JEPETTO

Java Enrichment of Pathways Extended To Topology

JEPETTO is a Cytoscape plugin which uses three external servers: EnrichNet, PathExpand and TopoGSA to analyse a user-submitted gene set. It identifies functional associations between genes and pathways using protein interaction network and topological analysis.

These short help pages describe the basic usage of the plugin:

You can find more details in the tutorial on the plugin website.



Warning

Some features of JEPETTO were designed to work only with human data, and experiments on non-human data should be interpreted with care. In example, path expansion is derived from human PPI network. Other optional "human only" features are tissue specific XD-scores (enrichment analysis) and genome-scale interaction network (topology analysis).