How identify all genes whose expression correlated with gene X from rpkm data set?
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5.2 years ago
peris ▴ 120

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?

RNA-Seq correlation coexpression • 1.4k views
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I think you can upload your coexpression nnetwork in cytoscape and select the first neighbor of gene x.

good luck

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One possibility is findSimilar in cummeRbund

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