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Parameter estimation and bifurcation analysis of stochastic models of gene regulatory networks: tensor-structured methods

机译:随机模型的参数估计与分岔分析   基因调控网络:张量结构方法

摘要

Stochastic modelling provides an indispensable tool for understanding howrandom events at the molecular level influence cellular functions. In practice,the common challenge is to calibrate a large number of model parameters againstthe experimental data. A related problem is to efficiently study how thebehaviour of a stochastic model depends on its parameters, i.e. whether achange in model parameters can lead to a significant qualitative change inmodel behaviour (bifurcation). In this paper, tensor-structured parametricanalysis (TPA) is presented. It is based on recently proposed low-parametrictensor-structured representations of classical matrices and vectors. Thisapproach enables simultaneous computation of the model properties for allparameter values within a parameter space. This methodology is exemplified tostudy the parameter estimation, robustness, sensitivity and bifurcationstructure in stochastic models of biochemical networks. The TPA has beenimplemented in Matlab and the codes are available at http://www.stobifan.org .
机译:随机建模为理解分子水平的随机事件影响细胞功能提供了必不可少的工具。在实践中,共同的挑战是对照实验数据校准大量模型参数。一个相关的问题是有效研究随机模型的行为如何取决于其参数,即,模型参数的更改是否会导致模型行为(分叉)的重大质变。本文提出了张量结构的参数分析(TPA)。它基于最近提出的经典矩阵和向量的低参数张量结构表示。这种方法可以同时计算参数空间内所有参数值的模型属性。以该方法为例来研究生化网络随机模型中的参数估计,鲁棒性,灵敏度和分叉结构。 TPA已在Matlab中实现,其代码可在http://www.stobifan.org上获得。

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