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Briefings in Bioinformatics Advance Access originally published online on July 11, 2007
Briefings in Bioinformatics 2007 8(4):210-219; doi:10.1093/bib/bbm029
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© The Author 2007. Published by Oxford University Press. For Permissions, please email: journals.permissions@oxfordjournals.org

Petri net modelling of biological networks

Claudine Chaouiya

Corresponding author. Claudine Chaouiya, TAGC, INSERM ERM, 206, Université de la Méditerranée, Campus Scientifique de Luminy – Case 928, 13288 Marseille Cedex 09, France. E-mail: chaouiya{at}univmed.fr

Mathematical modelling is increasingly used to get insights into the functioning of complex biological networks. In this context, Petri nets (PNs) have recently emerged as a promising tool among the various methods employed for the modelling and analysis of molecular networks. PNs come with a series of extensions, which allow different abstraction levels, from purely qualitative to more complex quantitative models. Noteworthily, each of these models preserves the underlying graph, which depicts the interactions between the biological components. This article intends to present the basics of the approach and to foster the potential role PNs could play in the development of the computational systems biology.

Keywords: dynamical modelling, Petri nets, biological networks

Submitted: March 31, 2007. Received (in revised form): June 15, 2007.


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