I am analysing differentially expressed miRNA in human plasma (4 groups). I have used the miARma-Seq pipeline (http://miarmaseq.idoproteins.com/) and DESEQ2 for the differential expression analysis.
We used a spike in control (c. elegans miR 39).
Can anyone advise the best method for standardising/ normalising the data to the spiked c.elegans miRNA.
Not sure if I should be using a different pipeline or if there was an established/validated means of doing this?