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Bioinformatics. 2011 Apr 1;27(7):1030-1. doi: 10.1093/bioinformatics/btr045. Epub 2011 Jan 28.

PiNGO: a Cytoscape plugin to find candidate genes in biological networks.

Author information

1
Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA.

Abstract

PiNGO is a tool to screen biological networks for candidate genes, i.e. genes predicted to be involved in a biological process of interest. The user can narrow the search to genes with particular known functions or exclude genes belonging to particular functional classes. PiNGO provides support for a wide range of organisms and Gene Ontology classification schemes, and it can easily be customized for other organisms and functional classifications. PiNGO is implemented as a plugin for Cytoscape, a popular network visualization platform.

AVAILABILITY:

PiNGO is distributed as an open-source Java package under the GNU General Public License (http://www.gnu.org/), and can be downloaded via the Cytoscape plugin manager. A detailed user guide and tutorial are available on the PiNGO website (http://www.psb.ugent.be/esb/PiNGO.

PMID:
21278188
PMCID:
PMC3065683
DOI:
10.1093/bioinformatics/btr045
[Indexed for MEDLINE]
Free PMC Article

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