Dong‐Yup Lee

The paper presents iCHO3K, a comprehensive metabolic model of Chinese Hamster cells, and uses it to analyze metabolic changes in lactate-free cells, identifying structural insights into metabolic rewiring.

The paper introduces FROG analysis to standardize reproducibility assessments of genome-scale metabolic models, resulting in full reproducibility of all tested models.

The paper introduces a framework to model environment-dependent microbial interactions using growth kinetics and Lotka-Volterra models, validated with synthetic E. coli data.

The paper investigates the use of sweetwater as a feedstock for lipid production by oleaginous yeasts, finding that it enhances lipid accumulation in certain strains.

This study introduces FBAwEB, an extension of flux balance analysis that accounts for biomass equation variations across conditions by using ensemble representations of macromolecular compositions.

This study evaluates genome-wide metabolic landscapes of lactic acid bacteria under various diets, revealing diet- and strain-specific probiotic behaviors and the need for personalized formulations.

This paper introduces ecFBA, an enzyme capacity-constrained flux balance analysis method, to improve flux prediction accuracy in CHO cells by incorporating enzyme kinetic data.

Memote, open-source Python software, runs a community-maintained, partly scored test suite (consistency, biomass, annotations, optional experimental data) on SBML-encoded genome-scale metabolic models, once or through continuous integration.

The paper profiles multi-omics data of CHO cell lines to identify genetic and phenotypic variations affecting bioprocessing traits.