6 protocols
array scanning protocol
Standard Illumina scanning protocol
normalization data transformation protocol
Illumina Genome Studio software (v.1.9.0) was used for data processing: background subtraction and Quantile normalization ID_REF = VALUE = quantile normalized Detection Pval =
hybridization protocol
Biotinylated cRNA were hybridized to the Illumina array per manufacturer's instructions
labelling protocol
Biotinylated cRNA were prepared according to the standard Illumina protocol
growth protocol
Monolayer cells were maintained in DMEM supplemented with 10% heat-inactivated fetal bovine serum), 100 units/mL penicillin, and 100 μg/mL streptomycin. Spheroid cells were maintained in ultra-low adhesion flasks using serum-free media supplemented with B27, L-Glutamine, Pen/Strep, hEGF (20 ng/ml), and hFGFb (40ng/ml).
nucleic acid extraction protocol
Total RNA was prepared using RNeasy mini kit (Qiagen) according to the manufacturer's instructions