Question: What is my total number of genes in a hypergeometic distribution test?
0
gravatar for connor.j.rogerson
3 months ago by
connor.j.rogerson10 wrote:

I'm working out the significance of an overlap of two RNAseqs experiments upon knockdown of two different transcription factors. I have read previous posts on phyper in R etc and they suggest total number of genes (I assume this is all genes). I have ChIP-seq data so I know what genes are bound by my transcription factors so is my total population ALL genes or just genes bound by either transcription factor?

Thanks in advance!

C

statistics rna-seq chip-seq R • 236 views
ADD COMMENTlink modified 3 months ago by prakash100 • written 3 months ago by connor.j.rogerson10
0
gravatar for Hussain Ather
3 months ago by
Hussain Ather820
National Institutes of Health, Bethesda, MD
Hussain Ather820 wrote:

To find the significance of the overlap, you should use the total population of all genes.

ADD COMMENTlink written 3 months ago by Hussain Ather820
0
gravatar for prakash
3 months ago by
prakash100
prakash100 wrote:

Have you tried BETA cistrome

ADD COMMENTlink written 3 months ago by prakash100
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1935 users visited in the last hour