How to make venn diagram for differentially expressed data

Question

[rishav513]

Hello everyone,

I performed differential expression analysis to find the differential expressed genes (comparing different different conditions). Now, I have multiple differentially expressed gene files in CSV format (each file showing that the genes listed in those file are differentially expressed in that particular condition).

Now, I want to draw a Venn diagram or an upset plot to find the genes that are common in all the files (means the genes that are common in all conditions).

Any help would be appreciated.

Answer 1

[Leite]

Dear @rishav513

You can try to put your lists on one of these sites:

http://www.interactivenn.net/

https://bioinfogp.cnb.csic.es/tools/venny/

And construct your diagram!

[rishav513]

Thanks but the image quality are not good, so, I want to do this work in R

Answer 2

[Matthias Zepper]

There are multiple packages on CRAN - just search for Venn Diagrams. For example nVennR oder Vennr.

[rishav513]

Thanks, I know but I need diagrams that also show upregulated and downregulated along with common genes