How identify all genes whose expression correlated with gene X from rpkm data set?

Question

[peris]

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?

[zizigolu]

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

good luck

[Satyajeet Khare]

One possibility is findSimilar in cummeRbund