Question: David Pathway Analysis
1
gravatar for dingying85
6.8 years ago by
dingying8510
United States
dingying8510 wrote:

I am stuck in the output of DAVID pathway analysis. It seems it only gives the overlap between DE genes and the pathway, but gives no information about each pathway's size and the overlap between background and the pathway. Is there a way to get those informations? Thanks.

• 8.0k views
ADD COMMENTlink modified 9 months ago by kmherb10 • written 6.8 years ago by dingying8510
3
gravatar for Charles Warden
6.8 years ago by
Charles Warden7.8k
Duarte, CA
Charles Warden7.8k wrote:

I'm not a huge fan of David. Here are a couple other functional enrichment tools that I find easier to use and interpret:

http://gather.genome.duke.edu/

http://llama.mshri.on.ca/funcassociate/

ADD COMMENTlink written 6.8 years ago by Charles Warden7.8k
2
gravatar for Free Man
6.8 years ago by
Free Man170
Earth - China
Free Man170 wrote:

Are you using DAVID: Functional Annotation Tool?
DAVID does provided the information about the pathway size and the overlap between background.
Please use "Functional Annotation Chart" to view the results.
And use "Options" to customize the results which do not show the pathway size and the overlap between background by default.
Or use "Download file" to download full dataset.

ADD COMMENTlink written 6.8 years ago by Free Man170
0
gravatar for kmherb
9 months ago by
kmherb10
United States
kmherb10 wrote:

Have you tried metascape? Super user friendly! metascape.org

ADD COMMENTlink written 9 months ago by kmherb10
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