MetaSys team (Toulouse Biotechnology Institute)

All

18 repositories

PhysioFit
Public
Estimation of extracellular fluxes and growth rate
synthetic-biology systems-biology metabolism mass-spectrometry biotechnology metabolic-models nuclear-magnetic-resonance fluxomics metabolic-flux-analysis isotope-labeling-experiments
Python
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GNU General Public License v3.0
•5•8•1•0•Updated Aug 29, 2024Aug 29, 2024
in_vivo_enzymatic_parameters
Public
In vivo analysis of enzymatic parameters
Jupyter Notebook
•
GNU General Public License v3.0
•0•0•0•0•Updated Jul 25, 2024Jul 25, 2024
Peiro_2019
Public
Supplementary code of Peiro et al., 2019
R
•
GNU General Public License v3.0
•0•0•0•0•Updated May 29, 2024May 29, 2024
ethanolamine_metabolism
Public
Ethanolamine metabolism of E. coli
Component Pascal
•
GNU General Public License v3.0
•0•0•0•0•Updated Mar 1, 2024Mar 1, 2024
GL_GNT_bypass
Public
13C metabolic flux analysis of the extracellular GL-GNT by-pass of E. coli
systems-biology metabolism escherichia-coli dynamic-model 13c-mfa 13c-fluxomics gluconolactone gluconate pentose-phosphate-pathway
Component Pascal
•
GNU General Public License v3.0
•0•1•0•0•Updated Nov 27, 2023Nov 27, 2023
IsoCor
Public
IsoCor: Isotope Correction for mass spectrometry labeling experiments
metabolomics ms-data fluxomics metabolic-flux-analysis 13c-mfa isotope-labeling-experiments correction-natural-abundance isotopologue-distribution isotopic-inchi mass-spectrometry
Python
•
GNU General Public License v3.0
•9•24•6•0•Updated Nov 8, 2023Nov 8, 2023
pseudomonas_metabolic_burden
Public
Flux response of Pseudomonas putida to increased levels of metabolic burden
biotechnology metabolic-models fluxomics 13c-mfa protein-production pseudomonas-putida metabolic-burden
R
•
GNU General Public License v3.0
•0•0•0•0•Updated Jul 26, 2023Jul 26, 2023
glucose_acetate_interplay
Public
Supplementary information of Millard et al. 2023
flux systems-biology regulation predictive-modeling glucose biotechnology escherichia-coli copasi kinetic-modeling metabolic-control
HTML
•
GNU General Public License v3.0
•1•0•0•0•Updated Jun 20, 2023Jun 20, 2023
PhysioFit4Galaxy
Public
Maintainance of the Physiofit package for the W4M Galaxy instance
Python
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GNU General Public License v3.0
•5•0•0•0•Updated Nov 14, 2022Nov 14, 2022
acetate_regulation
Public
Kinetic modeling of glucose and acetate metabolisms in E. coli
systems-biology dynamical-systems metabolism metabolomics dynamical-modeling metabolic-models metabolic-network copasi kinetic-modeling fluxomics
Component Pascal
•
GNU General Public License v3.0
•2•6•0•0•Updated Mar 17, 2021Mar 17, 2021
IsoSolve_notebook
Public
Showcase IsoSolve
systems-biology nmr metabolomics mass-spectrometry emu fluxomics isotopomer cumomer isotopologue isotope-labeling-experiments
HTML
•
GNU Affero General Public License v3.0
•2•3•0•0•Updated Mar 15, 2021Mar 15, 2021
IsoSolve
Public
Integration of isotopic measurements
systems-biology nmr metabolomics ms fluxomics isotopomer cumomer isotopologue isotope-labeling-experiments elementary-metabolite-unit
Python
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Other
•2•4•0•0•Updated Mar 8, 2021Mar 8, 2021
zerter
Public
Extract signals from J-resolved NMR spectra (Cox et al., 2020)
nmr metabolomics nmr-spectroscopy jres
Python
•
GNU General Public License v3.0
•0•1•0•0•Updated Sep 30, 2020Sep 30, 2020
IsoQ
Public
Simultaneous measurement of absolute metabolite concentration and isotope incorporation by mass spectrometry
metabolomics mass-spectrometry ms-data isotope fluxomics metabolic-flux-analysis 13c-mfa isotope-labeling-experiments isotopologue-distribution
Python
•
GNU General Public License v3.0
•1•2•0•0•Updated Dec 13, 2019Dec 13, 2019
IsoSim
Public
IsoSim: stoichiometric, kinetic and isotopic modeling of metabolic systems
synthetic-biology systems-biology dynamical-systems metabolic-models kinetic-modeling metabolic-flux-analysis 13c-mfa stoichiometric-modeling 13c-fluxomics
R
•
GNU General Public License v3.0
•4•6•1•0•Updated Sep 12, 2019Sep 12, 2019
FindPath
Public
FindPath
MATLAB
•0•0•0•0•Updated Jul 8, 2019Jul 8, 2019
Interact
Public
Analysis of 1D and 2D NMR titration experiments.
nmr protein-protein-interaction protein-ligand-interactions titration nmr-data
Python
•
GNU General Public License v3.0
•1•1•0•0•Updated Jun 12, 2019Jun 12, 2019
KinetX
Public
Supplementary code of Cox et al., 2019
metabolism nmr-data enzyme-kinetics in-vitro-enzymology
Python
•1•0•0•0•Updated Nov 13, 2018Nov 13, 2018