|
Status |
Public on Jun 25, 2009 |
Title |
9906_P3A09 |
Sample type |
RNA |
|
|
Source name |
Diagnostic sample, cryopreserved leukemic blood or bone marrow. See sample charateristics for details.
|
Organism |
Homo sapiens |
Characteristics |
age in days at diagnosis : 852 congenital abnormality : None gender : Male race : White WBC, 1000/microliter : 139 MLL : Positive CNS status : No CNS disease testicular involvement : Negative 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 : 90 sample viability, % of sample, -1=unavailable : 96 amplification set : 3 hybridization set : 11 training or test set : test set
|
Extracted molecule |
total RNA |
Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
Label |
biotin
|
Label protocol |
Biotinylated cRNA was generated from total RNA using the Affymetrix labeling protocol.
|
|
|
Hybridization protocol |
cRNA was fragmented and hybridized overnight to Affymetrix U133 Plus 2.0 Genechips.
|
Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G Plus.
|
Description |
Diagnostic sample, cryopreserved leukemic blood or bone marrow. See sample charateristics for details.
|
Data processing |
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.
|
|
|
Submission date |
Jun 24, 2008 |
Last update date |
Aug 28, 2018 |
Contact name |
Maurice Murphy |
E-mail(s) |
mmurphy@hpc.unm.edu
|
Phone |
(505) 925 4001
|
Organization name |
UNM Health Sciences Center
|
Department |
UNM Cancer Center
|
Lab |
Willman Lab
|
Street address |
9501 Camino de Salud
|
City |
Albuquerque |
State/province |
NM |
ZIP/Postal code |
87131 |
Country |
USA |
|
|
Platform ID |
GPL570 |
Series (1) |
GSE11877 |
Children's Oncology Group Study 9906 for High-Risk Pediatric ALL |
|
Relations |
Reanalyzed by |
GSE119087 |