Sebastián N. Mendoza

Selecting methods for draft GEM generation in multicellular eukaryotes: a comparative analysis

This study compares seven automated tools for generating draft genome-scale metabolic models (GEMs) in multicellular eukaryotes, finding no single tool consistently outperforms others.

Reduced glutathione levels in Enterococcus faecalis trigger metabolic and transcriptional compensatory adjustments during iron exposure.

This study examines how Enterococcus faecalis adjusts its metabolism and transcriptional response when exposed to iron under glutathione deficiency, revealing compensatory mechanisms for oxidative stress.

Yeast9: A Consensus Yeast Metabolic Model Enables Quantitative Analysis of Cellular Metabolism By Incorporating Big Data

Yeast9 improves yeast metabolic modeling by integrating multi-omics data, showing better prediction of growth rates and gene function than transcriptomics.

A computational toolbox to investigate the metabolic potential and resource allocation in fission yeast

The paper develops a computational model of fission yeast metabolism to explore resource allocation and metabolic strategies under different glucose conditions.

A multi-phase multi-objective dynamic genome-scale model shows different redox balancing among yeast species in fermentation

The paper develops a dynamic genome-scale model to compare redox balancing strategies in yeast species during fermentation, revealing novel metabolic pathways in cryotolerant strains.

A multi-phase multi-objective genome-scale model shows diverse redox balance strategies in yeasts

This paper develops a dynamic genome-scale model to analyze redox balance strategies in yeasts during batch cultures, showing how cryotolerant strains achieve metabolic stability.

A Systematic Assessment Of Current Genome-Scale Metabolic Reconstruction Tools

This paper systematically evaluates genome-scale metabolic reconstruction tools to determine their quality and suitability for different applications.