Qualitative analysis and verification of hybrid models of genetic regulatory networks: Nutritional stress response in escherichia coli

Abstract

The switch-like character of the dynamics of genetic regulatory networks has attracted much attention from mathematical biologists and researchers on hybrid systems alike. We extend our previous work on a method for the qualitative analysis of hybrid models of genetic regulatory networks, based on a class of piecewise-affine differential equation (PADE) models, in two directions. First, we present a refinement of the method using a discrete or qualitative abstraction that preserves stronger properties of the dynamics of the PA systems, in particular the sign patterns of the derivatives of the concentration variables. The discrete transition system resulting from the abstraction is a conservative approximation of the dynamics of the PA system and can be computed symbolically. Second, we apply the refined method to a regulatory system whose functioning is not yet well-understood by biologists, the nutritional stress response in the bacterium Escherichia coli. © Springer-Verlag Berlin Heidelberg 2005.