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Nucleic Acids Research 2005 33(Web Server Issue):W352-W357; doi:10.1093/nar/gki431
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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

VisANT: data-integrating visual framework for biological networks and modules

Zhenjun Hu1, Joe Mellor1, Jie Wu2, Takuji Yamada3, Dustin Holloway4 and Charles DeLisi1,2,*

1Program in Bioinformatics and Systems Biology, Boston University 44 Cummington Street, Boston, MA 02215, USA 2Department of Biomedical Engineering, Boston University 44 Cummington Street, Boston, MA 02215, USA 3Bioinformatics Center, Institute for Chemical Research, Kyoto University Gokasho, Uji, Kyoto 611-0011, Japan 4Molecular Biology, Cell, Biology and Biochemistry, Boston University 5 Cummington Street, Boston, MA 02215, USA

*To whom correspondence should be addressed. Tel: +1 617 353 1122; Fax: +1 617 353 4814; Email: delisi{at}bu.edu

Received February 14, 2005. Revised March 24, 2005. Accepted March 24, 2005.

VisANT is a web-based software framework for visualizing and analyzing many types of networks of biological interactions and associations. Networks are a useful computational tool for representing many types of biological data, such as biomolecular interactions, cellular pathways and functional modules. Given user-defined sets of interactions or groupings between genes or proteins, VisANT provides: (i) a visual interface for combining and annotating network data, (ii) supporting function and annotation data for different genomes from the Gene Ontology and KEGG databases and (iii) the statistical and analytical tools needed for extracting topological properties of the user-defined networks. Users can customize, modify, save and share network views with other users, and import basic network data representations from their own data sources, and from standard exchange formats such as PSI-MI and BioPAX. The software framework we employ also supports the development of more sophisticated visualization and analysis functions through its open API for Java-based plug-ins. VisANT is distributed freely via the web at http://visant.bu.edu and can also be downloaded for individual use.


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