Logical Modeling and Dynamical Analysis of Cellular Networks.
Logical Modeling and Dynamical Analysis of Cellular Networks.
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DOI：
10.3389/fgene.2016.00094
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发表时间：
2016
影响因子：
3.7
通讯作者：
Chaouiya C
中科院分区：
文献类型：
--
作者：
Abou-Jaoudé W;Traynard P;Monteiro PT;Saez-Rodriguez J;Helikar T;Thieffry D;Chaouiya C
逻辑（或逻辑）形式主义越来越多地用于模拟监管和信号网络。为了补充这些应用程序，几个小组贡献了各种方法和工具来支持逻辑模型的定义和分析。在介绍了逻辑建模框架及其几个变体之后，我们在这里回顾了一些最近的方法论进展，以简化大型复杂网络的分析。特别是，我们调查了确定模型吸引子及其可达性属性、评估外部信号变化的动态影响以及持续减少大型模型的方法。为了说明这些进展，我们进一步考虑了两个重要生物过程的几个已发表的逻辑模型，即 T 辅助细胞的分化和哺乳动物细胞周期的控制。
The logical (or logic) formalism is increasingly used to model regulatory and signaling networks. Complementing these applications, several groups contributed various methods and tools to support the definition and analysis of logical models. After an introduction to the logical modeling framework and to several of its variants, we review here a number of recent methodological advances to ease the analysis of large and intricate networks. In particular, we survey approaches to determine model attractors and their reachability properties, to assess the dynamical impact of variations of external signals, and to consistently reduce large models. To illustrate these developments, we further consider several published logical models for two important biological processes, namely the differentiation of T helper cells and the control of mammalian cell cycle.