[BioC] positively correlated genes

Gordon K Smyth smyth at wehi.EDU.AU
Wed Sep 10 03:08:28 CEST 2014

If you are using edgeR's glmFit function or limma's voom and lmFit 
functions, you can simply add the log-expression values of the gene of 
interest as a column of the design matrix.  Then a standard DE analysis 
will detect any other genes that are significantly correlated with the 
gene of interest.


> Date: Tue,  9 Sep 2014 01:41:14 -0700 (PDT)
> From: "karthik [guest]" <guest at bioconductor.org>
> To: bioconductor at r-project.org, deepaksrna at gmail.com
> Subject: [BioC] positively correlated genes
> hi
>   I am interested to find out the genes that are positively and 
> negatively correlated genes with my genes of interest. (using rnaseq 
> normalized expression data). Can some one suggest me a better option.
> Thank you
> -- output of sessionInfo():
> sessionInfo()
> R version 3.0.2 (2013-09-25)
> Platform: x86_64-w64-mingw32/x64 (64-bit)

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