pre-miRNA annotation and quantification
Hi all, I have a question about pre-miRNA, because I need to quantify pre-miRNA expression level.
I think the first thing I need to do is to make clear of the pre-miRNA annotation and their coordinates, but I really don't know how to get these information. Is there any GTF files on pre-miRNA, or any program can extract them?
The other question of mine is that. From the miRNA-seq data, we can quantify the RPKM of miRNA, but is it really the mature miRNA level? Don't the read counts come from both mature miRNA and pre-miRNA? So, is it need to distinguish them and is there any method to do so?
Any suggestions will be appreciated. Thank you so much.
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