Journal Article

Affy exon tissues: exon levels in normal tissues in human, mouse and rat

Andrew A. Pohl, Charles W. Sugnet, Tyson A. Clark, Kayla Smith, Pauline A. Fujita and Melissa S. Cline

in Bioinformatics

Volume 25, issue 18, pages 2442-2443
Published in print September 2009 | ISSN: 1367-4803
Published online July 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp414

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Summary: Most genes in human, mouse and rat produce more than one transcript isoform. The Affymetrix Exon Array is a tool for studying the many processes that regulate RNA production, with separate probesets measuring RNA levels at known and putative exons. For insights on how exons levels vary between normal tissues, we constructed the Affy Exon Tissues track from tissue data published by Affymetrix. This track reports exon probeset intensities as log ratios relative to median values across the dataset and renders them as colored heat maps, to yield quick visual identification of exons with intensities that vary between normal tissues.

Availability: Affy Exon Tissues track is freely available under the UCSC Genome Browser (http://genome.ucsc.edu/) for human (hg18), mouse (mm8 and mm9), and rat (rn4).

Contact: cline@soe.ucsc.edu

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  1110 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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