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.
- 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]