filtering genes before or after the correlation?
I have a gene expression data with 7k genes, and I benchmark this data using gold standards like CORUM (2k genes). It is important because I draw precision-recall curve.
what I do is, I apply correlation to 7k (7k x 7k matrix) then filter genes based on the CORUM (2k x 2k) and then create a network.
I was wondering is this good way to do it, or I just need to filter genes before and continue to analysis.
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