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 (David enrichment analysis inconsistency). What could be the best update tool to perform and enrichment analysis?
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ncl.lazzarini
Also try:
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avi.maayan •
Yes, David is not updated. I would suggest Gorilla for enrichment analysis and Panther for functionally annotating gene lists
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Manvendra Singh
Hi folks - Shameless plug but we at Pathway Commons have a new search engine:
e.g. https://apps.pathwaycommons.org/search?gt=0<=250&q=pcna%20xrcc2%20xrcc3%20rad50%20rad51&type=Pathway
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!
Another shameless plug: https://whatismygene.com . Massive underlying database, unique tools, simple interface. Insights are likely. ☺
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