Nucleic Acids Research, Vol 27, Issue 1 204-208, Copyright © 1999 by Oxford University Press
V Hawkins, D Doll, R Bumgarner, T Smith, C Abajian, L Hood and PS Nelson
The Prostate Expression Database (PEDB) is a curated relational database
and suite of analysis tools designed for the study of prostate gene
expression in normal and disease states. Expressed Sequence Tags (ESTs) and
full-length cDNA sequences derived from more than 40 human prostate cDNA
libraries are maintained and represent a wide spectrum of normal and
pathological conditions. Detailed library information including tissue
source, library construction methods, sequence diversity and abundance are
available in a library archive. Prostate ESTs are assembled into distinct
species groups using the multiple alignment program CAP2 and are annotated
with information from the GenBank, dbEST and Unigene public sequence
databases. Annotated sequences in PEDB are searched using the BLAST
algorithm. 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. PEDB may be accessed via the World Wide Web at
http://www.mbt.washington.edu/PEDB/
ARTICLES
PEDB: the Prostate Expression Database
Department of Molecular Biotechnology and Department of Medicine, University of Washington, Seattle, WA 98195, USA.
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