Coloured fuzzy Petri nets for modelling and analysing membrane systems

George Assaf; Monika Heiner; Fei Liu

doi:10.1016/j.biosystems.2021.104592

Coloured fuzzy Petri nets for modelling and analysing membrane systems

Biosystems. 2022 Feb:212:104592. doi: 10.1016/j.biosystems.2021.104592. Epub 2022 Jan 4.

Authors

George Assaf¹, Monika Heiner², Fei Liu³

Affiliations

¹ Brandenburg Technical University (BTU), Cottbus, Germany. Electronic address: george.assaf@b-tu.de.
² Brandenburg Technical University (BTU), Cottbus, Germany. Electronic address: monika.heiner@b-tu.de.
³ South China University of Technology, Guangzhou, China. Electronic address: feiliu@scut.edu.cn.

PMID: 34995696
DOI: 10.1016/j.biosystems.2021.104592

Abstract

Membrane systems are a very powerful computational modelling formalism inspired by the internal organisation of living cells. Modelling of membrane systems is challenged by composing many structurally similar components, which may result in very large models. Furthermore, some components may suffer from a lack of precise kinetic parameters. FPN^C (coloured fuzzy Petri nets) combine coloured Petri nets with fuzzy kinetic parameters, and thus offer an approach to address these challenges. In this paper, we use FPN^C to model and simulate membrane systems which are enriched by fuzzy kinetic parameters. We also introduce a methodology and workflow utilising FPN^C for modelling and simulating general biological systems which have to cope with incomplete knowledge of their kinetic data.

Keywords: Coloured fuzzy continuous Petri net; Coloured fuzzy hybrid Petri net; Coloured fuzzy stochastic Petri nets; Fuzzy membrane systems; Fuzzy simulation; Modelling; Parameter uncertainties.

MeSH terms

Computer Simulation
Kinetics
Models, Biological*