Using chemical organization theory for model checking.

ABSTRACT:

Motivation

The increasing number and complexity of biomodels makes automatic procedures for checking the models' properties and quality necessary. Approaches like elementary mode analysis, flux balance analysis, deficiency analysis and chemical organization theory (OT) require only the stoichiometric structure of the reaction network for derivation of valuable information. In formalisms like Systems Biology Markup Language (SBML), however, information about the stoichiometric coefficients required for an analysis of chemical organizations can be hidden in kinetic laws.

Results

First, we introduce an algorithm that uncovers stoichiometric information that might be hidden in the kinetic laws of a reaction network. This allows us to apply OT to SBML models using modifiers. Seco

SUBMITTER: Kaleta C 

PROVIDER: S-EPMC2712341 | biostudies-literature | 2009 Aug

REPOSITORIES: biostudies-literature