COBRAme: A computational framework for genome-scale models of metabolism and gene expression.

ABSTRACT: Genome-scale models of metabolism and macromolecular expression (ME-models) explicitly compute the optimal proteome composition of a growing cell. ME-models expand upon the well-established genome-scale models of metabolism (M-models), and they enable a new fundamental understanding of cellular growth. ME-models have increased predictive capabilities and accuracy due to their inclusion of the biosynthetic costs for the machinery of life, but they come with a significant increase in model size and complexity. This challenge results in models which are both difficult to compute and challenging to understand conceptually. As a result, ME-models exist for only two organisms (Escherichia coli and Thermotoga maritima) and are still used by relatively few researchers. To address these challenges,

SUBMITTER: Lloyd CJ 

PROVIDER: S-EPMC6049947 | biostudies-literature | 2018 Jul

REPOSITORIES: biostudies-literature