Mundade Rasika, Ozer Hatice Gulcin, Wei Han, Prabhu Lakshmi, Lu Tao
a Department of Pharmacology and Toxicology ; Indiana University School of Medicine ; Indianapolis , IN USA.
Cell Cycle. 2014;13(18):2847-52. doi: 10.4161/15384101.2014.949201.
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.
许多具有生物学意义的过程，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与DNA之间的关键相互作用。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与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）的结合实现了精确的基因组功能分析。本综述阐述了ChIP-seq的重要应用，重点介绍了其在全基因组范围内绘制转录因子结合位点、揭示特定转录因子调控基因差异表达的潜在分子机制以及鉴定表观遗传标记方面的作用。此外，我们还描述了ChIP-seq数据分析工作流程以及对该技术未来令人兴奋的潜在进展的展望。
