Modular modelling of signalling pathways and their cross-talk
Modular modelling of signalling pathways and their cross-talk
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DOI：
10.1016/j.tcs.2012.07.003
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发表时间：
2012-10-19
影响因子：
1.1
通讯作者：
Calder, Muffy
中科院分区：
文献类型：
--
作者：
Donaldson, Robin;Calder, Muffy
信号通路是众所周知的抽象概念，它解释了细胞对信号做出反应的机制。通路的集合形成网络，并且网络中通路之间的相互作用（称为串扰）使进一步复杂的信号传导行为成为可能。虽然有几个正式的建模方法的信号通路，没有明确的串扰，本文的目的是定义和分类串扰的严格的方式。我们定义了一个模块化的途径和网络建模的方法，在PRISM建模语言的模块构造的基础上，和一组通用的信令模块。根据变量共享、同步标签和反应重命名的各种生物学上有意义的组合，定义了五种不同类型的串扰。该方法说明了与TGF-β，WNT和MAPK通路之间的串扰的案例研究分析。(C)2012 Elsevier B. V.保留所有权利。
Signalling pathways are well-known abstractions that explain the mechanisms whereby cells respond to signals. Collections of pathways form networks, and interactions between pathways in a network, known as cross-talk, enables further complex signalling behaviours. While there are several formal modelling approaches for signalling pathways, none make cross-talk explicit; the aim of this paper is to define and categorise cross-talk in a rigorous way. We define a modular approach to pathway and network modelling, based on the module construct in the PRISM modelling language, and a set of generic signalling modules. Five different types of cross-talk are defined according to various biologically meaningful combinations of variable sharing, synchronisation labels and reaction renaming. The approach is illustrated with a case-study analysis of cross-talk between the TGF-beta, WNT and MAPK pathways. (C) 2012 Elsevier B.V. All rights reserved.