Gene Set Enrichment Analysis (GSEA) plugin#
The plugin calculates enrichment for uploaded data overlays. Public overlays are available for GSEA to all the users. User-provided (private) overlays can be analyzed only when a given user is logged in.
Enter the below address in the plugin URL box to start:
https://minerva-service.lcsb.uni.lu/plugins/gsea/plugin.js
Plugin functionality#
To use the plugin, select from the left panel the overlay for which you would like to calculate the enrichment. Then, press the Show enriched pathways button.
| GSEA plugin: enrichment results |
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The figure above shows the results of the plugin:
- The overlay, for which GSEA is calculated is “PD substantia nigra”.
- The results of the enrichment: the p-value is Bonferroni adjusted. The Enriched area column contains the names of pathways and submaps, for which are enriched in the considered overlay. Enriched areas are highlighted in the map.
Note Anonymous users (not logged in) can use only publicly available overlays. Users that are logged in can work with their own overlays.
Remarks#
- The names of the pathways are not visible for the highlighted areas. Switch back to Pathways and compartments view to see the names.
- If multiple overlays are selected, the enrichment will be calculated for the union of the corresponding gene sets.
- The single elements behind the highlighted area are not clickable. Press Reset button to remove the highlighting.