Skip Navigation



Bioinformatics Advance Access published online on February 3, 2007
Bioinformatics, doi:10.1093/bioinformatics/btm032
This Article
Right arrow Advance Access manuscript (PDF) Freely available
Right arrowOA All Versions of this Article:
23/7/910    most recent
btm032v1
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
Google Scholar
Right arrow Articles by Ferro, A.
Right arrow Articles by Shasha, D.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Ferro, A.
Right arrow Articles by Shasha, D.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

NetMatch: a Cytoscape Plugin for Searching Biological Networks

A. Ferro 1,*, R. Giugno 1, G. Pigola 1, A. Pulvirenti 1, D. Skripin 1, G. D. Bader 2 and D. Shasha 3

1Dipartimento di Matematica e Informatica, Università di Catania, Viale A. Doria 6, 1-95125 Catania, Italy; e-mail: {fferro,giugno,pigola,apulvirenti,skripin}@dmi.unict.it.
2Banting and Best Department of Medical Research and Department of Medical Genetics and Microbiology, University of Toronto, 160 College St, Toronto, Ontario, Canada M5S 3E1; e-mail:gary.bader@utoronto.ca,
3Courant Institute of Mathematical Sciences, New York University, 251 Mercer Street New York, NY 10012, U.S.A; e-mail:shasha@cs.nyu.edu

*To whom correspondence should be addressed. Authors of each department are listed in alphabetical order. Alfredo Ferro, E-mail: ferro{at}dmi.unict.it


  Abstract

Summary: NetMatch is a Cytoscape plugin which allows searching biological networks for subcomponents matching a given query. Queries may be approximate in the sense that certain parts of the subgraph-query may be left unspecified. To make the query creation process easy, a drawing tool is provided. Cytoscape is a bioinformatics software platform for the visualization and analysis of biological networks.

Availability: The full package, a tutorial and associated examples are available at the following web sites: http://alpha.dmi.unict.it/~ctnyu/netmatch.html, http://baderlab.org/Software/NetMatch

Associate Editor: Dr. Chris Stoeckert

Received on October 31, 2006; revised on January 24, 2007; accepted on January 24, 2007

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
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]


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.