array scanning protocol
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
normalization data transformation protocol
Raw image files were converted to probe set data (.cel files) in Microarray Suite (MAS 5.0). The probe set data files were normalized together, and expression values were determined, using the Robust Multi-chip Average (RMA) method as implemented in RMAExpress (Bolstad/Berkeley). ID_REF = VALUE = RMA normalized
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on a GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.
nucleic acid extraction protocol
Trizol extraction of total RNA was performed according to the manufacturer's instructions.