tissue: Renal cortex strain: Crl:CD (SD) gender: male group: sham
Extracted molecule
total RNA
Extraction protocol
Total RNA from kidney cortical tissue was isolated using GenElute Mammalian Total RNA Miniprep Kit (RTN70, Sigma-Aldrich). RNA was quantified using a NanoDrop-1000 spectrophotometer and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
0.6 ug of Cy3-labelled cRNA was fragmented at 60°C for 30 minutes in a Agilent fragmentation buffer and was hybridized at 65°C for 17 hr using Gene Expression Hybridization Kit.
Scan protocol
Microarray slides were scanned at 3 μm resolution using an Agilent G4900DA SureScan Microarray Scanner System.
Description
Gene expression of renal cortex in sham group
Data processing
The intensity data of each individual hybridization were extracted and the quality was assessed with the Feature Extraction Software 11.5.1.1(Agilent). Raw data were processed with the R package limma in Bioconductor to perform background correction and data normalization using the quantile normalization method, and batch effects were removed by ComBat (batch 1; SAMPLE 1, 2, 6, 7, 13, 14, batch 2; SAMPLE 3, 4, 8, 9, 15, 16, batch 3; SAMPLE 5, 10, 11, 12, 17, 18, 19).
