title: Resource allocation in metabolic networks: kinetic optimization and approximations by FBA.
abstract: Based on recent theoretical results on optimal flux distributions in kinetic metabolic networks, we explore the congruences and differences between solutions of kinetic optimization problems and results obtained by constraint-based methods. We demonstrate that, for a certain resource allocation problem, kinetic optimization and standard flux balance analysis (FBA) give rise to qualitatively different results. Furthermore, we introduce a variant of FBA, called satFBA, whose predictions are in qualitative agreement with kinetic optimization.
authors.affiliation: Johann Radon Institute for Computational and Applied Mathematics, Austrian Academy of Sciences, Altenbergerstraße 69, 4040 Linz, Austria stefan.mueller@ricam.oeaw.ac.at.
authors.forename: Stefan
authors.initials: S
authors.lastname: Müller
authors.affiliation: Johann Radon Institute for Computational and Applied Mathematics, Austrian Academy of Sciences, Altenbergerstraße 69, 4040 Linz, Austria.
authors.forename: Georg
authors.initials: G
authors.lastname: Regensburger
authors.affiliation: Institute for Theoretical Biology, Humboldt University Berlin, Invalidenstraße 43, 10115 Berlin, Germany.
authors.forename: Ralf
authors.initials: R
authors.lastname: Steuer
mesh_terms: D000465:Algorithms; D003198:Computer Simulation; D007700:Kinetics; D064688:Metabolic Flux Analysis / Q000379:methods*; D053858:Metabolic Networks and Pathways; D008954:Models, Biological; D015203:Reproducibility of Results
keywords: elementary flux modes; enzyme kinetics; metabolic optimization; non-linear optimization; satFBA