I was trying to find target genes based on TCGA level 3 miRNA gene expression. However, TCGA does not provide 3p/5p information. If I do not know, how am I be able to predict target genes? I also have been looking into isoform expression of miRNA if I could figure that out 3p/5p information. I just want to know expression of 3p or 5p . However, there were so many. For example there are so many location information.
miRNA_ID isoform_coords read_count reads_per_million_miRNA_mapped cross-mapped miRNA_region
hsa-let-7a-1 hg19:9:96938224-96938244:+ 2 0.450031 N precursor
hsa-let-7a-1 hg19:9:96938243-96938265:+ 2 0.450031 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938243-96938266:+ 23 5.175355 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938244-96938263:+ 75 16.876156 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938244-96938264:+ 2037 458.356397 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938244-96938265:+ 4664 1049.471889 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938244-96938266:+ 28056 6313.032443 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938244-96938267:+ 249 56.028838 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938244-96938268:+ 6 1.350092 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938244-96938269:+ 10.225015 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938245-96938266:+ 20 4.500308 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938247-96938266:+ 51.125077 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938248-96938265:+ 1 0.225015 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938248-96938266:+ 20.450031 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938248-96938267:+ 1 0.225015 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938249-96938270:+ 1 0.225015 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938249-96938271:+ 1 0.225015 N mature,MIMAT0000062
hsa-let-7a-1 hg19:9:96938295-96938315:+ 51.125077 N mature,MIMAT0004481
hsa-let-7a-1 hg19:9:96938295-96938316:+ 11 2.475170 N mature,MIMAT0004481
hsa-let-7a-1 hg19:9:96938295-96938317:+ 71.575108 N mature,MIMAT0004481
hsa-let-7a-1 hg19:9:96938296-96938316:+ 1 0.225015 N mature,MIMAT0004481
hsa-let-7a-1 hg19:9:96938296-96938317:+ 10.225015 N mature,MIMAT0004481
hsa-let-7a-1 hg19:9:96938296-96938318:+ 1 0.225015 N mature,MIMAT0004481
I wonder I can combine all the mature,MIMAT0004481 and mature,MIMAT0000062 expression (read per million mina) and divide by read_count so I can have just one hsa-let-7a-1-5p and hsa-let-7a-3p.
Thanks