Machine learning for the advancement of genome-scale metabolic modeling
Constraint-based modeling (CBM) has evolved as the core systems biology tool to map the
interrelations between genotype, phenotype, and external environment. The recent …
interrelations between genotype, phenotype, and external environment. The recent …
Metabolomics and Microbial Metabolism: Toward a Systematic Understanding
D Holbrook-Smith, J Trouillon… - Annual Review of …, 2023 - annualreviews.org
Over the past decades, our understanding of microbial metabolism has increased
dramatically. Metabolomics, a family of techniques that are used to measure the quantities of …
dramatically. Metabolomics, a family of techniques that are used to measure the quantities of …
Cell factory design with advanced metabolic modelling empowered by artificial intelligence
Advances in synthetic biology and artificial intelligence (AI) have provided new opportunities
for modern biotechnology. High-performance cell factories, the backbone of industrial …
for modern biotechnology. High-performance cell factories, the backbone of industrial …
Metabolic engineering of Synechococcus elongatus 7942 for enhanced sucrose biosynthesis
The capability of cyanobacteria to produce sucrose from CO 2 and light has a remarkable
societal and biotechnological impact since sucrose can serve as a carbon and energy …
societal and biotechnological impact since sucrose can serve as a carbon and energy …
Yeast9: a consensus genome-scale metabolic model for S. cerevisiae curated by the community
C Zhang, BJ Sánchez, F Li, CWQ Eiden… - Molecular Systems …, 2024 - embopress.org
Genome-scale metabolic models (GEMs) can facilitate metabolism-focused multi-omics
integrative analysis. Since Yeast8, the yeast-GEM of Saccharomyces cerevisiae, published …
integrative analysis. Since Yeast8, the yeast-GEM of Saccharomyces cerevisiae, published …
KETCHUP: Parameterizing of large-scale kinetic models using multiple datasets with different reference states
M Hu, PF Suthers, CD Maranas - Metabolic engineering, 2024 - Elsevier
Large-scale kinetic models provide the computational means to dynamically link metabolic
reaction fluxes to metabolite concentrations and enzyme levels while also conforming to …
reaction fluxes to metabolite concentrations and enzyme levels while also conforming to …
Data integration across conditions improves turnover number estimates and metabolic predictions
P Wendering, M Arend, Z Razaghi-Moghadam… - Nature …, 2023 - nature.com
Turnover numbers characterize a key property of enzymes, and their usage in constraint-
based metabolic modeling is expected to increase the prediction accuracy of diverse cellular …
based metabolic modeling is expected to increase the prediction accuracy of diverse cellular …
Yeast9: A consensus yeast metabolic model enables quantitative analysis of cellular metabolism by incorporating big data
Genome-scale metabolic models (GEMs) can facilitate metabolism-focused multi-omics
integrative analysis. Since Yeast8, the yeast-GEM of Saccharomyces cerevisiae, published …
integrative analysis. Since Yeast8, the yeast-GEM of Saccharomyces cerevisiae, published …
Different transcriptomic and metabolomic analysis of Saccharomyces cerevisiae BY4742 and CEN.PK2-1C strains
M Zhang, S Zhao - Archives of Microbiology, 2024 - Springer
To establish efficient yeast cell factories, it is necessary to understand the transcriptional and
metabolic changes among different yeasts. Saccharomyces cerevisiae BY4742 and CEN …
metabolic changes among different yeasts. Saccharomyces cerevisiae BY4742 and CEN …
Physiological parameters as a key tool for understanding and optimizing yeast metabolism and physiology in batch cultures
CAA Silva, GG Fonseca - Chemical Engineering Communications, 2024 - Taylor & Francis
Yeasts, as versatile microorganisms, play a vital role in numerous biotechnological
applications, including biofuel production, food and beverage fermentation, and …
applications, including biofuel production, food and beverage fermentation, and …