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Bioinformatics Advance Access published online on November 15, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti776
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© The Author (2005). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received September 9, 2005
Revised November 8, 2005
Accepted November 10, 2005

Applications note

PATIKAweb: a Web interface for analyzing biological pathways through advanced querying and visualization

U. Dogrusoz 1 *, E. Z. Erson 1, E. Giral 1, E. Demir 1, O. Babur 1, A. Cetintas 1, and R. Colak 1

1 Bilkent Center for Bioinformatics (BCBI), Bilkent University, Ankara 06800, Turkey

* To whom correspondence should be addressed.
U. Dogrusoz, E-mail: patikaweb{at}cs.bilkent.edu.tr


  Abstract

Summary: PATIKAweb provides a Web interface for retrieving and analyzing biological pathways in the PATIKA database, which contains data integrated from various prominent public pathway databases. It features a user-friendly interface, dynamic visualization and automated layout, advanced graph-theoretic queries for extracting biologically important phenomena, local persistence capability, and exporting facilities to various pathway exchange formats.

Availability: The Web site is freely accessible to non-commercial users from http://web.patika.org.

Supplementary information: Detailed information is available on the tool Web site (http://www.cs.bilkent.edu.tr/~patikaweb), including key features, screenshots, and User's Guide.


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