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A convergent reaction-diffusion master equation
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DOI：10.1063/1.4816377.png)
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The reaction-diffusion master equation (RDME) is a lattice stochastic reaction-diffusion model that has been used to study spatially distributed cellular processes. The RDME is often interpreted as an approximation to spatially continuous models in which molecules move by Brownian motion and react by one of several mechanisms when sufficiently close. In the limit that the lattice spacing approaches zero, in two or more dimensions, the RDME has been shown to lose bimolecular reactions. The RDME is therefore not a convergent approximation to any spatially continuous model that incorporates bimolecular reactions. In this work we derive a new convergent RDME (CRDME) by finite volume discretization of a spatially continuous stochastic reaction-diffusion model popularized by Doi. We demonstrate the numerical convergence of reaction time statistics associated with the CRDME. For sufficiently large lattice spacings or slow bimolecular reaction rates, we also show that the reaction time statistics of the CRDME may be approximated by those from the RDME. The original RDME may therefore be interpreted as an approximation to the CRDME in several asymptotic limits. (C) 2013 AIP Publishing LLC.
Keyword:
EUKARYOTIC GENE-EXPRESSION
CHEMICAL-REACTIONS
STOCHASTIC SIMULATION
BIMOLECULAR REACTIONS
KINETICS
ALGORITHM
TRANSPORT
SYSTEM
期刊
IF:
3.1
论文数:
7.2W
被引数:
23.2W
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