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is that statistical correct to use DEseq2 for proteomics data

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)?

proteomics deseq2

1 answer

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

thank you!

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