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Nucleic Acids Research, 2000, Vol. 28, No. 1 212-213
© 2000 Oxford University Press

The Prostate Expression Database (PEDB): status and enhancements in 2000

Peter S. Nelson1,2,*, Nigel Clegg3, Burak Eroglu3, Victoria Hawkins3, Roger Bumgarner4, Todd Smith and Leroy Hood3

1Division of Human Biology, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA and 2Department of Medicine, 3Department of Molecular Biotechnology and 4Department of Microbiology, University of Washington, Seattle, WA 98195, USA

The Prostate Expression Database (PEDB) is an online resource designed to access and analyze gene expression information derived from the human prostate. PEDB archives >55 000 expressed sequence tags (ESTs) from 43 cDNA libraries in a curated relational database that provides detailed library information including tissue source, library construction methods, sequence diversity and sequence abundance. The differential expression of each EST species can be viewed across all libraries using a Virtual Expression Analysis Tool (VEAT), a graphical user interface written in Java for intra- and inter-library species comparisons. Recent enhancements to PEDB include: (i) the functional categorization of annotated EST assemblies using a classification scheme developed at The Institute for Genome Research; (ii) catalogs of expressed genes in specific prostate tissue sources designated as transcriptomes; and (iii) the addition of prostate proteome information derived from two-dimensional electrophoreses and mass spectrometry of prostate cancer cell lines. PEDB may be accessed via the WWW at http://www.mbt.washington.edu/PEDB/

* To whom correspondence should be addressed at: Division of Human Biology, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue North, PO Box 19024, Seattle, WA 98109-1024, USA. Tel: +1 206 667 3377; Fax: +1 206 667 2917; Email: pnelson@fhcrc.org Present address: Peter S. Nelson and Todd Smith, Geospiza Inc., Seattle, WA 98107, USA


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