microRNA microarray

MicroRNA microarray analysis was performed as instructed by the manufacturer. One hundred nanograms of RNA from each sample was labeled with Cy3 using Agilent’s miRNA Complete Labeling and Hyb Kit. The Cy3-labeled RNAs were hybridized to the miRNA microarray (Agilent Human miRNA 8*60 K, Rel 18.0). The miRNA microarray was then scanned using the Agilent G2600D microarray scanner. Raw data for the same gene in primary ovarian cancer cells and SFCs were summarized in the Agilent Feature Extraction software package (v11.0.1.1), which generated the gene view file and provided expression data for each gene probed on the array. Array data were filtered using gIsGeneDetected = 1 for all samples (1: detected). Logarithmically transformed miRNA gtotalGeneSignal values were normalized with the quantile method [9]. R statistical language software package (v. 2.15.0) performed the normalize.quantiles function of the preprocessCore package (https://www.rdocumentation.org/packages/preprocessCore/versions/1.34.0/topics/normalize.quantiles). The comparative analysis of results from primary cancer cells and SFCs was based on fold changes.