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 microRNA.org 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. http://doi.org/10.7908/C11G0KM9). 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 microRNA.org TCGA Data Portal miRWalk starBase miRNAMap
Application RNA-seq analysis
Organisms Homo sapiens
Diseases Carcinoma, Renal Cell, Neoplasms