Question: How identify all genes whose expression correlated with gene X from rpkm data set?
0
gravatar for peris
2.2 years 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 2.2 years 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 2.2 years ago by F3.1k
1

One possibility is findSimilar in cummeRbund

ADD REPLYlink modified 2.2 years ago • written 2.2 years ago by Satyajeet Khare1.3k
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