Structure, evolution and dynamics of transcriptional regulatory networks
Structure, evolution and dynamics of transcriptional regulatory networks
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DOI：
10.1042/bst0381155
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发表时间：
2010-10-01
影响因子：
3.9
通讯作者：
Babu, M. Madan
中科院分区：
文献类型：
--
作者：
Babu, M. Madan
整个基因组序列的可用性和关于基因调控的大量文献使研究人员能够以网络的形式对生物体的转录调控系统进行建模。在这样的网络中，TF（转录因子）和TG（目标基因）被表示为节点，TF和TG之间的调控相互作用被表示为有向链接。在本综述中，我讨论了以下与转录调控网络有关的主题。 (i)结构和组织：首先，我介绍网络的概念并讨论我们对转录网络的结构和组织的理解。 (ii) 演化：然后我描述影响网络演化和塑造网络结构的不同机制和力量。 (iii) 动力学：我讨论了将 mRNA 丰度或半衰期等动力学信息与转录网络数据相结合的研究，以阐明调控网络动力学的一般原理。特别是，我讨论了细胞间转录因子表达水平的变异性如何允许基因相同的细胞群的不同成员对相同的基础网络进行差异化利用。最后，我最后讨论了未来研究的开放性问题，并强调了其对进化、发育、疾病和基因工程等应用的影响。
The availability of entire genome sequences and the wealth of literature on gene regulation have enabled researchers to model an organism's transcriptional regulation system in the form of a network. In such a network, TFs (transcription factors) and TGs (target genes) are represented as nodes and regulatory interactions between TFs and TGs are represented as directed links. In the present review, I address the following topics pertaining to transcriptional regulatory networks. (i) Structure and organization: first, I introduce the concept of networks and discuss our understanding of the structure and organization of transcriptional networks. (ii) Evolution: I then describe the different mechanisms and forces that influence network evolution and shape network structure. (iii) Dynamics: I discuss studies that have integrated information on dynamics such as mRNA abundance or half-life, with data on transcriptional network in order to elucidate general principles of regulatory network dynamics. In particular, I discuss how cell-to-cell variability in the expression level of TFs could permit differential utilization of the same underlying network by distinct members of a genetically identical cell population. Finally, I conclude by discussing open questions for future research and highlighting the implications for evolution, development, disease and applications such as genetic engineering.