JEPETTO

Performs human gene set enrichment and topological analysis based on interaction networks.
### JEPETTO Jepetto performs integrated **gene set analysis** using information from interaction, pathways and processes databases. It uses the [TopoGSA](http://www.topogsa.org/) server to identify **topological analogies** between the user selected gene set and the known pathways and processes. TopoGSA finds the most similar biological mechanism using the topological features of the **interaction network** of a user selected gene set. It is also able to suggest genes related to the query gene set using two **pathway analysis** servers [EnrichNet](http://www.enrichnet.org/) and [PathExpand](http://www.pathexpand.org). Both these servers are using a different topological matching algorithms that extends the query gene set with genes from the pathway databases. The plugin integrates information available from three separate servers and makes it easy to analyse a user gene network from multiple angles. **Reference:** - Ch. Winterhalter, P. Widera and N. Krasnogor, **"JEPETTO: a Cytoscape plugin for gene set enrichment and topological analysis based on interaction networks"**, in *Bioinformatics*, 30(7):1029-1030, April 2014, [http://dx.doi.org/10.1093/bioinformatics/btt732 doi:10.1093/bioinformatics/btt732]

1.3.1

Works with Cytoscape 3.0

Release Notes

Main changes: * compatibility fix for Windows users * added tooltip for each result tab with a list of parameters used

1.3.0

Works with Cytoscape 3.0

Release Notes

Main changes: - simpler and more intuitive user interface - better handling of connection errors - improved readability of tables in results tab - help pages

1.2.0

Works with Cytoscape 3.0

Release Notes

Main changes: - user interface improvements (more options, more network colours) - better user feedback (tooltips, hints, warnings) - enhanced task management

1.1.0

Works with Cytoscape 3.0

Release Notes

Main changes: * background processing notification * fixed shuffled pathway indices after sort * small GUI improvements (save buttons relocated, number of tabs reduced) * README file added with installation/build details * source compatibility with Java 6

1.0.0

Works with Cytoscape 3.0

Release Notes

Stable release. Main changes: * stability improvements (handling of connection errors) * usability improvements (parameters validation) * new option to save all intermediate data (gene mapping, pathways ranking, topological properties) * node colours improved (more distinguishable) * small bug fixes (closeable tabs, sortable tables, portability improvements) * more comments in the source code

1.0.0.beta

Works with Cytoscape 3.0

Release Notes

**Jepetto** beta-version is now online in the App Store

CYTOSCAPE 3

Version 1.3.1

License Click here

Released 28 Jan 2014

Works with Cytoscape 3.0

Download Stats Click here