转录因子结合位点生物信息学研究进展.pdf

HEREDITAS (Beijing) 2009 4 , 31(4): 365―373 ISSN 0253-9772 综述 DOI: 10.3724/SP.J.1005.2009.00365 转录因子结合位点生物信息学研究进展 1, 2 1, 3 2 1, 3 侯琳 , 钱敏平 , 朱云平 邓明华 1. , 100 871; 2. , , , 100850; 3. , 100871 转录因子结合位点(Transcription factor binding site, TFBS)是与转录因子结合的DNA 序列, 它们与转录 因子相互作用调控基因的转录过程。确定TFBS 是理解转录调控机制, 建立转录调控网络的关键问题。随着高 通量实验技术的发展, 结合 ChIP-chip 实验以及多个基因组的序列信息来预测 TFBS 已成为新的研究热点。本 文简要概述了用于 TFBS 定位的实验技术, TFBS 信息相关的数据库, 重点评述了描述 TFBS 的模型以及预测 TFBS 的多种软件。TFBS 的生物信息学研究的发展, 将与相关领域相互促进, 有助于进一步揭示转录调控 机制。 转录因子结合位点; 生物信息学; ChIP-chip; 位置权重矩阵; 系统发育足迹分析法 Advances on bioinformatic research in transcription factor binding sites 1, 2 1, 3 2 1, 3 HOU Lin , QIAN Min-Ping , ZHU Yun-Ping , DENG Ming-Hua 1. School of Mathematical Sciences, Peking University, Beijing 100871, China; 2. State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 100850, China; 3. Center for Theoretical Biology, Peking University, Beijing 100871, China Abstract: Transcription regulation is carried out by the interactions between transcription factors and their binding sites in DNA. Transcription factor binding sites (TFBS) are short, degenerate nucleotide sequences, and usually are 6-20 bp long. Accurate prediction of TFBSs is a crucial step towards understanding the regulation mechanism of transcription and con- structing transcriptional regulatory networks. Currently, high-throughput technologies, such as Ch