age in days at diagnosis : 1751 congenital abnormality : None gender : Female race : White WBC, 1000/microliter : 238 MLL : Negative CNS status : > 5 CSF WBC/ul with blasts on cytospin and/or eye involvement, cranial nerve involvement, parenchymal brain involvement testicular involvement : Unknown TEL-AML,t(12;21) : Negative trisomy 4 and 10 : Negative E2A-PBX, t(1;19) : Negative BCR-ABL, t(9;22) : Negative tissue type : bone marrow blast count, % of sample, -1=unavailable : 95 sample viability, % of sample, -1=unavailable : 94 amplification set : 3 hybridization set : 9 training or test set : training set
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Biotinylated cRNA was generated from total RNA using the Affymetrix labeling protocol.
cRNA was fragmented and hybridized overnight to Affymetrix U133 Plus 2.0 Genechips.
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G Plus.
Diagnostic sample, cryopreserved leukemic blood or bone marrow. See sample charateristics for details.
The data were analyzed using Microarray Suite version 5.0 (MAS 5.0) in the Affymetrix Gene Chip Operating Software Version 1.4. Probe masking was used; see the supplementary file 9906_TT207_Affymetrix_probe_mask.msk. Otherwise all Affymetrix default parameter settings were used. Global scaling as the normalization method, with the default target intensity of 500, was used.