normalization data transformation protocol
The data were normalised using quantile normalisation with IlluminaGUI in R ID_REF = VALUE = quantile normalized Detection Pval =
array scanning protocol
Standard Illumina scanning protocol
Standard Illumina hybridization protocol
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
Cells were cultured in DMEM supplemented with 5% FBS, 100 U/ml penicillin, and 100 g/ml streptomycin. Lentiviral vector transfected cells were selected by puromycin treatment.
sample treatment protocol
Cells were treated with 3 IU/ml of IFN beta for 6 hrs. Cells were transfected with empty lentiviral vector or vector containing Y701F STAT1 cDNA.
nucleic acid extraction protocol
Total RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Nanodrop.