Agilent feature extraction software v9.1

Following RNA concentration and integrity analysis, the 44 samples were analyzed using Agilent 4×44K Whole Human Genome Oligo Microarrays at the Cancer Institute and Hospital, Chinese Academy of Medical Sciences, according to the manufacturer's specifications. In brief, 500 ng purified total RNA was reversed transcribed in vitro using the Low RNA Input Linear Amplification Kit PLUS (Agilent) and then transcribed into cRNA labeled with Cy3. In total, 1.65 μg cRNA was hybridized to each microarray. After hybridization, the slides were washed and scanned with an Agilent G2505B Microarray Scanner System. The fluorescence intensities of the scanned images were extracted and preprocessed using Agilent Feature Extraction Software (v9.1). The raw data were normalized using the GeneSpring GX software program, version 11.5 (Silicon Genetics, Redwood City, CA, USA). The raw and processed data are publicly available on the Gene Expression Omnibus (GEO) website under the accession number GSE93520.