For GSEA analysis, we are familar with the above figure which shows the running enrichment score. But for most of the software, it lack of visualization method to summarize the whole enrichment result.
In DOSE (and related tools including clusterProfiler, ReactomePA and meshes), we provide enrichMap and cnetplot to summarize GSEA result.
MeSH (Medical Subject Headings) is the NLM (U.S. National Library of
Medicine) controlled vocabulary used to manually index articles for
MEDLINE/PubMed. MeSH is comprehensive life science vocabulary. MeSH has
19 categories and MeSH.db contains 16 of them. That is:
Leading edge analysis reports Tags to indicate the percentage of genes contributing to the enrichment score, List to indicate where in the list the enrichment score is attained and Signal for enrichment signal strength.
It would also be very interesting to get the core enriched genes that contribute to the enrichment.
Now DOSE, clusterProfiler and ReactomePA all support leading edge analysis and report core enriched genes.
