Computational protocol: The putative tumor suppressor microRNA-30a-5p modulates clear cell renal cell carcinoma aggressiveness through repression of ZEB2

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Protocol publication

[…] The expression profile of miR-30a-5p in different tissues was obtained from the miRNAMap database. Putative miR-30a-5p targets were predicted using miRWalk 2.0 and the database., The KIRC patient clinical and RNA-Seq data were from TCGA and downloaded from the Broad GDAC Firehose database (Broad Institute TCGA Genome Data Analysis Center (2016): Analysis-ready standardized TCGA data from Broad GDAC Firehose 2016_01_28 run. Broad Institute of MIT and Harvard. Data set. Interactions between miRNA and lncRNA were assessed using starBASE v2.0 and the lncRNA Kaplan–Meier survival analysis was conducted with the TANRIC database., […]

Pipeline specifications

Software tools Firebrowse, TANRIC
Databases TCGA Data Portal miRWalk starBase miRNAMap
Application RNA-seq analysis
Organisms Homo sapiens
Diseases Carcinoma, Renal Cell, Neoplasms