A protocol for unraveling gene regulatory networks
A protocol for unraveling gene regulatory networks
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DOI：
10.1038/nprot.2008.187
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发表时间：
2008-01-01
期刊：
影响因子：
14.8
通讯作者：
Oliveri, Paola
中科院分区：
文献类型：
--
作者：
Materna, Stefan C.;Oliveri, Paola
调控基因形成了对发育程序至关重要的大型网络。这里介绍的协议描述了组装基因调控网络 (GRN) 地图的通用方法。它结合了调控基因的高分辨率时空分析、扰乱基因表达的策略以及对网络其他基因的扰动影响的量化。 GRN 的图谱是通过整合这些数据源而产生的，并根据调节基因之间的功能联系解释了发育事件。该协议已成功应用于海胆胚胎的调控过程，但它通常适用于主要依赖于转录调控的任何发育过程。解开整个组织或器官的 GRN 是一项具有挑战性的任务，并且根据复杂程度，可能需要数月到数年才能完成。
Regulatory genes form large networks that are fundamental to the developmental program. The protocol presented here describes a general approach to assemble maps of gene regulatory networks (GRNs). It combines high-resolution spatio-temporal profiling of regulatory genes, strategies to perturb gene expression and quantification of perturbation effects on other genes of the network. The map of the GRN emerges by integration of these data sources and explains developmental events in terms of functional linkages between regulatory genes. This protocol has been successfully applied to regulatory processes in the sea urchin embryo, but it is generally applicable to any developmental process that relies primarily on transcriptional regulation. Unraveling the GRN for a whole tissue or organ is a challenging undertaking and, depending on the complexity, may take anywhere from months to years to complete.