|
| Status |
Public on Jan 13, 2010 |
| Title |
DS-ALL, BFM data set (SI-DS-ALL-8) |
| Sample type |
RNA |
| |
|
| Source name |
White blood human cells
|
| Organism |
Homo sapiens |
| Characteristics |
condition: Down's syndrome with acute lymphoblastic leukemia
snp dataset: IL
gene expression dataset: IL, BFM
jak2 r683 mutation: normal, wild type
crlf2 mutation: V244M
crlf2 fish: n/a
crlf2 expression levels (gene expression arrays - log2): 5.45
crlf2 expression levels (qrt-pcr - relative to si-ds-all-12): 426
crlf2 expression levels stratification: High/medium
cell type: white blood cells
|
| Treatment protocol |
White blood cells were isolated through Ficoll-Hypaque density gradient centrifugation
|
| Growth protocol |
No growth protocol used
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Lysis of the mononuclear cells followed by lysate homonogenization using a biopolymer shredding system in a microcentrifuge spin-column format followed by total RNA purification using selective binding columns
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 11 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450DX.
|
| Scan protocol |
GeneChips were scanned using the Scan GCS3000Dx.
|
| Description |
Gene expression data from pediatric acute leukemia samples at diagnosis
|
| Data processing |
Affymetrix Expression Console (EC) software Version 1.1 was used to median-normalize the data and then apply RMA.
|
| |
|
| Submission date |
Jul 31, 2009 |
| Last update date |
Jan 13, 2010 |
| Contact name |
Libi Hertzberg |
| Organization name |
Weizmann Institute of Science
|
| Street address |
Herzel 145
|
| City |
Rehovot |
| ZIP/Postal code |
76100 |
| Country |
Israel |
| |
|
| Platform ID |
GPL96 |
| Series (1) |
| GSE17459 |
Down's syndrome with acute lymphoblastic pediatric leukemia (DS-ALL) |
|
