9 protocols
AccessionType
labeling
0.5 microgram of digested and purified DNA were labeled by a random primer reaction, using Bioprime DNA Labeling System and either Cy3-dCTP or Cy5-dCTP.
bioassay_data_transformation
Data preprosessing included filtering of weak and bad spots, lowess normalization, and exclusion of clones showing a SD > 0.2
feature_extraction
Image analysis was performed with GenePix 6.0 image analysis software
grow
Tumor biopsies were taken at the time of diagnosis
image_acquisition
Scanning was performed with an Agilent scanner at 100 pmt
nucleic_acid_extraction
Genomic DNA was isolated according to a standard protocol, including proteinase K, phenol, chloroform, and isoamylalcohol
hybridization
The labeled tumor and normal DNA was co-hybridized to the array slides for 42 to 46 hours, using an automated hybridization station.
nucleic_acid_extraction
Commercially available genomic DNA (Promega, Madison, WI) was used.
grow
Normal female DNA was used