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A practical guide to stochastic simulations of reaction-diffusion processes

Abstract:
A practical introduction to stochastic modelling of reaction-diffusion processes is presented. No prior knowledge of stochastic simulations is assumed. The methods are explained using illustrative examples. The article starts with the classical Gillespie algorithm for the stochastic modelling of chemical reactions. Then stochastic algorithms for modelling molecular diffusion are given. Finally, basic stochastic reaction-diffusion methods are presented. The connections between stochastic simulations and deterministic models are explained and basic mathematical tools (e.g. chemical master equation) are presented. The article concludes with an overview of more advanced methods and problems.

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Institution:
University of Oxford
Division:
MPLS
Department:
Mathematical Institute
Role:
Author

Publication date:
2007-04-15

Keywords:
Pubs id:
pubs:146803
UUID:
uuid:ee4fd1ae-31a5-4ba7-a777-a9711ea88bea
Local pid:
pubs:146803
Source identifiers:
146803
Deposit date:
2012-12-20
ARK identifier:

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