Question: Is it possible to use DAVID enrichment with single ranked list of genes?
0
gravatar for tgutman100
8 months ago by
tgutman1000
tgutman1000 wrote:

Hey, I know that it is possible to use DAVID enrichment with a background and target lists. Is it possible to use it on a single ranked list, and see which functions are enriched at top of the list? thank you!

david enrichment • 225 views
ADD COMMENTlink modified 8 months ago by EagleEye6.8k • written 8 months ago by tgutman1000

I didn't see it either, but I wasn't sure if it doesn't have that function or if I was missing it. Thank you!

ADD REPLYlink written 8 months ago by tgutman1000
0
gravatar for Kevin Blighe
8 months ago by
Kevin Blighe70k
Republic of Ireland
Kevin Blighe70k wrote:

Did you check the DAVID documentation and FAQ? - I do not recall seeing anywhere that it supports a ranked list of genes.

For a ranked list of genes, I would instead use topGO, clusterProfiler, KEGGprofile, and / or fGSEA. Note that clusterProfiler actually has a DAVID function.

Kevin

ADD COMMENTlink written 8 months ago by Kevin Blighe70k
0
gravatar for EagleEye
8 months ago by
EagleEye6.8k
Sweden
EagleEye6.8k wrote:

Try GeneSCF, Gene Set Clustering based on Functional annotation (GeneSCF)

ADD COMMENTlink written 8 months ago by EagleEye6.8k
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