|
| Status |
Public on Jun 25, 2009 |
| Title |
9906_P3E07 |
| 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 : 5954
congenital abnormality : None
gender : Male
race : Black or African American
WBC, 1000/microliter : 15.5
MLL : Negative
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 : 95
sample viability, % of sample, -1=unavailable : 94
amplification set : 3
hybridization set : 11
training or test set : training 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 |
