RNAseq analysis: I have read counts for all CDS. Could I use standard methods (limma-voom, edgeR) for DEA??
0
0
Entering edit mode
7 weeks ago
Elena • 0

Hi all,

I have read counts for all the cds in the new version of the human genome. The mapping was done to the genome and then, the counts were calculated using cds. I was wondering if I could use standard methods for doing Differential Expression Analysis. Could you point me to some references?

Thank you in advance!

RNAseq DGE CDS mapping DEA • 128 views
ADD COMMENT
0
Entering edit mode

That's a bit unusual. CDS is not precise as large parts of a given CDS can be shared among transcripts of the same genes. Can you say what precisely the setup is? It would likely be better/more standard/more reliable to simply quantify your data against the entire transcriptome.

ADD REPLY

Login before adding your answer.

Traffic: 1686 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6