normalization data transformation protocol
The data were analyzed with MBNI re-mapped CDF files, version 12. RMA normalization was performed. ID_REF = Entrez Gene ID VALUE = RMA-calculated intensity from MBNI custom annotation
array scanning protocol
GeneChips were scanned using the Affymetrix GeneChip Scanner 7G.
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
10 ug of Qiagen-purified total RNA. R-Phycoerythrin Streptavidin (SAPE), from Molecular Probes, 1 mg/ml (we use 6 ul per reaction).
nucleic acid extraction protocol
Trizol extraction of total RNA was performed according to the manufacturer's instructions.