The metabolome, the collection of small-molecule chemical entities involved in metabolism,
has traditionally been studied with the aim of identifying biomarkers in the diagnosis and …

Genome-scale metabolic models (GEMs) computationally describe gene-protein-reaction
associations for entire metabolic genes in an organism, and can be simulated to predict …

Realizing the full utility of brain organoids to study human development requires
understanding whether organoids precisely replicate endogenous cellular and molecular …

Constraint-based reconstruction and analysis (COBRA) provides a molecular mechanistic
framework for integrative analysis of experimental molecular systems biology data and …

WikiPathways (wikipathways. org) captures the collective knowledge represented in
biological pathways. By providing a database in a curated, machine readable way, omics …

The ability to efficiently adapt metabolism by substrate sensing, trafficking, storage, and
utilization, dependent on availability and requirement, is known as metabolic flexibility. In …

Genome-scale network reconstructions have helped uncover the molecular basis of
metabolism. Here we present Recon3D, a computational resource that includes three …

Escherichia coli is considered to be the best-known microorganism given the large number
of published studies detailing its genes, its genome and the biochemical functions of its …

Endothelial cell (EC) metabolism is an emerging target for anti-angiogenic therapy in tumor
angiogenesis and choroidal neovascularization (CNV), but little is known about individual …

A multitude of factors contribute to complex diseases and can be measured with 'omics'
methods. Databases facilitate data interpretation for underlying mechanisms. Here, we …