K-OptForce: integrating kinetics with flux balance analysis for strain design.

ABSTRACT: Computational strain design protocols aim at the system-wide identification of intervention strategies for the enhanced production of biochemicals in microorganisms. Existing approaches relying solely on stoichiometry and rudimentary constraint-based regulation overlook the effects of metabolite concentrations and substrate-level enzyme regulation while identifying metabolic interventions. In this paper, we introduce k-OptForce, which integrates the available kinetic descriptions of metabolic steps with stoichiometric models to sharpen the prediction of intervention strategies for improving the bio-production of a chemical of interest. It enables identification of a minimal set of interventions comprised of both enzymatic parameter changes (for reactions with available kinetics) and reacti

SUBMITTER: Chowdhury A 

PROVIDER: S-EPMC3930495 | biostudies-literature | 2014 Feb

REPOSITORIES: biostudies-literature