Abstract
We investigate the behaviors of chemical reactions of the Lotka-Volterra model with small number of molecules; hence the occurrence of random fluctuations modifies the deterministic behavior and the law of mass action is replaced by a stochastic model. We model it by using Abstract Rewriting System on Multisets, ARMS; ARMS is a stochastic method of simulating chemical reactions and it is based on the reaction rate equation. We confirmed that the magnitude of fluctuations on periodicity of oscillations becomes large, as the number of involved molecules is getting smaller; and these fluctuations induce another structure, which have not observed in the reactions with large number of molecules. We show that the underling mechanism through investigating the coarse grained phase space of ARMS.
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References
Dittrich, P., Ziegler, J., Banzhaf, W.: Artificial chemistries, a review. Artif. Life 7(3), 225–275 (2001)
Gillespie, D.T.: Exact Stochastic Simulation of Coupled Chemical Reactions. J. Phys. Chem. 81(25), 2340–2361 (1977)
Gillespie, D.T.: Approximate accelerated stochastic simulation of chemically reacting systems. J. Chem. Phys. 115(4), 1716–1733 (2001)
Hofbauer, J., Sigmund, K.: The Theory of Evolution and Dynamical Systems. Cambridge Univ. Press, Cambridge (1988)
Manca, V.: String rewriting and metabolism: a logical perspective, in Computing with Bio-Molecules. In: Theory and Experiments, pp. 36–60. Springer, Singapore (1998)
Nicolis, G., Prigogine, I.: Exploring Complexity, An Introduction. Freeman and Company, San Francisco (1989)
Ohkubo, J., Shnerb, N., Kesselar, D.A.: Transition Phenomena Induced by Internal Noise and Quasi-Absorbing State. J. Phisical Society Japan 77(4), 044002-1 – 042005 (2008)
Suzuki, Y., Tsumoto, S., Tanaka, H.: Analysis of Cycles in Symbolic Chemical System based on Abstract Rewriting System on Multisets. In: Artificial Life V, pp. 482–489. MIT Press, Cambridge (1996)
Suzuki, Y., Fujiwara, Y., Takabayashi, J., Tanaka, H.: Artificial Life Applications of a Class of P Systems: Abstract Rewriting System on Multisets. In: Calude, C.S., Pun, G., Rozenberg, G., Salomaa, A. (eds.) Multiset Processing. LNCS, vol. 2235, p. 299. Springer, Heidelberg (2001)
Suzuki, Y., Tanaka, H.: Modeling P53 signaling network by using multiset processing. In: Applications of Membrane Computing, pp. 203–215. Springer, Tokyo (2006)
Suzuki, Y.: An investigation of the Brusselator on the mesoscopic scale. Inter. J. of Parallel, Emergent and Distributed Sys. 22, 91–102 (2007)
Umeki, M., Suzuki, Y.: A Simple Membrane Computing Method For Simulating Bio-chemical Reactions 27(3), 529–550 (2008)
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Suzuki, Y. (2010). Fluctuation Induced Structure in Chemical Reaction with Small Number of Molecules. In: Peper, F., Umeo, H., Matsui, N., Isokawa, T. (eds) Natural Computing. Proceedings in Information and Communications Technology, vol 2. Springer, Tokyo. https://doi.org/10.1007/978-4-431-53868-4_33
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DOI: https://doi.org/10.1007/978-4-431-53868-4_33
Publisher Name: Springer, Tokyo
Print ISBN: 978-4-431-53867-7
Online ISBN: 978-4-431-53868-4
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