Question: How identify all genes whose expression correlated with gene X from rpkm data set?
0
gravatar for peris
16 months ago by
peris110
United States
peris110 wrote:

Hi All,

I have downloaded developing brain RNAseq dataset from allen brain atlas. I have a gene X. I want to know which all genes expression are correlated with gene X expression in the developing brain. I used "rcorr"; but showing nearly all genes expression are correlated with gene X. Any suggestion ho to do it?

ADD COMMENTlink written 16 months ago by peris110
1

I think you can upload your coexpression nnetwork in cytoscape and select the first neighbor of gene x.

good luck

ADD REPLYlink written 16 months ago by Fereshteh2.9k
1

One possibility is findSimilar in cummeRbund

ADD REPLYlink modified 16 months ago • written 16 months ago by Satyajeet Khare1.2k
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