Dataset Open Access

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

Oftadeh Omid; Salvy Pierre; Masid Maria; Curvat Maxime; Miskovic Ljubisa; Hatzimanikatis Vassily

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/etfl/tree/dev_yetfl and https://gitlab.com/EPFL-LCSB/etfl/-/tree/dev_yetfl

 

Models:

  • Thermodynamically curated genome- scale model of S. cerevisiae in MATLAB's mat format (based on Yeast8.3.4)

Datasets:

  • Thermodynamic database for the standard formation free Gibbs energy of formation of different metabolites in Yeast8

This work has received funding from the European Union's Horizon 2020 research and innovation programme under grant agreement No 814408 (OO), the Swiss National Science Foundation under grant agreement 200021_188623 (OO), the European Union's Horizon 2020 Research and Innovation Programme under the Marie Skłodowska-Curie grant agreement No. 722287 (PS), the European Union's Horizon 2020 research and innovation program under the Marie Skłodowska Curie grant agreement No 675585 (MM), and the École Polytechnique Fédérale de Lausanne.
Files (1.3 MB)
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thermo_data_yeast8.mat
md5:4d59ed808e2d431056495903faee8f7d
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yeast8_thermo_curated.mat
md5:b36efe987f1b1e46bc2f52f68c9851f5
1.2 MB Download
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