|
| Status |
Public on Nov 05, 2011 |
| Title |
T-ALL sample #7 |
| Sample type |
RNA |
| |
|
| Source name |
TALL lymphoblast sample 7
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: cryopreserved lymphoblast
|
| Treatment protocol |
Leukemic DNA and cryopreserved lymphoblast samples were provided by the Eastern Cooperative Oncology Group (ECOG). All samples were collected in clinical trial E2993(Marks et al., 2009) and informed consent to use leftover material for research purposes was obtained from all the patients at trial entry according to the declaration of Helsinki. T-cell phenotype was confirmed by flow cytometry
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolation from lymphoblast obtained from adult T-ALL patient samples was achieved using the RNeasy plus mini kit (Qiagen) according to manufacturer's protocol
|
| Label |
biotin
|
| Label protocol |
10ng of RNA from each T-cell subset was amplified using the Ovation® PicoSL WTA System (Nugen), labeled by the EncoreTM BiotinIL Module (Nugen)
|
| |
|
| Hybridization protocol |
500 ng of RNA was amplified and biotinylated using the TotalPrep RNA Amplification Kit (Ambion) and hybridized to the HumanHT-12 v4 Expression BeadChip (Illumina)
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
sample collected in human clinical trial E2993 (Marks et al., 2009)
|
| Data processing |
Gene expression profiling data from 57 adult T-ALL patients were transfomed to log2 scale and normalized using quantile normalization without background subtraction
|
| |
|
| Submission date |
Nov 03, 2011 |
| Last update date |
Nov 15, 2012 |
| Contact name |
Alberto Ambesi-Impiombato |
| Organization name |
Columbia University
|
| Department |
ICG
|
| Street address |
1130 St. Nicholas Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10032 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE33469 |
Gene Expression Profile of 57 human T-ALL samples collected in human clinical trial E2993 (Marks et al., 2009) |
|
| Relations |
| Reanalyzed by |
GSM1037885 |
