[BioC] Up & Downregulated genes using DESeq

Bruce Moran(External) Bruce.Moran at teagasc.ie
Tue Mar 27 11:36:52 CEST 2012

Would be very interested to know how to define a fold change cutoff for
RNAseq data. Doesn't seem to be any power analysis that might be of use.

I use 2 (arbitrarily) also.


-----Original Message-----
From: bioconductor-bounces at r-project.org
[mailto:bioconductor-bounces at r-project.org] On Behalf Of Simon Anders
Sent: 27 March 2012 10:15
To: bioconductor at r-project.org
Subject: Re: [BioC] Up & Downregulated genes using DESeq

On 03/27/2012 06:34 AM, Ekta Jain wrote:
> As far as i gather, the threshold for upregulated or downregulated
genes should be>2FoldChange and>-2 FoldChange respectively. Not>0 or<0.

Why 2?


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