Question: RPKM to TPM conversion?
0
gravatar for brieannsobieski
2.6 years ago by
brieannsobieski0 wrote:

Hi all,

I have read past posts about the equations for these conversions and have come across these:

TPM(i) = ( FPKM(i) / sum ( FPKM  all transcripts ) ) * 10^6
TPM = (((mean transcript length in kilobases) x RPKM) / sum(RPKM all genes)) * 10^6

Can someone point me in a direction that validates these equations? Is there any scholarly articles or data sets with both TPM and RPKM where I can check these equations. I've been checking ncbi geo for a data set with both but can't seem to find one.

Thanks!

rna rna-seq conversion tpm rpkm • 5.0k views
ADD COMMENTlink modified 2.6 years ago • written 2.6 years ago by brieannsobieski0

hi! Thank you, I just want to know if there is a way to validate these conversion equations / have other studies used this equation? I have no doubt that its "correct" I just want to ensure its valid before using it in my research

ADD REPLYlink written 2.6 years ago by brieannsobieski0

hey... did you find any articles citing this equation or the validity of the TPM conversion? I am having the same issue

ADD REPLYlink written 23 months ago by david.peeney30
1
gravatar for Antonio R. Franco
2.6 years ago by
Spain. Universidad de Córdoba
Antonio R. Franco4.5k wrote:

Give a look to this vídeo that explain the difference between RPKM, FPKM and TPM

ADD COMMENTlink written 2.6 years ago by Antonio R. Franco4.5k
1
gravatar for Kevin Blighe
2.6 years ago by
Kevin Blighe69k
Republic of Ireland
Kevin Blighe69k wrote:

Also, Harold Pimmental's blog posting:

What the FPKM? A review of RNA-Seq expression units

Screen_Shot_2018_06_21_at_16_27_24

So, looks like you have it correct.

Kevin

ADD COMMENTlink written 2.6 years ago by Kevin Blighe69k
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