"
-                  }
-                ],
-                "vcfRecord": {
-                  "genomeAssembly": "hg38",
-                  "chrom": "chr16",
-                  "pos": "89284169",
-                  "ref": "CT",
-                  "alt": "C"
-                },
-                "moleculeContext": "genomic",
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P9.json b/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P9.json
deleted file mode 100644
index 9a22ad258..000000000
--- a/notebooks/KBG/phenopackets/PMID_36446582_VanDongen2019_P9.json
+++ /dev/null
@@ -1,99 +0,0 @@
-{
-  "id": "VanDongen2019_P9",
-  "subject": {
-    "id": "VanDongen2019_P9",
-    "timeAtLastEncounter": {
-      "age": {
-        "iso8601duration": "P2Y"
-      }
-    },
-    "sex": "FEMALE"
-  },
-  "interpretations": [
-    {
-      "id": "VanDongen2019_P9",
-      "progressStatus": "SOLVED",
-      "diagnosis": {
-        "disease": {
-          "id": "OMIM:148050",
-          "label": "KBG syndrome"
-        },
-        "genomicInterpretations": [
-          {
-            "subjectOrBiosampleId": "VanDongen2019_P9",
-            "interpretationStatus": "CAUSATIVE",
-            "variantInterpretation": {
-              "variationDescriptor": {
-                "geneContext": {
-                  "valueId": "HGNC:21316",
-                  "symbol": "ANKRD11"
-                },
-                "expressions": [
-                  {
-                    "syntax": "hgvs.c",
-                    "value": "NM_013275.6:c.1903_1907del"
-                  },
-                  {
-                    "syntax": "hgvs.g",
-                    "value": "NC_000016.10:g.89284641_89284645del"
-                  }
-                ],
-                "vcfRecord": {
-                  "genomeAssembly": "hg38",
-                  "chrom": "chr16",
-                  "pos": "89284634",
-                  "ref": "GTGTTT",
-                  "alt": "G"
-                },
-                "moleculeContext": "genomic",
-                "allelicState": {
-                  "id": "GENO:0000135",
-                  "label": "heterozygous"
-                }
-              }
-            }
-          }
-        ]
-      }
-    }
-  ],
-  "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
-    "resources": [
-      {
-        "id": "geno",
-        "name": "Genotype Ontology",
-        "url": "http://purl.obolibrary.org/obo/geno.owl",
-        "version": "2022-03-05",
-        "namespacePrefix": "GENO",
-        "iriPrefix": "http://purl.obolibrary.org/obo/GENO_"
-      },
-      {
-        "id": "hgnc",
-        "name": "HUGO Gene Nomenclature Committee",
-        "url": "https://www.genenames.org",
-        "version": "06/01/23",
-        "namespacePrefix": "HGNC",
-        "iriPrefix": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/"
-      },
-      {
-        "id": "omim",
-        "name": "An Online Catalog of Human Genes and Genetic Disorders",
-        "url": "https://www.omim.org",
-        "version": "January 4, 2023",
-        "namespacePrefix": "OMIM",
-        "iriPrefix": "https://www.omim.org/entry/"
-      },
-      {
-        "id": "hp",
-        "name": "human phenotype ontology",
-        "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
-        "namespacePrefix": "HP",
-        "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
-      }
-    ],
-    "phenopacketSchemaVersion": "2.0"
-  }
-}
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PA.json b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PA.json
index b6649b125..32d58f2f4 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PA.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PA.json
@@ -1,5 +1,5 @@
 {
-  "id": "Walz2015_PA",
+  "id": "PMID_36446582_Walz2015_PA",
   "subject": {
     "id": "Walz2015_PA",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_yPovKgJIgeKRbxwzoWPJcAPrV",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.247813224Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PB.json b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PB.json
index d7fc80886..62796518f 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PB.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PB.json
@@ -1,5 +1,5 @@
 {
-  "id": "Walz2015_PB",
+  "id": "PMID_36446582_Walz2015_PB",
   "subject": {
     "id": "Walz2015_PB",
     "timeAtLastEncounter": {
@@ -14,77 +14,36 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -103,6 +62,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_sSKeLEDtphMkieNVenyvcASSH",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -137,8 +97,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.257282018Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -164,15 +124,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PC.json b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PC.json
index b93f0db25..a2d839ca4 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PC.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PC.json
@@ -1,5 +1,5 @@
 {
-  "id": "Walz2015_PC",
+  "id": "PMID_36446582_Walz2015_PC",
   "subject": {
     "id": "Walz2015_PC",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -81,12 +45,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,6 +63,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_zkhqliAxkHgtxmUFGJxulXrTz",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -138,8 +98,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.263149976Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -165,15 +125,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PD.json b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PD.json
index 10df0e80d..5bee37836 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PD.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PD.json
@@ -1,5 +1,5 @@
 {
-  "id": "Walz2015_PD",
+  "id": "PMID_36446582_Walz2015_PD",
   "subject": {
     "id": "Walz2015_PD",
     "timeAtLastEncounter": {
@@ -12,59 +12,34 @@
   "phenotypicFeatures": [
     {
       "type": {
-        "id": "HP:0001249",
-        "label": "Intellectual disability"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0001249",
+        "label": "Intellectual disability"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -82,6 +57,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_CpAjqwkkdotmuhmPzZxIkyhuh",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -116,8 +92,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.268208026Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -143,15 +119,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PE.json b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PE.json
index e78404049..ade1d1ba3 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PE.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_PE.json
@@ -1,5 +1,5 @@
 {
-  "id": "Walz2015_PE",
+  "id": "PMID_36446582_Walz2015_PE",
   "subject": {
     "id": "Walz2015_PE",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -92,6 +56,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_TVpXCmrvGTBITtUmQprcrjfOt",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -126,8 +91,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.278283119Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -153,15 +118,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_Pf.json b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_Pf.json
index 1a0452495..733207018 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_Pf.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Walz2015_Pf.json
@@ -1,5 +1,5 @@
 {
-  "id": "Walz2015_Pf",
+  "id": "PMID_36446582_Walz2015_Pf",
   "subject": {
     "id": "Walz2015_Pf",
     "timeAtLastEncounter": {
@@ -14,66 +14,30 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       }
     },
     {
       "type": {
         "id": "HP:0001155",
         "label": "Abnormality of the hand"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -81,12 +45,7 @@
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -104,6 +63,7 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
+                "id": "var_JzeATmlItVTOFDQopjBQgcHUa",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
@@ -138,8 +98,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.286013841Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -165,15 +125,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P1.json b/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P1.json
index b7b0a6d63..25d44a770 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P1.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P1.json
@@ -1,5 +1,5 @@
 {
-  "id": "Willemsen2010_P1",
+  "id": "PMID_36446582_Willemsen2010_P1",
   "subject": {
     "id": "Willemsen2010_P1",
     "timeAtLastEncounter": {
@@ -14,68 +14,32 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000325",
-        "label": "Triangular face"
-      },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
+    },
+    {
+      "type": {
+        "id": "HP:0000325",
+        "label": "Triangular face"
+      },
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -93,31 +57,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89056331"
-                          },
-                          "endNumber": {
-                            "value": "89434622"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89056331_89434622)x1",
+                "id": "var_sWIezGFRaFLXSsjMJLZGJFtJM",
+                "label": "16q24.3(89122739_89501030)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -134,8 +80,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.295340061Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -161,15 +107,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P2.json b/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P2.json
index 1b14fdadf..8d8f84ead 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P2.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P2.json
@@ -1,5 +1,5 @@
 {
-  "id": "Willemsen2010_P2",
+  "id": "PMID_36446582_Willemsen2010_P2",
   "subject": {
     "id": "Willemsen2010_P2",
     "timeAtLastEncounter": {
@@ -14,33 +14,12 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -48,24 +27,14 @@
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -83,31 +52,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "89206684"
-                          },
-                          "endNumber": {
-                            "value": "89472351"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(89206684_89472351)x1",
+                "id": "var_dFEDCDtKpNGDJVzmMbWZtlknA",
+                "label": "16q24.3(89273092_89538759)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -124,8 +75,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.306293964Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -151,15 +102,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P3.json b/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P3.json
index 3305c18a6..d65b8db1a 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P3.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P3.json
@@ -1,5 +1,5 @@
 {
-  "id": "Willemsen2010_P3",
+  "id": "PMID_36446582_Willemsen2010_P3",
   "subject": {
     "id": "Willemsen2010_P3",
     "timeAtLastEncounter": {
@@ -14,80 +14,39 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0000365",
+        "label": "Hearing impairment"
       }
     },
     {
       "type": {
-        "id": "HP:0000534",
-        "label": "Abnormal eyebrow morphology"
+        "id": "HP:0000574",
+        "label": "Thick eyebrow"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0000365",
-        "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -105,31 +64,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87464658"
-                          },
-                          "endNumber": {
-                            "value": "89530534"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-24.3(87464658_89530534)x1",
+                "id": "var_RAuoAPPrJWRfIIzgRpJdNndJx",
+                "label": "16q24.2-24.3(87498264_89596942)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -146,8 +87,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.313267946Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -173,15 +114,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P4.json b/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P4.json
index 7533183d3..08be2a67f 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P4.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Willemsen2010_P4.json
@@ -1,5 +1,5 @@
 {
-  "id": "Willemsen2010_P4",
+  "id": "PMID_36446582_Willemsen2010_P4",
   "subject": {
     "id": "Willemsen2010_P4",
     "timeAtLastEncounter": {
@@ -14,33 +14,12 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
@@ -48,24 +27,14 @@
         "id": "HP:0000356",
         "label": "Abnormality of the outer ear"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
       },
-      "excluded": true,
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
+      "excluded": true
     }
   ],
   "interpretations": [
@@ -83,31 +52,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "88197355"
-                          },
-                          "endNumber": {
-                            "value": "89297194"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.2-24.3(88197355_89297194)x1",
+                "id": "var_AytWsyWieGZkaMxPuhgPvaEFI",
+                "label": "16q24.2-24.3(88230961_89363602)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -124,8 +75,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.323611974Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -151,15 +102,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file
diff --git a/notebooks/KBG/phenopackets/PMID_36446582_Youngs2011.json b/notebooks/KBG/phenopackets/PMID_36446582_Youngs2011.json
index ba7925fd5..c2070911e 100644
--- a/notebooks/KBG/phenopackets/PMID_36446582_Youngs2011.json
+++ b/notebooks/KBG/phenopackets/PMID_36446582_Youngs2011.json
@@ -1,5 +1,5 @@
 {
-  "id": "Youngs2011",
+  "id": "PMID_36446582_Youngs2011",
   "subject": {
     "id": "Youngs2011",
     "timeAtLastEncounter": {
@@ -14,110 +14,54 @@
       "type": {
         "id": "HP:0001249",
         "label": "Intellectual disability"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000729",
         "label": "Autistic behavior"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0007018",
         "label": "Attention deficit hyperactivity disorder"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
-      }
-    },
-    {
-      "type": {
-        "id": "HP:0012758",
-        "label": "Neurodevelopmental delay"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
-        "id": "HP:0011446",
-        "label": "Abnormality of higher mental function"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001263",
+        "label": "Global developmental delay"
       }
     },
     {
       "type": {
-        "id": "HP:0006482",
-        "label": "Abnormality of dental morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
+        "id": "HP:0001572",
+        "label": "Macrodontia"
       }
     },
     {
       "type": {
         "id": "HP:0010938",
         "label": "Abnormal external nose morphology"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000325",
         "label": "Triangular face"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0004322",
         "label": "Short stature"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     },
     {
       "type": {
         "id": "HP:0000365",
         "label": "Hearing impairment"
-      },
-      "onset": {
-        "age": {
-          "iso8601duration": "P2Y"
-        }
       }
     }
   ],
@@ -136,31 +80,13 @@
             "interpretationStatus": "CAUSATIVE",
             "variantInterpretation": {
               "variationDescriptor": {
-                "variation": {
-                  "copyNumber": {
-                    "allele": {
-                      "sequenceLocation": {
-                        "sequenceId": "refseq:NC_000016.10",
-                        "sequenceInterval": {
-                          "startNumber": {
-                            "value": "87886394"
-                          },
-                          "endNumber": {
-                            "value": "88066394"
-                          }
-                        }
-                      }
-                    },
-                    "number": {
-                      "value": "1"
-                    }
-                  }
-                },
-                "description": "16q24.3(87886394-88066394)x1",
+                "id": "var_gxWhQIOadILOmcSJKMeFUzJpI",
+                "label": "16q24.3(87920000-88100000)x1 (hg19)",
                 "geneContext": {
                   "valueId": "HGNC:21316",
                   "symbol": "ANKRD11"
                 },
+                "moleculeContext": "genomic",
                 "structuralType": {
                   "id": "SO:1000029",
                   "label": "chromosomal_deletion"
@@ -177,8 +103,8 @@
     }
   ],
   "metaData": {
-    "created": "2023-09-15T19:23:49.837050914Z",
-    "createdBy": "ORCID:0000-0003-2598-6622",
+    "created": "2023-11-25T12:07:38.330536842Z",
+    "createdBy": "ORCID:0000-0002-0736-9199",
     "resources": [
       {
         "id": "geno",
@@ -204,15 +130,30 @@
         "namespacePrefix": "OMIM",
         "iriPrefix": "https://www.omim.org/entry/"
       },
+      {
+        "id": "so",
+        "name": "Sequence types and features ontology",
+        "url": "http://purl.obolibrary.org/obo/so.obo",
+        "version": "2021-11-22",
+        "namespacePrefix": "SO",
+        "iriPrefix": "http://purl.obolibrary.org/obo/SO_"
+      },
       {
         "id": "hp",
         "name": "human phenotype ontology",
         "url": "http://purl.obolibrary.org/obo/hp.owl",
-        "version": "2023-01-27",
+        "version": "2023-10-09",
         "namespacePrefix": "HP",
         "iriPrefix": "http://purl.obolibrary.org/obo/HP_"
       }
     ],
-    "phenopacketSchemaVersion": "2.0"
+    "phenopacketSchemaVersion": "2.0",
+    "externalReferences": [
+      {
+        "id": "PMID:36446582",
+        "reference": "https://pubmed.ncbi.nlm.nih.gov/36446582",
+        "description": "Clinical description, molecular delineation and genotype-phenotype correlation in 340 patients with KBG syndrome: addition of 67 new patients"
+      }
+    ]
   }
 }
\ No newline at end of file