Analyzing Stationary States of Gene Regulatory Network Using Petri Nets

Article type: Research Article

Authors: Gambin, Anna | Lasota, Sıawomir | Rutkowski, Michaı

Affiliations: Institute of Informatics, Warsaw University, Banacha 2, 02-097 Warszawa, Poland

Note: [] Corresponding author. E-mail: [email protected]

Abstract: We introduce and formally define the notion of a stationary state for Petri nets. We also propose a fully automatic method for finding such states. The procedure makes use of the Presburger arithmetic to describe all the stationary states. Finally we apply this novel approach to find stationary states of a gene regulatory network describing the flower morphogenesis of A. thaliana. This shows that the proposed method can be successfully applied in the study of biological systems.

Keywords: Petri net, stationary state, gene regulatory network, Presburger arithmetic, flower morphogenesis, Arabidopsis thaliana

Journal: In Silico Biology, vol. 6, no. 1-2, pp. 93-109, 2006