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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.
(Chowdhury et al., 2014) k-OptForce: integrating kinetics with flux balance analysis for strain design. PLoS Comput Biol.