Question: Differential gene expression analysis
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gravatar for  DataFanatic
5 weeks ago by
DataFanatic230
DataFanatic230 wrote:

I am performing differential gene expression using DESeq2 but will be subsetting transcripts based on a pre-determined criterion. Does this sub-setting violate any assumptions make by the statistical package?

rna-seq deseq2 • 162 views
ADD COMMENTlink modified 5 weeks ago by swbarnes27.9k • written 5 weeks ago by DataFanatic230

Answered by the DESeq2 author: https://support.bioconductor.org/p/131401/

ADD REPLYlink written 5 weeks ago by ATpoint36k
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gravatar for swbarnes2
5 weeks ago by
swbarnes27.9k
United States
swbarnes27.9k wrote:

If you use too small a subset, the assumptions underlying the normalization procedure may be violated.

ADD COMMENTlink written 5 weeks ago by swbarnes27.9k

One assumption is, that the majority of genes are not differentially expressed.

ADD REPLYlink written 5 weeks ago by caggtaagtat1.0k
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