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Bioinformatics Advance Access published online on April 3, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn119
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© The Author (2008). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

GeneTrack – a genomic data processing and visualization framework

Istvan Albert 1,2,*, Shinichiro Wachi 2, Cizhong Jiang 2 and B. Franklin Pugh 2

1Huck Institutes of the Life Sciences, 2Center for Comparative Genomics and Bioinformatics, Center for Gene Regulation, and Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, Pennsylvania, 16802, USA

*To whom correspondence should be addressed. Dr. Istvan Albert, E-mail: iual{at}psu.edu


  Abstract

Motivation: High-throughput ‘ChIP-chip’ and ‘ChIP-seq’ methodologies generate sufficiently large data sets that analysis poses significant informatics challenges, particularly for research groups with modest computational support. To address this challenge, we devised a software platform for storing, analyzing and visualizing high resolution genome-wide binding data. GeneTrack automates several steps of a typical data processing pipeline, including smoothing and peak detection, and facilitates dissemination of the results via the web. Our software is freely available via the Google Project Hosting environment at http://genetrack.googlecode.com

Associate Editor: Prof. Alfonso Valencia

Received on February 13, 2008; revised on March 27, 2008; accepted on March 31, 2008

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