title: Structural simplification of chemical reaction networks in partial steady states.
abstract: We study the structural simplification of chemical reaction networks with partial steady state semantics assuming that the concentrations of some but not all species are constant. We present a simplification rule that can eliminate intermediate species that are in partial steady state, while preserving the dynamics of all other species. Our simplification rule can be applied to general reaction networks with some but few restrictions on the possible kinetic laws. We can also simplify reaction networks subject to conservation laws. We prove that our simplification rule is correct when applied to a module of a reaction network, as long as the partial steady state is assumed with respect to the complete network. Michaelis-Menten's simplification rule for enzymatic reactions falls out as a special case. We have implemented an algorithm that applies our simplification rules repeatedly and applied it to reaction networks from systems biology.
authors: CRIStAL, UMR 9189, 59650 Villeneuve d'Ascq, France; University of Lille, France. Electronic address: guillaume.madelaine@ed.univ-lille1.fr.
authors: Guillaume
authors: G
authors: Madelaine
authors: CRIStAL, UMR 9189, 59650 Villeneuve d'Ascq, France; University of Lille, France.
authors: Cédric
authors: C
authors: Lhoussaine
authors: CRIStAL, UMR 9189, 59650 Villeneuve d'Ascq, France; INRIA Lille, France.
authors: Joachim
authors: J
authors: Niehren
authors: University of Nottingham, United Kingdom.
authors: Elisa
authors: E
authors: Tonello
mesh_terms: D000818:Animals; D002468:Cell Physiological Phenomena / Q000502:physiology; D053263:Gene Regulatory Networks / Q000502:physiology; D006801:Humans; D008956:Models, Chemical; D049490:Systems Biology / Q000379:methods*
keywords: Bioinformatics; Contextual equivalence; Reaction network; Systems biology