Investigating metabolic re-wiring in the children cohort using the Genome-Scale Metabolic (GEM) models by incorporating transcriptomics data.
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Updated
Aug 9, 2024 - R
Investigating metabolic re-wiring in the children cohort using the Genome-Scale Metabolic (GEM) models by incorporating transcriptomics data.
Metabolic modeling tutorial for EMBO practical course: Metabolite and species dynamics in microbial communities 2022
Shiny app for visualization of the toy GENREs
A RMosek optimization interface for the Sybil package
An R package to incorporate in a continuous way the gene-expression data as FBA flux boundaries in a metabolic model. Also, functions to calculate and plot the differences between model fluxes in different metabolic scenarios was included. This is an implementation of the algorithm described by Lee et al. (2012) in DOI: 10.1186/1752-0509-6-73.
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