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Bioinformatics Advance Access originally published online on November 30, 2006
Bioinformatics 2007 23(3):392-393; doi:10.1093/bioinformatics/btl604
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

BioNetBuilder: automatic integration of biological networks

Iliana Avila-Campillo 3,{dagger}, Kevin Drew 1,2,{dagger}, John Lin 1, David J. Reiss 3 and Richard Bonneau 1,2,*

1 Department of Biology, New York University New York, NY, USA
2 Courant Institute, Department of Computer Science, New York University New York, NY, USA
3 Institute for Systems Biology, Seattle WA, USA

*To whom correspondence should be addressed.


  Abstract

BioNetBuilder is an open-source client-server Cytoscape plugin that offers a user-friendly interface to create biological networks integrated from several databases. Users can create networks for ~1500 organisms, including common model organisms and human. Currently supported databases include: DIP, BIND, Prolinks, KEGG, HPRD, The BioGrid and GO, among others. The BioNetBuilder plugin client is available as a Java Webstart, providing a platform-independent network interface to these public databases.

Availability: http://err.bio.nyu.edu/cytoscape/bionetbuilder/

Contact: iliana_avila-campillo{at}merck.com

{dagger}The authors wish it to be known that, in their opinion, the first two authors are to be regarded as joint First Authors

Associate Editor: Trey Ideker

Received on September 28, 2006; revised on November 21, 2006; accepted on November 21, 2006

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