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Hybrid stochastic simulation of reaction-diffusion systems with slow and fast dynamics.
- Source :
- Journal of Chemical Physics; 2015, Vol. 143 Issue 23, p1-13, 13p, 5 Charts, 9 Graphs
- Publication Year :
- 2015
-
Abstract
- In this paper, we present a novel hybrid method to simulate discrete stochastic reaction-diffusion models arising in biochemical signaling pathways. We study moderately stiff systems, for which we can partition each reaction or diffusion channel into either a slow or fast subset, based on its propensity. Numerical approaches missing this distinction are often limited with respect to computational run time or approximation quality. We design an approximate scheme that remedies these pitfalls by using a new blending strategy of the well-established inhomogeneous stochastic simulation algorithm and the tau-leaping simulation method. The advantages of our hybrid simulation algorithm are demonstrated on three benchmarking systems, with special focus on approximation accuracy and efficiency. [ABSTRACT FROM AUTHOR]
Details
- Language :
- English
- ISSN :
- 00219606
- Volume :
- 143
- Issue :
- 23
- Database :
- Complementary Index
- Journal :
- Journal of Chemical Physics
- Publication Type :
- Academic Journal
- Accession number :
- 111947437
- Full Text :
- https://doi.org/10.1063/1.4937491