Global Mapping of Open Chromatin Regulatory Elements by Formaldehyde-Assisted Isolation of Regulatory Elements Followed by Sequencing (FAIRE-seq)
Global Mapping of Open Chromatin Regulatory Elements by Formaldehyde-Assisted Isolation of Regulatory Elements Followed by Sequencing (FAIRE-seq)
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DOI：
10.1007/978-1-4939-2877-4_17
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发表时间：
2015-01-01
期刊：
影响因子：
--
通讯作者：
Gevry, Nicolas
中科院分区：
文献类型：
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作者：
Bianco, Stephanie;Rodrigue, Sebastien;Gevry, Nicolas
遗传信息是由DNA和蛋白质组成的复杂结构组织在一起，称为染色质。染色质在转录过程中起着动态的作用，因为其组分之间的相互作用的改变导致细胞转录程序的失调。表观遗传标记的修饰、核小体精确定位的变化以及随后的核小体动员调节各种转录因子对其基础DNA模板的访问。核小体缺失区，也称为开放染色质结构域，与活性DNA调控元件相关，包括启动子、增强子、沉默子和绝缘子。在这里，我们描述了一个快速和简单的技术，名为FAIRE（甲醛辅助隔离的监管元件）的协议。结合高通量测序（FAIRE-seq），该程序允许分离无核小体区域及其沿基因组的沿着作图，从而提供细胞特异性调控元件的全局视图。
Genetic information is organized in a complex structure composed of DNA and proteins together designated chromatin. Chromatin plays a dynamic role in transcriptional processes in that alteration of the interaction between its components results in the deregulation of cellular transcriptional program. Modification of epigenetic marks, variation in the precise positioning of nucleosomes, and consequent mobilization of nucleosomes regulate the access of various transcriptional factors to its underlying DNA template. Nucleosome-depleted regions, also designated open chromatin domains, are associated with active DNA regulatory elements, including promoters, enhancers, silencers, and insulators. Here, we describe the protocol of a rapid and simple technique entitled FAIRE (formaldehyde-assisted isolation of regulatory elements). Combined with high-throughput sequencing (FAIRE-seq), this procedure allows isolation of nucleosome-free regions and their mapping along the genome, thereby providing a global view of cell-specific regulatory elements.