|
| Status |
Public on Jan 15, 2013 |
| Title |
SJ_TCF3-1 |
| Sample type |
RNA |
| |
|
| Source name |
TCF3 diagnosis sample. RNA extracted from tumor cells obtained at diagnosis.
|
| Organism |
Homo sapiens |
| Characteristics |
all subtype: B-lineage ALL with TCF3-PBX1 rearrangement
|
| Treatment protocol |
None
|
| Growth protocol |
RNA was extracted from cryopreserved mononuclear cell preparations of diagnostic bone marrow or peripheral blood from ALL cases
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix)
|
| |
|
| Hybridization protocol |
Following fragmentation, 5 microgram of cRNA was hybridized for 16 hr at 45C on each array. GeneChips were washed and stained in the Affymetrix GeneTitan system.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneTitan system.
|
| Description |
Sample name: SJE2A003
|
| Data processing |
Data were background adjusted, normalized and summarized by the RMA method. The Bioconductor package was used for this analysis.
|
| |
|
| Submission date |
Jul 17, 2012 |
| Last update date |
Jan 15, 2013 |
| Contact name |
Linda Holmfeldt |
| Organization name |
St. Jude Children's Research Hospital
|
| Department |
Pathology
|
| Street address |
262 Danny Thomas Place
|
| City |
Memphis |
| State/province |
Tennessee |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platform ID |
GPL13158 |
| Series (1) |
| GSE27237 |
The Genetic Basis of Hypodiploid Acute Lymphoblastic Leukemia |
|
