Question: Can we directly correlate FPKM/TPM to expression?
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gravatar for Arindam Ghosh
3.1 years ago by
Arindam Ghosh350
Finland
Arindam Ghosh350 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 • 1.7k views
ADD COMMENTlink modified 3.1 years ago by noorpratap.singh310 • written 3.1 years ago by Arindam Ghosh350
3
gravatar for noorpratap.singh
3.1 years ago by
University of Maryland
noorpratap.singh310 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 3.1 years ago • written 3.1 years ago by noorpratap.singh310
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