Cluster Analyzer for Transcription Sites (CATS): a C++-based program for identifying clustered transcription factor binding sites

被引：6

作者：

Yu, H

Yoo, AS

Greenwald, I

机构：

[1] Columbia Univ, Integrated Program Cellular Mol & Biophys Studies, New York, NY 10032 USA

[2] Wave Syst Corp, Cupertino, CA 95014 USA

[3] Columbia Univ, Dept Biochem & Mol Biophys, New York, NY 10032 USA

[4] Columbia Univ, Howard Hughes Med Inst, New York, NY 10032 USA

来源：

BIOINFORMATICS | 2004年 / 20卷 / 07期

关键词：

D O I：

10.1093/bioinformatics/bth057

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

We have developed a program, Cluster Analyzer for Transcription Sites (CATS), which identifies clusters of transcription factor binding sites in any genome sequence. The program searches for clusters of the consensus sequence for DNA binding within a window (length of DNA). The window size and the cluster size (number of consensus sequences within a given window) can be varied. CATS can be used for single or multiple transcription factors for which consensus sequences have been deduced based on biochemical and mutational analysis, or by comparative genomics. The use of CATS for clusters of different transcription factor binding sites may facilitate the identification of genes that are co-regulated in a cell type-specific or developmental stage-specific manner. CATS is simple to install and use on computers running any Windows NT-platforms.

引用

页码：1198 / 1200

页数：3

共 7 条

[1] Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome [J].