Tumor samples were acquired from commercial vendors.
Extracted molecule
genomic DNA
Extraction protocol
Qiagen AllPrep extraction kit was used according to the manufacturer's instructions
Label
biotin
Label protocol
Affymetrix 100K protocol
Hybridization protocol
Affymetrix 100K protocol
Scan protocol
Affymetrix 100K protocol
Data processing
Affymetrix 100K Mapping Array intensity signal CEL files were processed by dChip 2005 (Build date Nov 30, 2005). The dChip-normalized signal intensities were converted to log2 ratios. The log2 ratios were centered to a median of zero and segmented using the GLAD package for the R statistical environment.
