A constraint solving approach to model reduction by tropical equilibration - Inria - Institut national de recherche en sciences et technologies du numérique Accéder directement au contenu
Article Dans Une Revue Algorithms for Molecular Biology Année : 2014

A constraint solving approach to model reduction by tropical equilibration

Résumé

Model reduction is a central topic in systems biology and dynamical systems theory, for reducing the complexity of detailed models, finding important parameters, and developing multi-scale models for instance. While singular perturbation theory is a standard mathematical tool to analyze the different time scales of a dynamical system and decompose the system accordingly, tropical methods provide a simple algebraic framework to perform these analyses systematically in polynomial systems. The crux of these methods is in the computation of tropical equilibrations. In this paper we show that constraint-based methods, using reified constraints for expressing the equilibration conditions, make it possible to numerically solve non-linear tropical equilibration problems, out of reach of standard computation methods. We illustrate this approach first with the detailed reduction of a simple biochemical mechanism, the Michaelis-Menten enzymatic reaction model, and second, with large-scale performance figures obtained on the http://biomodels.net repository
Fichier principal
Vignette du fichier
s13015-014-0024-2.pdf (576.87 Ko) Télécharger le fichier
Origine : Fichiers éditeurs autorisés sur une archive ouverte

Dates et versions

hal-01098530 , version 1 (25-05-2021)

Identifiants

Citer

Sylvain Soliman, François Fages, Ovidiu Radulescu. A constraint solving approach to model reduction by tropical equilibration. Algorithms for Molecular Biology, 2014, 9 (1), pp.24. ⟨10.1186/s13015-014-0024-2⟩. ⟨hal-01098530⟩
88 Consultations
72 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More