I have the miRNA and it's regulatroy target information from TargetScan. all the miRNA IDs (miRBase IDs) from there are belong to mature miRNA form.
For my analysis I need also include the expresion levels of these miRNAs. I]m using TCGA data, but the problem is that, all miRNA IDs in TCGA data samples from RNASeq are for miRNA precursor.
now my questions are :
- Is the expression value of miRNA precursore is equivalent to its corresponding mature miRNA form?
- What should I do with the miRNA which represent the stem loop?
For example in TargetScan I have :
but in TCGA miRNA expression file I have :
hsa-mir-18a : precursore hsa-mir-18a-1 : stem loop hsa-mir-18a-2 : stem loop
basically miRNA IDs without capital R in it represent miRNA precursore.
We can go further - the (lack of) capitalisation of "mir" tells us we're talking about the miRNA precursor (here)