On P systems as a modelling tool for biological systems

Francesco Bernardini, Marian Gheorghe, Natalio Krasnogor, Ravie Chandren Muniyandi, Mario J. Pérez-Jímenez, Francisco José Romero-Campero

Research output: Chapter in Book/Report/Conference proceedingConference contribution

16 Citations (Scopus)

Abstract

We introduce a variant of P systems where rules have associated a real number providing a measure for the "intrinsic reactivity"of the rule and roughly corresponding to the kinetic coefficient which, in bio-chemistry, is usually associated to each molecular reaction. The behaviour of these P systems is then defined according to a strategy which, in each step, randomly selects the next rule to be applied depending upon a certain distribution of probabilities. As an application, we present a P system model of the quorum sensing regulatory networks of the bacterium Vibrio Fischeri. In this respect, a formalisation of the network in terms of P systems is provided and some simulation results concerning the behaviour of a colony of such bacteria are reported. We also briefly describe the implementation techniques adopted by pointing out the generality of our approach which appears to be fairly independent from the particular choice of P system variant and the language used to implement it.

Original languageEnglish
Title of host publicationLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Pages114-133
Number of pages20
Volume3850 LNCS
DOIs
Publication statusPublished - 2006
Externally publishedYes
Event6th International Workshop on Membrane Computing, WMC 2005 - Vienna
Duration: 18 Jul 200521 Jul 2005

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume3850 LNCS
ISSN (Print)03029743
ISSN (Electronic)16113349

Other

Other6th International Workshop on Membrane Computing, WMC 2005
CityVienna
Period18/7/0521/7/05

Fingerprint

P Systems
Biological systems
Biological Systems
Bacteria
Aliivibrio fischeri
Quorum Sensing
Modeling
Language
Kinetics
Biochemistry
Regulatory Networks
Reactivity
Formalization
Coefficient
Simulation

ASJC Scopus subject areas

  • Computer Science(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Theoretical Computer Science

Cite this

Bernardini, F., Gheorghe, M., Krasnogor, N., Muniyandi, R. C., Pérez-Jímenez, M. J., & Romero-Campero, F. J. (2006). On P systems as a modelling tool for biological systems. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 3850 LNCS, pp. 114-133). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 3850 LNCS). https://doi.org/10.1007/11603047_8

On P systems as a modelling tool for biological systems. / Bernardini, Francesco; Gheorghe, Marian; Krasnogor, Natalio; Muniyandi, Ravie Chandren; Pérez-Jímenez, Mario J.; Romero-Campero, Francisco José.

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 3850 LNCS 2006. p. 114-133 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 3850 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Bernardini, F, Gheorghe, M, Krasnogor, N, Muniyandi, RC, Pérez-Jímenez, MJ & Romero-Campero, FJ 2006, On P systems as a modelling tool for biological systems. in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). vol. 3850 LNCS, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 3850 LNCS, pp. 114-133, 6th International Workshop on Membrane Computing, WMC 2005, Vienna, 18/7/05. https://doi.org/10.1007/11603047_8
Bernardini F, Gheorghe M, Krasnogor N, Muniyandi RC, Pérez-Jímenez MJ, Romero-Campero FJ. On P systems as a modelling tool for biological systems. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 3850 LNCS. 2006. p. 114-133. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). https://doi.org/10.1007/11603047_8
Bernardini, Francesco ; Gheorghe, Marian ; Krasnogor, Natalio ; Muniyandi, Ravie Chandren ; Pérez-Jímenez, Mario J. ; Romero-Campero, Francisco José. / On P systems as a modelling tool for biological systems. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 3850 LNCS 2006. pp. 114-133 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).
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