Petri Nets for Modelling Metabolic Pathways: A Survey
P. Baldan(1),
N. Cocco (2),
A. Marin(2)
M. Simeoni(2),
(1) Dipartimento di Matematica Pura e Applicata, Università di Padova, Italia.
(2) Dipartimento di Informatica, Università Ca' Foscari di Venezia, Italia.
Abstract:
In the last fifteen years, several research efforts have been di-
rected towards the representation and the analysis of metabolic
pathways by using Petri nets. The goal of this paper is
twofold. First, we discuss how the knowledge about metabolic pathways
can be represented with Petri nets. We point out the main problems
that arise in the construc- tion of a Petri net model of a metabolic
pathway and we outline some solutions proposed in the
literature. Second, we present a comprehensive review of recent
research on this topic, in order to assess the maturity of the field
and the availability of a methodology for modelling a metabolic
pathway by a corresponding Petri net.