Question: Can we directly correlate FPKM/TPM to expression?
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gravatar for Arindam Ghosh
13 months ago by
Arindam Ghosh160
India
Arindam Ghosh160 wrote:

Can we directly correlate FPKM/TPM to expression? In other words, does high FPKM/TPM values mean high expression for a gene?

Or how do I find the highly expressed genes within a RNAseq sample?

sequencing rna-seq expession • 747 views
ADD COMMENTlink modified 13 months ago by noorpratap.singh260 • written 13 months ago by Arindam Ghosh160
3
gravatar for noorpratap.singh
13 months ago by
India
noorpratap.singh260 wrote:

FPKM/TPM are way of normalising the read counts. Link below explaining these: http://www.rna-seqblog.com/rpkm-fpkm-and-tpm-clearly-explained/

Now coming to other part, high FPKM/TPM values means high expression of a gene. But again this is relative to phenotype of interest and samples. If you have tumor and normal samples, an average FPKM higher value in tumors for certain genes means higher in tumors compared to normal would imply highly expressed genes in tumor.

ADD COMMENTlink modified 13 months ago • written 13 months ago by noorpratap.singh260
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