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Fix missing data file for TF binding track
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kimrutherford committed Jan 3, 2025
1 parent aaf3fd8 commit ccf16aa
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion website/jbrowse_track_metadata.csv
Original file line number Diff line number Diff line change
Expand Up @@ -134,7 +134,7 @@ Transcripts,yes,yes,Transcripts during vegetative growth; repeat 2 - Wilhelm et
Transcripts,yes,yes,Transcripts in prp2-1 mutant; repeat 1 - Wilhelm et al. (2012),,,h-,mutant,prp2-1,high temperature,vegetative growth,,RNA-Seq,Wilhelm,2012,18488015,ArrayExpress,E-MTAB-5,ERS078445,High throughput sequenceing of fission yeast to survey the dynamic repertoire of a eukaryotic transcriptome at the single nucleotide resolution,bigWig,https://www.pombase.org/external_datasets/Wilhelm_2012_PMID_18488015/ERS078445.bw
Transcripts,yes,yes,Transcripts in prp2-1 mutant; repeat 2 - Wilhelm et al. (2012),,,h-,mutant,prp2-1,high temperature,vegetative growth,,RNA-Seq,Wilhelm,2012,18488015,ArrayExpress,E-MTAB-5,ERS078468,High throughput sequenceing of fission yeast to survey the dynamic repertoire of a eukaryotic transcriptome at the single nucleotide resolution,bigWig,https://www.pombase.org/external_datasets/Wilhelm_2012_PMID_18488015/ERS078468.bw
DNA duplex stability,yes,yes,Position specific G(x) scores - Yadav et al. (2012),free energy needed to separate a base pair,,,WT,not applicable,,not applicable,,SIDD,Yadav,2012,23163955,,not available,,,bed,https://www.pombase.org/external_datasets/Yadav_2012_PMID_23163955_SIDD/Yadav_and_Dubey_SIDD_PMID23163955.sorted.bed.gz
Promoters,yes,no,Consensus transcription factor DNA binding motifs,,,,WT,not applicable,,not applicable,,predicted,McDowall,2015,25361970,,https://www.pombase.org/browse-curation/dna-binding-sites,,,bed,https://www.pombase.org/pombase_datasets/genome_sequence_and_features/feature_coordinates/TF_binding_motifs.bed.gz
Promoters,yes,no,Consensus transcription factor DNA binding motifs,,,,WT,not applicable,,not applicable,,predicted,McDowall,2015,25361970,,https://www.pombase.org/browse-curation/dna-binding-sites,,,bed,https://www.pombase.org/internal_datasets/TF_binding_motifs.bed.gz
Transcription start sites,yes,yes,Transcription start sites during vegetative growth in minimal medium (forward strand) - Thodberg et al. (2018),,,h-,WT,not applicable,glucose MM,vegetative growth,forward,CAGE,Thodberg,2018,30566651,GEO,GSE110976,"GSM3019616, GSM3019617, GSM3019618",,bigWig,https://www.pombase.org/external_datasets/Thodberg_2018_PMID_30566651/GSE110976_EMM_exp_plus.bw
Transcription start sites,yes,yes,Transcription start sites during vegetative growth in minimal medium (reverse strand) - Thodberg et al. (2018),,,h-,WT,not applicable,glucose MM,vegetative growth,reverse,CAGE,Thodberg,2018,30566651,GEO,GSE110976,"GSM3019616, GSM3019617, GSM3019618",,bigWig,https://www.pombase.org/external_datasets/Thodberg_2018_PMID_30566651/GSE110976_EMM_exp_minus.bw
Transcription start sites,yes,yes,Transcription start sites during vegetative growth in rich medium (forward strand) - Thodberg et al. (2018),,,h-,WT,not applicable,YES,vegetative growth,forward,CAGE,Thodberg,2018,30566651,GEO,GSE110976,"GSM3019622, GSM3019623, GSM3019624",,bigWig,https://www.pombase.org/external_datasets/Thodberg_2018_PMID_30566651/GSE110976_YES_exp_plus.bw
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