Dataset - A genome-scale metabolic model of Saccharomyces cerevisiae that integrates expression constraints and reaction thermodynamics

Models and dataset needed to reproduce the results for the manuscript "A genome-scale metabolic model of Saccharomyces cerevisiae that integrates expression constraints and reaction thermodynamics" by O. Oftadeh et all

The code to generate yETFL models and reproduce the results of this manuscript is available at https://github.com/EPFL-LCSB/yetfl/ and https://gitlab.com/EPFL-LCSB/yetfl/. The execution of this code is dependent on the ETFL repository available at https://github.com/EPFL-LCSB/etf and https://gitlab.com/EPFL-LCSB/etfl.

Models:

File input_models.zip contains a structure with thermodynamically and stoichiometrically curated genome-scale model of S. cerevisiae in MATLAB's mat format (based on Yeast8.3.4)

Datasets:

File thermo_data_yeast8.mat contains a thermodynamic database for the standard formation free Gibbs energy of formation of different metabolites in Yeast8.

File info_yeast.zip contains data needed to run the code stored on the  GitHub and Gitlab repositories.