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Modeling and Simulation of Genetic Regulatory Systems : A Literature Review

Hidde De Jong 1
1 HELIX - Computer science and genomics
Inria Grenoble - Rhône-Alpes, LBBE - Laboratoire de Biométrie et Biologie Evolutive - UMR 5558
Abstract : The spatiotemporal expression of genes in an organism is determined by regulatory systems that involve a large number of genes connected through a complex network of interactions. As an intuitive understanding of the behavior of these systems is hard to obtain, computer tools for the modeling and simulation of genetic regulatory networks will be indispensable. This report reviews formalisms that have been employed in mathematical biology and bioinformatics to describe genetic regulatory systems, in particular directed graphs, Bayesian networks, ordinary and partial differential equations, stochastic equations, Boolean networks and their generalizations, qualitative differential equations, and rule-based formalisms. In addition, the report discusses how these formalisms have been used in the modeling and simulation of regulatory systems.
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https://hal.inria.fr/inria-00072606
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Submitted on : Wednesday, May 24, 2006 - 10:22:58 AM
Last modification on : Tuesday, July 20, 2021 - 5:20:02 PM
Long-term archiving on: : Sunday, April 4, 2010 - 8:52:38 PM

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  • HAL Id : inria-00072606, version 1

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Hidde De Jong. Modeling and Simulation of Genetic Regulatory Systems : A Literature Review. RR-4032, INRIA. 2000. ⟨inria-00072606⟩

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