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Nucleic Acids Research 2005 33(Web Server Issue):W633-W637; doi:10.1093/nar/gki391
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© The Author 2005. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oupjournals.org

Article

PathwayExplorer: web service for visualizing high-throughput expression data on biological pathways

Bernhard Mlecnik, Marcel Scheideler, Hubert Hackl, Jürgen Hartler, Fatima Sanchez-Cabo and Zlatko Trajanoski*

Institute for Genomics and Bioinformatics and Christian-Doppler Laboratory for Genomics and Bioinformatics, Graz University of Technology Petersgasse 14, Graz 8010, Austria

*To whom correspondence should be addressed. Tel: +43 316 873 5332; Fax: +43 316 873 5340; Email: zlatko.trajanoski{at}tugraz.at

Received February 14, 2005. Revised March 11, 2005. Accepted March 11, 2005.

While generation of high-throughput expression data is becoming routine, the fast, easy, and systematic presentation and analysis of these data in a biological context is still an obstacle. To address this need, we have developed PathwayExplorer, which maps expression profiles of genes or proteins simultaneously onto major, currently available regulatory, metabolic and cellular pathways from KEGG, BioCarta and GenMAPP. PathwayExplorer is a platform-independent web server application with an optional standalone Java application using a SOAP (simple object access protocol) interface. Mapped pathways are ranked for the easy selection of the pathway of interest, displaying all available genes of this pathway with their expression profiles in a selectable and intuitive color code. Pathway maps produced can be downloaded as PNG, JPG or as high-resolution vector graphics SVG. The web service is freely available at https://pathwayexplorer.genome.tugraz.at; the standalone client can be downloaded at http://genome.tugraz.at.


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