PiNGO: a Cytoscape plugin to find candidate genes in biological networks |
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Authors: | Smoot Michael Ono Keiichiro Ideker Trey Maere Steven |
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Institution: | Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA. |
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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. |
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