I will be very thankful if someone could help me. I want to retrieve miRNA-mRNA data from TCGA, data needs to be available for Cancer patient and normal for comparison. Because i want to identify differential expression of miRNA's and genes in data. So plz could anybody tell me how to get such type of data, and i also dont know nothing about data levels in TCGA.
You can use starBase Pan-Cancer Analysis Platform . starBase Pan-Cancer Analysis Platform is designed for deciphering Pan-Cancer Networks of lncRNAs, miRNAs, ceRNAs and RNA-binding proteins (RBPs) by mining clinical and expression profiles of 14 cancer types (>6000 samples) from The Cancer Genome Atlas (TCGA) Data Portal (all data available without limitations).
Pan-Cancer miRNA-mRNA interactions can be available at http://starbase.sysu.edu.cn/targetSite.php
You'll probably need to read some (or all) of the TCGA Data Primer: