Coloured Petri nets for multilevel, multiscale and multidimensional modelling of biological systems. (3rd November 2017)

• Record Type: Journal Article
• Authors: Liu, Fei; Heiner, Monika; Gilbert, David
• Is Part Of: Briefings in bioinformatics. Volume 20:Number 3(2019)
• Page Start: 877
• Page End: 886
• Publication Date: 2017-11-03
• Subjects: multilevel -- multiscale and multidimensional modelling -- coloured Petri nets -- biological systems; Genetics -- Data processing -- Periodicals; Molecular biology -- Data processing -- Periodicals; Genomes -- Data processing -- Periodicals; 572.80285
• DOI: 10.1093/bib/bbx150
• Languages: English
• ISSNs: 1467-5463

Abstract

Abstract: Owing to the availability of data of one biological phenomenon at different levels/scales, modelling of biological systems is moving from single level/scale to multiple levels/scales, which introduces a number of challenges. Coloured Petri nets (ColPNs) have been successfully applied to multilevel, multiscale and multidimensional modelling of some biological systems, addressing many of these challenges. In this article, we first review the basics of ColPNs and some popular extensions, and then their applications for multilevel, multiscale and multidimensional modelling of biological systems. This understanding of how to use ColPNs for modelling biological systems will assist readers in selecting appropriate ColPN classes for specific modelling circumstances.