I want to find differentially expressed miRNAs between 4 groups

Question

[Nev]

Hi,

I have some miRNA expression data and I want to identify the differentially expressed miRNAs between 4 separate subtypes. Is this possible with DeSeq2 or Limma?

Thanks in advance

Answer 1

[andrew.j.skelton73]

This all depends on your platform, preprocessing steps, normalisation, etc. Once your data is normalised, and QC has been carried out, Limma is a suitable suite for identifying differential expression.

[Nev]

Okay, thank you Andrew. Yes, it is a miRNA expression matrix and quantile normalized.