Current status and applications of genome-scale metabolic models
Genome-scale metabolic models (GEMs) computationally describe gene-protein-reaction
associations for entire metabolic genes in an organism, and can be simulated to predict …
associations for entire metabolic genes in an organism, and can be simulated to predict …
Systematic review of gut microbiota and major depression
SG Cheung, AR Goldenthal, AC Uhlemann… - Frontiers in …, 2019 - frontiersin.org
Background: Recently discovered relationships between the gastrointestinal microbiome
and the brain have implications for psychiatric disorders, including major depressive …
and the brain have implications for psychiatric disorders, including major depressive …
A comprehensive metabolic map for production of bio-based chemicals
Production of industrial chemicals using renewable biomass feedstock is becoming
increasingly important to address limited fossil resources, climate change and other …
increasingly important to address limited fossil resources, climate change and other …
Metabolic engineering of Escherichia coli for natural product biosynthesis
Natural products are widely employed in our daily lives as food additives, pharmaceuticals,
nutraceuticals, and cosmetic ingredients, among others. However, their supply has often …
nutraceuticals, and cosmetic ingredients, among others. However, their supply has often …
RAVEN 2.0: A versatile toolbox for metabolic network reconstruction and a case study on Streptomyces coelicolor
RAVEN is a commonly used MATLAB toolbox for genome-scale metabolic model (GEM)
reconstruction, curation and constraint-based modelling and simulation. Here we present …
reconstruction, curation and constraint-based modelling and simulation. Here we present …
[HTML][HTML] Bacteria as an alternate biofactory for carotenoid production: A review of its applications, opportunities and challenges
Carotenoid has gained a reputation amongst researchers for its robust antioxidant
capabilities. This review reasons the inevitability of carotenoid for a larger role than just …
capabilities. This review reasons the inevitability of carotenoid for a larger role than just …
Deep learning enables high-quality and high-throughput prediction of enzyme commission numbers
High-quality and high-throughput prediction of enzyme commission (EC) numbers is
essential for accurate understanding of enzyme functions, which have many implications in …
essential for accurate understanding of enzyme functions, which have many implications in …
Reconstruction, simulation and analysis of enzyme-constrained metabolic models using GECKO Toolbox 3.0
Genome-scale metabolic models (GEMs) are computational representations that enable
mathematical exploration of metabolic behaviors within cellular and environmental …
mathematical exploration of metabolic behaviors within cellular and environmental …
A systematic assessment of current genome-scale metabolic reconstruction tools
Background Several genome-scale metabolic reconstruction software platforms have been
developed and are being continuously updated. These tools have been widely applied to …
developed and are being continuously updated. These tools have been widely applied to …
Gapseq: informed prediction of bacterial metabolic pathways and reconstruction of accurate metabolic models
Genome-scale metabolic models of microorganisms are powerful frameworks to predict
phenotypes from an organism's genotype. While manual reconstructions are laborious …
phenotypes from an organism's genotype. While manual reconstructions are laborious …