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The Gene Resource Locator: gene locus maps for transcriptome analysis.

Toshihiko Honkura¹, Jun Ogasawara, Tomoyuki Yamada

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

Nucleic Acids Research

|December 26, 2001

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The Gene Resource Locator (GRL) database provides comprehensive transcriptome analysis, integrating gene expression, regulatory elements, and alternative splicing information. This genomic resource aids researchers in understanding gene function and regulation.

Area of Science:

Genomics
Bioinformatics
Molecular Biology

Background:

The availability of the human genome sequence has spurred interest in transcriptome analysis.
Understanding gene expression patterns, regulatory regions, and alternative splicing is crucial for biological research.

Purpose of the Study:

To develop and present the Gene Resource Locator (GRL) database.
To provide a comprehensive resource for transcriptome analysis based on genomic data.

Main Methods:

Customized software was used to construct the database.
The database integrates 2.2 million alignments, including exon-intron structures.
Flash technology was employed to create a dynamic web viewer for data exploration.

Main Results:

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The GRL database contains approximately 90,000 EST loci, 8,091 alternatively spliced transcript groups, and 10,801 expression-profile groups.
It also includes 8,066 candidate regulatory regions and 1 million SNP loci.
A dynamic web viewer facilitates efficient browsing of millions of alignments.

Conclusions:

The Gene Resource Locator (GRL) is a valuable, publicly accessible web resource for transcriptome analysis.
It facilitates the study of gene expression, regulation, and splicing variations.
The database supports genomic research by integrating diverse biological information.