Fast evaluation of fluctuations in biochemical networks with the linear noise approximation

被引：301

作者：

Elf, J ^{[1
]}

Ehrenberg, M ^{[1
]}

机构：

[1] Uppsala Univ, Dept Cell & Mol Biol, BMC, S-75124 Uppsala, Sweden

来源：

GENOME RESEARCH | 2003年 / 13卷 / 11期

关键词：

D O I：

10.1101/gr.1196503

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Biochemical networks in single cells can display large fluctuations in molecule numbers, making mesoscopic approaches necessary for correct system descriptions. We present a general method that allows rapid characterization of the stochastic properties of intracellular networks. The starting point is a macroscopic description that identifies the system's elementary reactions in terms of rate laws and stoichiometries. From this formulation follows directly the stationary Solution of the linear noise approximation (LNA) of the Master equation for all the components in the network. The method complements bifurcation Studies of the system's parameter dependence by providing estimates of sizes, correlations, and time scales of stochastic fluctuations. We describe how the LNA can give precise system descriptions also near macroscopic instabilities by Suitable variable changes and elimination of fast variables.

引用

页码：2475 / 2484

页数：10

共 42 条

[31] Noise in a minimal regulatory network: plasmid copy number control
Paulsson, J
Ehrenberg, M
[J]. QUARTERLY REVIEWS OF BIOPHYSICS, 2001, 34 (01) : 1 - 59
[32] Concentration fluctuations in a mesoscopic oscillating chemical reaction system
Qian, H
Saffarian, S
Elson, EL
[J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (16) : 10376 - 10381
[33] Risken H., 1984, FOKKER PLANCK EQUATI
[34] SAURO HM, 1993, COMPUT APPL BIOSCI, V9, P441
[35] Schrodinger E., 1944, WHAT IS LIFE
[36] STRANG G, 1988, LINEAR ALGEBRA ITS A
[37] Strogatz S.H., 1994, NONLINEAR DYNAMICS C
[38] Stochastic simulation of coupled reaction-diffusion processes
Stundzia, AB
Lumsden, CJ
[J]. JOURNAL OF COMPUTATIONAL PHYSICS, 1996, 127 (01) : 196 - 207
[39] Intrinsic noise in gene regulatory networks
Thattai, M
van Oudenaarden, A
[J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2001, 98 (15) : 8614 - 8619
[40] van Kampen N. G, 1997, STOCHASTIC PROCESSES

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