Total RNA, including small non-coding RNAs, was extracted using the mirVana RNA isolation kit (Ambion, Inc, Austin, TX, USA) according to manufacturer’s protocol. RNA was quantified using a ND-1000 spectrophotometer (Nanodrop Technology®, Cambridge, UK) and RNA integrity was assessed using the Agilent 2100 Bioanalyzer (Agilent technologies, Santa Clara, CA, USA). The 260/280 ratio were between 1.7 and 2.1 and the RINs (RNA Integrity Numbers) greater than 6 for all samples.
Label
Biotin
Label protocol
Total RNA (300ng) was biotin labeled using the FlashTag™ HSR RNA labeling kit for Affymetrix miRNA arrays (Genisphere LLC., Hatfield, PA, USA) according to manufacturer’s instructions
Hybridization protocol
Labeled RNA was hybridized to Affymetrix GeneChip miRNA microarrays according to manufacturer’s instructions. Wash and stain protocol FS450_0003.
Scan protocol
GeneChips were scanned using the GC 30007G scanner.
Description
Isolated at University Hospital of Geneva
Data processing
Data was normalized in R/Bioconductor using the robust multi-array average (RMA) expression measure.
