Coarse-Grained S. cerevisiae Model

Themes: Conversion

Keywords: Metabolomics, Modeling

Citation

Li, Y., Lai, Y.H., Lu, T. April 23, 2025. Data from: “Coarse-grained Modeling Elucidates Differential Metabolism of Saccharomyces cerevisiae Under Varied Nutrient Limitations.” GitHub.

Overview

Schematic illustration of S. cerevisiae metabolism, which involves the orchestration of metabolic, signaling, and gene regulation networks.

This repository contains the source code for the coarse-grained, systemic, and dynamic model of Saccharomyces cerevisiae.

Related publications:

Emergence of Orchestrated and Dynamic Metabolism of Saccharomyces cerevisiae.

Coarse-Grained Modeling Elucidates Differential Metabolism of Saccharomyces cerevisiae under Varied Nutrient Limitations.

Model:

use the main function yeast_model_update_ribosome.m to run the model

submodules of the model can be found in the model folder

Parameter:

file: read_parametersv2.m

Data

GitHub: Includes model script and parameters

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