microRNAs that can be downloaded from the TCGA are mature or precursor or unknown ?
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20 months ago
Zahra ▴ 110

I have downloaded the miRNA-Seq data from TCGA by filter below:

query <- GDCquery(project = "TCGA-ESCA" ,
                             data.category = "Transcriptome Profiling" ,
                             data.type = "miRNA Expression Quantification",
                             workflow.type = "BCGSC miRNA Profiling", 
                             experimental.strategy = "miRNA-Seq")

And here is a part of my data:

hsa-mir-155 1137    719 1011    1212    3369    1043
hsa-mir-1587    0   0   0   0   0   0
hsa-mir-15a 1046    1157    668 421 1033    868
hsa-mir-15b 2117    1820    1118    523 1302    3217
hsa-mir-16-1    967 1088    766 403 1645    1423
hsa-mir-16-2    938 1080    821 408 1686    1445
hsa-mir-17  6790    6343    6359    2360    7260    5731
hsa-mir-181a-1  2357    12430   4323    1142    3991    2892
hsa-mir-181a-2  2703    11793   10507   1599    5680    7678
hsa-mir-181b-1  658 3857    855 208 883 658

Now I don't know which type of miRNA are they. mature miR or pre-miR or both or unknown.

Thanks for any help.

DEA TCGA microRNA miRNA-Seq • 451 views
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