Bioinformatics. 2009 Dec 15;25(24):3321-2. Epub 2009 Oct 21.

G-compass: a web-based comparative genome browser between human and other vertebrate genomes.

Kawahara Y, Sakate R, Matsuya A, Murakami K, Sato Y, Zhang H, Gojobori T, Itoh T, Imanishi T.

Source

Japan Biological Information Research Center, Japan Biological Informatics Consortium, Aomi 2-42, Koto-ku, Tokyo 135-0064, Japan.

Abstract

SUMMARY:

G-compass is designed for efficient comparative genome analysis between human and other vertebrate genomes. The current version of G-compass allows us to browse two corresponding genomic regions between human and another species in parallel. One-to-one evolutionarily conserved regions (i.e. orthologous regions) between species are highlighted along the genomes. Information such as locations of duplicated regions, copy number variations and mammalian ultra-conserved elements is also provided. These features of G-compass enable us to easily determine patterns of genomic rearrangements and changes in gene orders through evolutionary time. Since G-compass is a satellite database of H-InvDB, which is a comprehensive annotation resource for human genes and transcripts, users can easily refer to manually curated functional annotations and other abundant biological information for each human transcript. G-compass is expected to be a valuable tool for comparing human and model organisms and promoting the exchange of functional information.

AVAILABILITY:

G-compass is freely available at http://www.h-invitational.jp/g-compass/.

CONTACT:

t.imanishi@aist.go.jp

PMID:: 19846439; [PubMed - indexed for MEDLINE]
PMCID:: PMC2788932

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