Integrated Regulatory Networks IRNs: Spatially organized biochemical modulesReport as inadecuate




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* Corresponding author 1 Repmus - Représentations musicales STMS - Sciences et Technologies de la Musique et du Son 2 MuTant - Synchronous Realtime Processing and Programming of Music Signals Inria Paris-Rocquencourt, UPMC - Université Pierre et Marie Curie - Paris 6, IRCAM, CNRS - Centre National de la Recherche Scientifique 3 COSMO IBISC - Informatique, Biologie Intégrative et Systèmes Complexes

Abstract : In this paper, we aim at modeling and analyzing the regulation processes in multi-cellular biological systems, in particular tissues. The modeling frame- work is a generalization of several existing formalisms. In particular, it can be seen as an extension of logical regulatory networks -a la Thomas with information about cells physical state and environment, e.g., their spatial re- lationships. The resulting formalisms, called integrated regulatory networks IRNs is equipped with a transition systems semantics that preserves the possibility of an enumerative and exhaustive state space exploration. This paper presents the modeling framework, its semantics, as well as a prototype implementation that allowed preliminary experiments on some applications related to biology.

Keywords : Logical regulatory networks Topological collections Enumerable state space Spatial modeling Systems biology





Author: Jean-Louis Giavitto - Hanna Klaudel - Franck Pommereau -

Source: https://hal.archives-ouvertes.fr/



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