Qualitative simulation of genetic regulatory networks using piecewise-linear models.

Qualitative Simulation of Genetic Regulatory Networks Using Piecewise-Linear Models

Dealing with Discontinuities in the Qualitative Simulation of Genetic Regulatory Networks

Methods developed for the qualitative simulation of dynamical systems have turned out to be powerful tools for studying genetic regulatory networks. We present a generalization of a simulation method based on piecewise-linear differential equation models that is able to deal with discontinuities. The method is sound and has been implemented in a computer tool called GNA.

Analyse qualitative de la dynamique de réseaux de régulation génique par des modèles linéaires par morceaux

The functioning and development of living organisms is controlled by large and complex networks of genes, proteins, small molecules, and their interactions, so-called genetic regulatory networks. In this review we discuss a method for the qualitative modeling and simulation of genetic regulatory networks which is well-adapted to the current lack of precise and quantitative biological data. The ...

Piecewise-linear models of genetic regulatory networks: theory and example

The experimental study of genetic regulatory networks has made tremendous progress in recent years resulting in a huge amount of data on the molecular interactions in model organisms. It is therefore not possible anymore to intuitively understand how the genes and interactions together influence the behavior of the system. In order to answer such questions, a rigorous modeling and analysis appr...

Parallel Analysis of Genetic Regulatory Networks

Studies of cells in silico can greatly reduce the need for expensive and prolonged laboratory experimentation. The use of model checking for the analysis of biological networks has attracted much attention [2, 6]. The individual approaches differ in reduction methods used for discretization of biological models and model-checking tools employed for the analysis. Our approach focuses on analysis...