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非线性化学福克-普朗克方程和化学朗之万方程的准确性如何?

How accurate are the nonlinear chemical Fokker-Planck and chemical Langevin equations?

机构信息

School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JR, United Kingdom.

出版信息

J Chem Phys. 2011 Aug 28;135(8):084103. doi: 10.1063/1.3625958.

Abstract

The chemical Fokker-Planck equation and the corresponding chemical Langevin equation are commonly used approximations of the chemical master equation. These equations are derived from an uncontrolled, second-order truncation of the Kramers-Moyal expansion of the chemical master equation and hence their accuracy remains to be clarified. We use the system-size expansion to show that chemical Fokker-Planck estimates of the mean concentrations and of the variance of the concentration fluctuations about the mean are accurate to order Ω(-3∕2) for reaction systems which do not obey detailed balance and at least accurate to order Ω(-2) for systems obeying detailed balance, where Ω is the characteristic size of the system. Hence, the chemical Fokker-Planck equation turns out to be more accurate than the linear-noise approximation of the chemical master equation (the linear Fokker-Planck equation) which leads to mean concentration estimates accurate to order Ω(-1∕2) and variance estimates accurate to order Ω(-3∕2). This higher accuracy is particularly conspicuous for chemical systems realized in small volumes such as biochemical reactions inside cells. A formula is also obtained for the approximate size of the relative errors in the concentration and variance predictions of the chemical Fokker-Planck equation, where the relative error is defined as the difference between the predictions of the chemical Fokker-Planck equation and the master equation divided by the prediction of the master equation. For dimerization and enzyme-catalyzed reactions, the errors are typically less than few percent even when the steady-state is characterized by merely few tens of molecules.

摘要

化学福克-普朗克方程和相应的化学朗之万方程通常被用作化学主方程的近似。这些方程是从化学主方程的克拉默斯-莫亚尔展开的不受控制的二阶截断中推导出来的,因此它们的准确性仍有待澄清。我们使用系统大小展开式表明,对于不服从详细平衡的反应系统,化学福克-普朗克对平均浓度和浓度波动方差的估计在阶数为 Ω(-3∕2)时是准确的,对于服从详细平衡的系统,至少在阶数为 Ω(-2)时是准确的,其中 Ω 是系统的特征尺寸。因此,化学福克-普朗克方程比化学主方程的线性噪声近似(线性福克-普朗克方程)更准确,后者导致平均浓度估计准确到阶数 Ω(-1∕2),方差估计准确到阶数 Ω(-3∕2)。对于在小体积中实现的化学系统,例如细胞内的生化反应,这种更高的准确性尤其明显。还获得了化学福克-普朗克方程中浓度和方差预测的相对误差的近似大小的公式,其中相对误差定义为化学福克-普朗克方程的预测与主方程的预测之间的差异除以主方程的预测。对于二聚化和酶催化反应,即使稳态仅由数十个分子表征,误差通常也小于百分之几。

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