Thankyou for the suggestion Sir
Hello everyone,
I have a list of 245 DEGs . I separated it into unregulated and down-regulated based on Fc value
I want to know whether I need to separately analyze DEGs as (up-regulated or down-regulated) for identifying TFs
TFs for unregulated genes
TFs for downregulated genes
Or can I use the whole DEGs as together to identify TFs?
Which one is correct ?
Please help me ..
2 answers
You could also try the method Lisa2 to infer transcription factors (TFs) underlying DEG results (http://lisa.cistrome.org/ ). One advantage of Lisa2 is that it will have a broad range of TFs it can infer, as it uses 1,000's of ChIP-seq profiles from the cistrome database. You can also input the up-regulated and down-regulated genes into two separate lists (recommended approach) and then compare the results.
Thankyou for the suggestion Sir. I will check it out .
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Which tool are you using ?
I'm using Enrichr . My doubt is, should I analyze the upregulated and downregulated genes separately for identifying TFs ?
Yes, You should separate the list in that case.
Thankyou so much Sir