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Nucleic Acids Research, 2002, Vol. 30, No. 1 221-225
© 2002 Oxford University Press

The Gene Resource Locator: gene locus maps for transcriptome analysis

Toshihiko Honkura1, Jun Ogasawara2, Tomoyuki Yamada1 and Shinichi Morishita1,2,*

1Department of Complexity Science and Engineering, Faculty of Frontier Science and 2Department of Computer Science, Faculty of Information Science and Technology, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan

Since the advent of the draft human genome sequence there has been growing interest in transcriptome analysis based on genomic data. The Gene Resource Locator (GRL) assembles gene maps that include information on gene-expression patterns, cis-elements in regulatory regions and alternatively spliced transcripts. The database was constructed using customized software, and currently contains 2.2 million alignments (exon–intron structures). The alignments have been annotated and integrated into a system that encompasses approximately 90 000 EST loci sharing common exons, 8091 alternatively spliced transcript groups, 10 801 expression-profile groups, 8066 candidate regulatory regions in full-length cDNAs, and 1 million SNP loci. We have used Flash technology to build a dynamic web viewer that facilitates browsing through the millions of alignments. All of the information is available through the World Wide Web at the Gene Resource Locator web site (http://grl.gi.k.u-tokyo.ac.jp).

* To whom correspondence should be addressed. Tel: +81 3 5841 4116; Fax: +81 3 5841 4116; Email: moris{at}gi.k.u-tokyo.ac.jp


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