Multi-level dynamic modeling in biological systems: Application of hybrid Petri nets to network simulation

Rafael S. Costa, Daniel Machado, A. R. Neves, Susana Vinga

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

1 Citation (Scopus)

Abstract

The recent progress in the high-throughput experimental technologies allows the reconstruction of many biological networks and to evaluate changes in proteins, genes and metabolites levels in different conditions. On the other hand, computational models, when complemented with regulatory information, can be used to predict the phenotype of an organism under different genetic and environmental conditions. These computational methods can be used for example to identify molecular targets capable of inactivating a bacterium and to understand its virulence factors. This work proposes a hybrid metabolic-regulatory Petri net approach that is based on the combination of approximate enzyme-kinetic rate laws and Petri nets. A prototypic network model is used as a test-case to illustrate the application of these concepts in Systems Biology.

Original languageEnglish
Title of host publicationBIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms
Pages317-321
Number of pages5
Publication statusPublished - 2012
EventInternational Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2012 - Vilamoura, Algarve, Portugal
Duration: 1 Feb 20124 Feb 2012

Publication series

NameBIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms

Conference

ConferenceInternational Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2012
Country/TerritoryPortugal
CityVilamoura, Algarve
Period1/02/124/02/12

Keywords

  • Approximate rate laws
  • Hybrid Petri net
  • Integrated dynamic modelling
  • Streptococcus pneumoniae
  • Systems biology

Fingerprint

Dive into the research topics of 'Multi-level dynamic modeling in biological systems: Application of hybrid Petri nets to network simulation'. Together they form a unique fingerprint.

Cite this