The Linear Noise Approximation for Spatially Dependent Biochemical Networks.

Abstract:

:An algorithm for computing the linear noise approximation (LNA) of the reaction-diffusion master equation (RDME) is developed and tested. The RDME is often used as a model for biochemical reaction networks. The LNA is derived for a general discretization of the spatial domain of the problem. If M is the number of chemical species in the network and N is the number of nodes in the discretization in space, then the computational work to determine approximations of the mean and the covariances of the probability distributions is proportional to [Formula: see text] in a straightforward implementation. In our LNA algorithm, the work is proportional to [Formula: see text]. Since N usually is larger than M, this is a significant reduction. The accuracy of the approximation in the algorithm is estimated analytically and evaluated in numerical experiments.

journal_name

Bull Math Biol

authors

Lötstedt P

doi

10.1007/s11538-018-0428-0

subject

Has Abstract

pub_date

2019-08-01 00:00:00

pages

2873-2901

issue

8

eissn

0092-8240

issn

1522-9602

pii

10.1007/s11538-018-0428-0

journal_volume

81

pub_type

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