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Bioinformatics Advance Access originally published online on July 14, 2006
Bioinformatics 2006 22(18):2308-2309; doi:10.1093/bioinformatics/btl389
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

SynView: a GBrowse-compatible approach to visualizing comparative genome data

Haiming Wang 1, Yanqi Su 3, Aaron J. Mackey 4, Eileen T. Kraemer 3 and Jessica C. Kissinger 1,2,*

1 Center for Tropical and Emerging Global Diseases, University of Georgia Athens, GA 30602-2606, USA
2 Department of Genetics, University of Georgia Athens, GA 30602-7223, USA
3 Department of Computer Science, University of Georgia Athens, GA 30602-7404, USA
4 Penn Genomics Institute, University of Pennsylvania Philadelphia, PA 19104-6017, USA

*To whom correspondence should be addressed.

Summary: We present SynView, a simple and generic approach to dynamically visualize multi-species comparative genome data. It is a light-weight application based on the popular and configurable web-based GBrowse framework. It can be used with a variety of databases and provides the user with a high degree of interactivity. The tool is written in Perl and runs on top of the GBrowse framework. It is in use in the PlasmoDB (http://www.PlasmoDB.org) and the CryptoDB (http://www.CryptoDB.org) projects and can be easily integrated into other cross-species comparative genome projects.

Availability: The program and instructions are freely available at http://www.ApiDB.org/apps/SynView/

Contact: jkissing{at}uga.edu

Received on March 8, 2006; revised on July 8, 2006; accepted on July 8, 2006

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