Question: Is DAVID an over-representation (ORA) tool for pathway analysis
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gravatar for m93
5 months ago by
m93170
m93170 wrote:

I have been reading the following 2 reviews to get an overview of all pathway analysis tools:

1) https://www.nature.com/articles/nmeth.3963

2) https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002375

Am I right in thinking that DAVID is an ORA method? I was looking at the DAVID website but it is not extremely clear.

Thanks

pathway-analysis david • 255 views
ADD COMMENTlink modified 5 months ago by h.mon27k • written 5 months ago by m93170
1

Yes, I believe DAVID implements an ORA method, as defined by Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges. The best place to check would be the DAVID papers.

I don't think the terminology used by the Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges paper has stuck, for example, it is common to see GSEA being referred to as an over-representation analysis.

ADD REPLYlink written 5 months ago by h.mon27k

Yes, it certainly seems like a lot of the terminology evolving around pathway analysis is loosely used.

ADD REPLYlink written 5 months ago by m93170
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