8 protocols
AccessionType
bioassay_data_transformation
ID_REF =
VALUE = RMA normalized signal intensity
feature_extraction
RMA normalized using Bioconductor; cell line replicates averaged, mean of MSS and MSI cell lines calculated
image_aquisition
performed at the Albert Einstein College of Medicine Microarray Facility (http://www.einstein.yu.edu/dna/Affy/affy%20main.htm)
hybridization
performed at the Albert Einstein College of Medicine Microarray Facility (http://www.einstein.yu.edu/dna/Affy/affy%20main.htm)
nucleic_acid_extraction
Qiagen RNeasy columns
labeling
5 ug of total RNA labelled using the Affymetrix One Cycle IVT-biotin labelling protocol
specified_biomaterial_action
untreated
grow
cells cultured in DMEM + 10%FBS; harvested at exponentially growing phase