Abstract
In certain classes of chemical reaction networks (CRN), there may be two stable states. The challenge is to find a model of the CRN such that the stability properties can be predicted. In this paper we consider the problem of building a P-system designed to simulate the CRN in an attempt to determine if the CRN is stable or bistable. We found that for the networks in [2] none of the bistable CRN would have a bistable P-system by stoichiometry alone. The reaction kinetics must be included in the P-system model; the implementation of which has been considered an open problem. In this paper we conclude that a P-system for a CRN in m reactants and n products has at most 2(m 2 + mn) membranes and 6(m 2 + mn) rules. This suggests that P-system models of a chemical reaction network, including both stoichiometry and reaction kinetics can be built.
This is a preview of subscription content, log in via an institution.
Buying options
Tax calculation will be finalised at checkout
Purchases are for personal use only
Learn about institutional subscriptionsPreview
Unable to display preview. Download preview PDF.
References
Cazzaniga, P., Pescini, D., Romero-Campero, F.J., Besozzi, D., Mauri, G.: Stochastic Approaches in P Systems for Simulating Biological Systems. In: Fourth Brainstorming Week on Membrane Computing, Sevilla, Spain, Jan. 30 - Feb. 3, 2006, pp. 145–165 (2006)
Craciun, G., Tang, Y., Feinberg, M.: Understanding bistability in complex enzyme-driven reaction networks. PNAS 103, 8697–8702 (2006)
http://www.dcs.shef.ac.uk/~marian/PSimulatorWeb/PSystemMF.htm , last accessed 18 February 2007
Gillespie, D.T.: Exact stochastic simulation of coupled chemical reactions. Journal of Physical Chemistry 81, 2340–2361 (1977)
Paun, G.: Further Twenty Six Open Problems in Membrane Computing. In: Third Brainstorming Meeting on Membrane Computing, Sevilla, Spain (Feb. 2005)
Paun, G., Perez-Jimenez, M.J.: Membrane computing: Brief introduction, recent results and applications. BioSystems 85(1), 11–22 (2006)
Perez-Jimenez, M.J., Romero-Campero, F.R.: Modeling Vibrio fisheri’s behaviour Using P Systems. In: Systems Biology Workshop, ECAL’05 (Sept. 2005)
Perez-Jimenez, M.J., Romero-Campero, F.R.: Modeling EGFR signaling cascade using continuous membrane systems. In: Plotkin, G. (ed.) Proceedings of the Third International Workshop on Computational Methods in Systems Biology (CMSB 2005), pp. 118–129 (2005)
http://psystems.ieat.ro/ , last accessed 18 February 2007
Author information
Authors and Affiliations
Editor information
Rights and permissions
Copyright information
© 2007 Springer Berlin Heidelberg
About this paper
Cite this paper
Dunn, S., Stivers, P. (2007). P System Models of Bistable, Enzyme Driven Chemical Reaction Networks. In: Mira, J., Álvarez, J.R. (eds) Bio-inspired Modeling of Cognitive Tasks. IWINAC 2007. Lecture Notes in Computer Science, vol 4527. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-73053-8_20
Download citation
DOI: https://doi.org/10.1007/978-3-540-73053-8_20
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-73052-1
Online ISBN: 978-3-540-73053-8
eBook Packages: Computer ScienceComputer Science (R0)