is that statistical correct to use DEseq2 for proteomics data

Question

[QX]

Hi all,

I understand that DEseq2 is computed based on count read from RNAseq sequecing, however, is that is that statistical correct to use DEseq2 for proteomics data for round(proteomics value)?

Answer 1

[ATpoint]

Depends what the values are. Are these counts? Then yes. If intensity values (continuous) then no. limma can be an alternative here.

[QX]

thank you!