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bioskills-context-specific-models

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UpdatedJuly 6, 2026 at 12:06

Build a tissue/condition-specific metabolic model by constraining a generic genome-scale model with transcriptomics data using GIMME, iMAT, or GTEx-based tissue extraction, then validate against the original model.

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ai4nucleome

ai4nucleome/BioMaster

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Biological Scientists, All OtherLife, Physical, and Social Science Occupations·SOC 19-1029

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SKILL.md

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name	bioskills-context-specific-models
description	Build a tissue/condition-specific metabolic model by constraining a generic genome-scale model with transcriptomics data using GIMME, iMAT, or GTEx-based tissue extraction, then validate against the original model.
domain	single-cell
primary_tool	COBRApy
methods	["cobra","GIMME","iMAT","numpy","pandas"]
macro_tags	["context-specific-model","metabolic-modeling","transcriptomics-integration","GIMME","iMAT","tissue-specific"]
micro_tags	["cobra","GIMME","iMAT","numpy","pandas","gpr-mapping","normalization","biomass-constraint","milp","gtex","fba","validation"]
source	bioskills-context-specific-models
status	active
enabled	true

Bioskills Context Specific Models

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name	bioskills-context-specific-models
description	Build a tissue/condition-specific metabolic model by constraining a generic genome-scale model with transcriptomics data using GIMME, iMAT, or GTEx-based tissue extraction, then validate against the original model.
domain	single-cell
primary_tool	COBRApy
methods	["cobra","GIMME","iMAT","numpy","pandas"]
macro_tags	["context-specific-model","metabolic-modeling","transcriptomics-integration","GIMME","iMAT","tissue-specific"]
micro_tags	["cobra","GIMME","iMAT","numpy","pandas","gpr-mapping","normalization","biomass-constraint","milp","gtex","fba","validation"]
source	bioskills-context-specific-models
status	active
enabled	true