I have several gene sets and I'd like to perform an enrichment analysis in order to get GO terms, KEGG pathways and, possibly, PubMed IDs statistically overrepresented. I performed some analysis using DAVID. Unfortunately I noticed that DAVID is not up to date, in fact the last update of its knowledge base was in 2009. As results some GO terms are associated with some genes even if the latest GO database version doesn't include this association (C: David enrichment analysis inconsistency). What could be the best update tool to perform and enrichment analysis?
Try real-time enrichment tool, Gene Set Clustering based on Functional annotation (GeneSCF)
Hi folks - Shameless plug but we at Pathway Commons have a new search engine:
It will recognize genes you type in (HGNC, UniProt Accession) and allow you to launch an enrichment analysis for GO and Reactome pathways. The results are displayed as an Enrichment Map where nodes are pathway and edges show similarity. Give it go!