Genome-wide prediction of transcription factor binding sites using an integrated model

被引：88

作者：

Won, Kyoung-Jae ^{[1
]}

Ren, Bing ^{[2
,3
]}

Wang, Wei ^{[1
]}

机构：

[1] Univ Calif San Diego, Dept Chem & Biochem, La Jolla, CA 92093 USA

[2] UCSD, Ludwig Inst Canc Res, Sch Med, La Jolla, CA 92093 USA

[3] UCSD, Dept Cellular & Mol Med, La Jolla, CA 92093 USA

来源：

GENOME BIOLOGY | 2010年 / 11卷 / 01期

关键词：

CIS-REGULATORY MODULES; GENE-REGULATION; ELEMENTS; MOTIFS; IDENTIFICATION; DISCOVERY; PLURIPOTENT; VERTEBRATE; PROMOTERS; ENHANCERS;

D O I：

10.1186/gb-2010-11-1-r7

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

We present an integrated method called Chromia for the genome-wide identification of functional target loci of transcription factors. Designed to capture the characteristic patterns of transcription factor binding motif occurrences and the histone profiles associated with regulatory elements such as promoters and enhancers, Chromia significantly outperforms other methods in the identification of 13 transcription factor binding sites in mouse embryonic stem cells, evaluated by both binding (ChIP-seq) and functional (RNA interference knockdown) experiments.

引用

页数：17

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