Petri nets for modelling metabolic pathways: a survey

Petri nets for modelling metabolic pathways: a survey

In the last 15 years, several research efforts have been directed 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 th...

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Veröffentlicht in:Natural computing 2010-12, Vol.9 (4), p.955-989
Hauptverfasser: Baldan, Paolo, Cocco, Nicoletta, Marin, Andrea, Simeoni, Marta
Format: Artikel
Sprache:eng
Schlagworte:
Artificial Intelligence
Availability
Complex Systems
Computer Science
Construction
Evolutionary Biology
Mathematical models
Metabolic disorders
Modelling
Pathways
Petri nets
Processor Architectures
Qualitative research
Representations
Theory of Computation
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Beschreibung
Zusammenfassung:In the last 15 years, several research efforts have been directed 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 construction 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.
ISSN:1567-7818
1572-9796
DOI:10.1007/s11047-010-9180-6