small RNA sequencing

Question

[mbansal]

Hello everyone,

I have paired end small RNA seq raw data. I have to differential expression analysis. Can anyone help me how to start it?

Thanks

[Buffo]

A simple search in google would recommend you mirdeep2. So do I. However, my question is, since mature small RNAs have a mean length of 22 nucleotides, how is it possible to get paired-end reads? What insert size did you use? Did you mean small RNA precursors rather than mature RNAs?