Role of ChIP-seq in the discovery of transcription factor binding sites, differential gene regulation mechanism, epigenetic marks and beyond.
Role of ChIP-seq in the discovery of transcription factor binding sites, differential gene regulation mechanism, epigenetic marks and beyond.
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DOI：
10.4161/15384101.2014.949201
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发表时间：
2014
期刊：
影响因子：
--
通讯作者：
Lu T
中科院分区：
文献类型：
--
作者：
Mundade R;Ozer HG;Wei H;Prabhu L;Lu T
许多重要的生物学过程，如细胞分化和细胞周期进程、基因转录和DNA复制、染色体稳定性和表观遗传沉默等，都依赖于细胞蛋白质和DNA之间的相互作用。染色质免疫沉淀（ChIP）是一种重要的实验技术，用于研究细胞中特定蛋白质和DNA之间的相互作用，并确定它们在特定基因组位点上的定位。近年来，ChIP与第二代DNA测序技术（ChIP-seq）的结合允许精确的基因组功能测定。本文综述了ChIP-seq的重要应用，重点介绍了其在全基因组转录因子结合位点定位中的作用，揭示了由特定转录因子控制的差异基因调控的潜在分子机制，以及鉴定表观遗传标记。此外，我们还描述了ChIP-seq数据分析工作流程，并展望了ChIP-seq技术在未来令人兴奋的潜在进步。
Many biologically significant processes, such as cell differentiation and cell cycle progression, gene transcription and DNA replication, chromosome stability and epigenetic silencing etc. depend on the crucial interactions between cellular proteins and DNA. Chromatin immunoprecipitation (ChIP) is an important experimental technique for studying interactions between specific proteins and DNA in the cell and determining their localization on a specific genomic locus. In recent years, the combination of ChIP with second generation DNA-sequencing technology (ChIP-seq) allows precise genomic functional assay. This review addresses the important applications of ChIP-seq with an emphasis on its role in genome-wide mapping of transcription factor binding sites, the revelation of underlying molecular mechanisms of differential gene regulation that are governed by specific transcription factors, and the identification of epigenetic marks. Furthermore, we also describe the ChIP-seq data analysis workflow and a perspective for the exciting potential advancement of ChIP-seq technology in the future.