Dynamics in high-dimensional model gene networks
Signal Processing - Special issue: Genomic signal processing
A computer algebra approach to biological systems
ISSAC '03 Proceedings of the 2003 international symposium on Symbolic and algebraic computation
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The goal of this paper is to present and experiment the computer aided analysis of phase portraits of some ordinary differential equations. The latter are piecewise affine, and have been primitively introduced as coarse-grained models of gene regulatory networks. Their simple formulation allows for numerical investigation, but their typical phase portrait is still largely unknown. They have been shown to present all the main aspects of nonlinear dynamics, including chaos. But it is still of interest to simulate random versions of these models, and to count and classify their attractors. This paper presents algorithms that allow for an automatic treatment of this kind, and apply it to four-dimensional sample systems. Contrary to previous studies, the latter have several thresholds in each direction, a fact whose consequences on the number and nature of attractors is discussed.