13C MFA analysis of naive and activated mouse CD8+ T cell
This repository provides Supplementary files regarding 13C-metabolic flux analysis (13C-MFA) that are part of the manuscripts: 'Proteome capacity constraints favor respiratory ATP generation' Yihui Shen, Hoang V. Dinh, Edward Cruz, et al., submitted
References notice: Please cite the paper corresponding to the dataset that you use. The details are provided in the README.md file within the sub-directories. If you use the common resources and scripts, please cite Shen et al., 2022.
File descriptions
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mfa_scripts Source MATLAB scripts to run 13C-MFA. Available at https://github.com/maranasgroup/SteadyState-MFA.
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run_scripts Scripts that combine and arrange source MATLAB 13C-MFA scripts.
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resources Collected resources regarding carbon mappings and other setups to run 13C-MFA scripts
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mfa 13C-MFA run files and results, arranged by directory for each organism.
./mfa//metabolic_rxns_mappings: Metabolic network and carbon mappings of metabolic reactions only. The input files are generated from this metabolic_rxns_mappings and ./resources/dilutions_network_modules.xlsx ./mfa//run_files: list of input files for 13C-MFA software run ./mfa//result_files: processed output files containing simulated 13C-labeling patterns and best-fit metabolic fluxes
There are the following in this repository:
1 dataset on naive T cell (Shen et al., 2022)
1 dataset on activated T cell (Shen et al., 2022)