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Bioinformatics Vol. 18 no. 11 2002
Pages 1544-1545
© 2002 Oxford University Press

Applications Note

Poxvirus Orthologous Clusters (POCs)

Angelika Ehlers , John Osborne , Stephanie Slack , Rachel L. Roper and Chris Upton *

Department of Biochemistry and Microbiology, University of Victoria, Victoria, BC~V8W~3P6, Canada

Received on March 11, 2002 ; accepted on May 22, 2002

Summary: Poxvirus Orthologous Clusters (POCs) is a JAVA client–server application which accesses an updated database containing all complete poxvirus genomes; it automatically groups orthologous genes into families based on BLASTP scores for assessment by a human database curator. POCs has a user-friendly interface permitting complex SQL queries to retrieve interesting groups of DNA and protein sequences as well as gene families for subsequent interrogation by a variety of integrated tools: BLASTP, BLASTX, TBLASTN, Jalview (multiple alignment), Dotlet (Dotplot), Laj (local alignment), and NAP (nucleotide to amino acid alignment).

Availability: Direct access to the POCs database via the GENOME ANALYSIS link at the Poxvirus Bioinformatics Resource: http://www.poxvirus.org. The Software is available for download via HTTP at: http://athena.bioc.uvic.ca/pbr/POCs/pocs.html.

Contact: cupton{at}uvic.ca

Supplementary Information: Installation instructions, the User's Manual, screenshots, and examples are available at the POCs home page http://athena.bioc.uvic.ca/pbr/POCs/pocs.html. The software is free for non-commercial applications. For information on poxviruses see http://www.poxvirus.org.

* To whom correspondence should be addressed.


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