ChIP技术和其在基因组水平上分析DNA和蛋白质相互作用.PDF

HEREDITAS (Beijing) 2010 3 , 32(3): 219―228 ISSN 0253-9772 综述 DOI: 10.3724/SP.J.1005.2010.00219 ChIP 技术及其在基因组水平上分析DNA 与蛋白质相 互作用 1 1 1, 2 李敏俐 , 王薇 , 陆祖宏 1. , 210096; 2. , 210096 染色质免疫沉淀(Chromatin immunoprecipitaion, ChIP)技术是分析细胞内生理状态下DNA 结合蛋白与基 因组DNA 相互作用的技术。ChIP 与高密度芯片(ChIP-chip)或高通量测序(ChIP-Seq)相结合能产生大量的研究 数据, 在细胞的基因表达调控网络研究中发挥重要作用。文章主要介绍ChIP 、ChIP-chip 和ChIP-Seq 的技术特 点以及发展趋势, 重点讨论了ChIP-Seq 数据分析方法及相关的应用实例。 基因组; ChIP-Seq; ChIP-chip Genomic analysis of DNA-protein interaction by chromatin immunoprecipitation 1 1 1, 2 LI Min-Li , WANG Wei , LU Zu-Hong 1. The State Key Laboratory of Bioelectronics, Southeast University, Nanjing 210096, China; 2. Key Laboratory of Child Development and Learning Science , Ministry of Education , Southeast University, Nanjing 210096, China Abstract: Chromatin immunoprecipitation (ChIP) is an effective technique to analyze the interactions of DNA binding proteins with the genome in vivo. ChIP coupled with high density microarray (ChIP-chip) or high-throughput sequencing (ChIP-Seq) has generated large amount of data and expected to allow the development of a network describing the cellular transcriptional regulation. Here, we reviewed the ChIP, ChIP-chip, and ChIP-Seq techniques as well as their perspectives. Focus is given to data analysis of ChIP-Seq and the applications of ChIP-chip and ChIP-Seq. Keywords: genome; ChIP-Seq; ChIP-chip DNA, DNA DNA , , , (Cis-acting elements)(Promoter) , 100 (Enhancer)(Trans-acting factors) , 收稿日期: 2009−06−23; 修回日期: 2009−08−27 基金项目: (30871393