pcYeast7.6: Whole-Cell Metabolic Model for Yeast

The pcYeast7.6 model is a comprehensive metabolic model of yeast cells, incorporating protein synthesis and degradation reactions. It was created by Ibrahim E. Elsemman from the Technical University of Denmark and published in Nature Communications. The model predicts metabolic fluxes and protein expression by constraining compartment-specific protein pools to maximize growth rate.

Use Cases

• Predict metabolic fluxes based on compartment-specific protein constraints.
• Analyze protein expression profiles from growth rate optimization.
• Study metabolic strategies like the Crabtree effect under glucose limitation.
• Model resource re-allocation under cellular constraints in eukaryal cells.
• Validate model predictions against quantitative experimental data.

Strengths

• Model is based on the full metabolic reaction network of yeast.
• Includes protein synthesis and degradation reactions.
• Published in Nature Communications, indicating peer-reviewed validation.
• Model files are provided to reproduce figures from the publication.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Last update date is unknown; freshness unverified.

Provenance

Source

Technical University of Denmark

Collection Method

Model creation and simulation for publication.