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Old 02-21-2014, 08:25 AM   #1
Location: IL

Join Date: May 2011
Posts: 71
Default Can edgeR CPM be used like FPKM to represent a gene expression level in a figure?

Hi, every one,
I'd like drawing a figure like the following one:

Can I draw the figure using CMP instead of FPKM?

Thanks a lot!!!


Last edited by wmseq; 02-21-2014 at 08:27 AM.
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Old 02-21-2014, 11:41 AM   #2
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Location: Norway

Join Date: Aug 2013
Posts: 266

I guess you mean CPM.

CPM does not compensate for gene length (total exon length), which FPKM does.

You can use CPM for the same gene in different conditions, but if you compare different genes, it can be misleading due to different gene lengths (longer genes will look higher expressed).

Correct me if Im wrong.
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