Pathway (gene set) enrichment analyses often produce long lists of overlapping and redundant gene sets, which can make results difficult to interpret and act on. Enrichment Map addresses this by organizing gene sets/pathways into a clustered network: nodes represent gene sets, and edges represent overlap in member genes. This network view groups related pathways into broader biological themes, helping you quickly identify the major signals in your data, as well as shared genes across groups of pathways. Enrichment Map also supports side-by-side comparison of enrichment results from two experimental conditions within the same map.

In this session, attendees will learn how to:

• Format enrichment analysis results for visualization in Enrichment Map

• Use Enrichment Map in Cytoscape to visualize enrichment results as a network

• Cluster the network and identify major themes using AutoAnnotate

• Compare enrichment results from two experimental conditions

• Create publication-ready visualizations

Prerequisites:

• Bring a laptop with Cytoscape installed

• Download and install the latest version of Cytoscape

• No command-line or scripting experience required