Dataset features

Specifications


Application: Gene expression microarray analysis, miRNA array analysis
Number of samples: 50
Release date: Jun 18 2013
Last update date: Dec 28 2017
Access: Public
Diseases: Carcinoma, Carcinoma, Renal Cell, Neoplasms, Tumor Lysis Syndrome
Dataset link Novel miRNA profiles as biomarkers for renal cell carcinoma and upper tract urothelial carcinoma

Experimental Protocol


We used 18 ccRCC, 3 chRCC, 5 papRCC, 4 UT-UC, 1 undifferentiated carcinoma and 19 normal tissue samples for miRNA profiling. Total RNA (0.5 µg) from each sample and reference was labeled with Hy3™ fluorescent label, using the miRCURY LNA™ microRNA Hi-Power Labeling Kit (Exiqon, Woburn MA). The Hy3™-labeled samples were hybridized to the miRCURY LNA™ microRNA Array, 6th gen (Exiqon, Woburn MA), using an Agilent hybridization SureHyb chamber and gasket slide kits. After hybridization, the microarray slides were scanned at 10 μm using the High-Resolution Microarray Scanner (Agilent Technologies) and stored in an ozone free environment. The image analysis was carried out using the ImaGene 8.0 software (BioDiscovery, Inc., USA). Raw microarray data were filtered, background corrected and quantile normalizated. Normalized data were further extracted, pre-processed and sorted with Microsoft Excel®. MicroRNAs were considered to be significantly differentially expressed if they obtained a p-value<0.05 and a FDR<0.05

Repositories


GEO

GSE48008

ArrayExpress

E-GEOD-48008

BioProject

PRJNA208630

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Contact


George Lambrou
George I Lambrou