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An online conserved SSR discovery through cross-species comparison.

ABSTRACT: Simple sequence repeats (SSRs) play important roles in gene regulation and genome evolution. Although there exist several online resources for SSR mining, most of them only extract general SSR patterns without providing functional information. Here, an online search tool, CG-SSR (Comparative Genomics SSR discovery), has been developed for discovering potential functional SSRs from vertebrate genomes through cross-species comparison. In addition to revealing SSR candidates in conserved regions among various species, it also combines accurate coordinate and functional genomics information. CG-SSR is the first comprehensive and efficient online tool for conserved SSR discovery.

SUBMITTER: Pai TW

PROVIDER: S-EPMC3169944 | biostudies-literature | 2009

REPOSITORIES: biostudies-literature

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An online conserved SSR discovery through cross-species comparison.

Pai Tun-Wen TW Chen Chien-Ming CM Hsiao Meng-Chang MC Cheng Ronshan R Tzou Wen-Shyong WS Hu Chin-Hua CH

Advances and applications in bioinformatics and chemistry : AABC 20090208

Simple sequence repeats (SSRs) play important roles in gene regulation and genome evolution. Although there exist several online resources for SSR mining, most of them only extract general SSR patterns without providing functional information. Here, an online search tool, CG-SSR (Comparative Genomics SSR discovery), has been developed for discovering potential functional SSRs from vertebrate genomes through cross-species comparison. In addition to revealing SSR candidates in conserved regions am ...[more]

PMID: 21918613

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