ECRbase: database of evolutionary conserved regions, promoters, and transcription factor binding sites in vertebrate genomes

被引：73

作者：

Loots, Gabriela

Ovcharenko, Ivan

机构：

[1] CMLS, Livermore, CA 94550 USA

[2] Lawrence Livermore Natl Lab, Livermore, CA 94550 USA

来源：

BIOINFORMATICS | 2007年 / 23卷 / 01期

关键词：

SEQUENCE; IDENTIFICATION;

D O I：

10.1093/bioinformatics/btl546

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Motivation: Evolutionary conservation of DNA sequences provides a tool for the identification of functional elements in genomes. We have created a database of evolutionary conserved regions (ECRs) in vertebrate genomes, entitled ECRbase, which is constructed from a collection of whole-genome alignments produced by the ECR Browser. ECRbase features a database of syntenic blocks that recapitulate the evolution of rearrangements in vertebrates and a comprehensive collection of promoters in all vertebrate genomes generated using multiple sources of gene annotation. The database also contains a collection of annotated transcription factor binding sites (TFBSs) in evolutionary conserved and promoter elements. ECRbase currently includes human, rhesus macaque, dog, opossum, rat, mouse, chicken, frog, zebrafish and fugu genomes. It is freely accessible at http://ecrbase.dcode.org.

引用

页码：122 / 124

页数：3

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