ConTra: a promoter alignment analysis tool for identification of transcription factor binding sites across species

被引：51

作者：

Hooghe, Bart ^{[1
,2
,3
]}

Hulpiau, Paco ^{[1
,2
,3
]}

van Roy, Frans ^{[2
,3
]}

De Bleser, Pieter ^{[1
,2
,3
]}

机构：

[1] VIB, Bioinformat Core Facil, B-9052 Ghent, Belgium

[2] Univ Ghent, Dept Mol Biol, B-9052 Ghent, Belgium

[3] VIB, Dept Mol Biomed Res, B-9052 Ghent, Belgium

来源：

NUCLEIC ACIDS RESEARCH | 2008年 / 36卷

关键词：

D O I：

10.1093/nar/gkn195

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Transcription factors (TFs) are key components in signaling pathways, and the presence of their binding sites in the promoter regions of DNA is essential for their regulation of the expression of the corresponding genes. Orthologous promoter sequences are commonly used to increase the specificity with which potentially functional transcription factor binding sites (TFBSs) are recognized and to detect possibly important similarities or differences between the different species. The ConTra (conserved TFBSs) web server provides the biologist at the bench with a user-friendly tool to interactively visualize TFBSs predicted using either TransFac (1) or JASPAR (2) position weight matrix libraries, on a promoter alignment of choice. The visualization can be preceded by a simple scoring analysis to explore which TFs are the most likely to bind to the promoter of interest. The ConTra web server is available at http://bioit.dmbr.ugent.be/ConTra/index.php.

引用

页码：W128 / W132

页数：5

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