TPM for miRNAs

Question

[manoharankumar01]

Hi All,

How one can calculate TPM (Transcripts per million) for miRNA tags/reads counts?

eg:

miRNAids S_1.readcou S_2.readcou
mmu-let-7a-1-3p    421    230
mmu-let-7a-5p    68708    26836
mmu-let-7b-3p    26    7

Thanks,

Manoharan

[GenoMax]

In future please search biostars first:
Using transcripts per million (TPM)
Calculating TPM from featureCounts output

[manoharankumar01]

Hi,

Thanks for sharing the link, but that is for mRNA seq. Is it same for miRNAs as well?

Here instead of gene length should I consider miRNAs length?

Thanks,

[Devon Ryan]

It's the same regardless of whether it's miRNA or mRNA or total RNA or rRNA or anything else. For genes the length is that of the gene, for miRNAs that of the miRNA, for rRNAs that of the rRNA, etc.