Skip Navigation



Bioinformatics Advance Access published online on November 30, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl604
This Article
Right arrow Advance Access manuscript (PDF) Freely available
Right arrow All Versions of this Article:
23/3/392    most recent
btl604v1
Right arrow Comments: Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when Comments are posted
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Avila-Campillo, I.
Right arrow Articles by Bonneau, R.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Avila-Campillo, I.
Right arrow Articles by Bonneau, R.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received September 28, 2006
Accepted November 21, 2006

Applications note

BioNetBuilder, an automatic network interface

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

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


  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/.

Associate Editor: Trey Ideker

{ddagger}, equal contribution.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
M. Clement-Ziza, C. Malabat, C. Weber, I. Moszer, T. Aittokallio, C. Letondal, and S. Rousseau
Genoscape: a Cytoscape plug-in to automate the retrieval and integration of gene expression data and molecular networks
Bioinformatics, October 1, 2009; 25(19): 2617 - 2618.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
H. Blankenburg, R. D. Finn, A. Prlic, A. M. Jenkinson, F. Ramirez, D. Emig, S.-E. Schelhorn, J. Buch, T. Lengauer, and M. Albrecht
DASMI: exchanging, annotating and assessing molecular interaction data
Bioinformatics, May 15, 2009; 25(10): 1321 - 1328.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
J. Gao, A. S. Ade, V. G. Tarcea, T. E. Weymouth, B. R. Mirel, H.V. Jagadish, and D. J. States
Integrating and annotating the interactome using the MiMI plugin for cytoscape
Bioinformatics, January 1, 2009; 25(1): 137 - 138.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
T. S. Keshava Prasad, R. Goel, K. Kandasamy, S. Keerthikumar, S. Kumar, S. Mathivanan, D. Telikicherla, R. Raju, B. Shafreen, A. Venugopal, et al.
Human Protein Reference Database--2009 update
Nucleic Acids Res., January 1, 2009; 37(suppl_1): D767 - D772.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
K. Sameith, P. Antczak, E. Marston, N. Turan, D. Maier, T. Stankovic, and F. Falciani
Functional modules integrating essential cellular functions are predictive of the response of leukaemia cells to DNA damage
Bioinformatics, November 15, 2008; 24(22): 2602 - 2607.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.