|
| Status |
Public on Dec 16, 2009 |
| Title |
Infant ALL germline MLL sample 4 |
| Sample type |
RNA |
| |
|
| Source name |
Primary infant (<1 year of age) ALL cells at diagnosis (untreated) (>90% blasts)
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Acute Lymphoblastic Leukemia cells (>90% blasts)
genome/variation: none
sex: male
age (months): 0.00
tissue: Precursor B-cell acute lymphoblastic leukemia (ALL)
|
| Treatment protocol |
Primary ALL samples were obtained at diagnosis (before treatment) and processed within 24 hours after sampling. All samples contained >90% leukemic blasts.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from leukemic cells using TRIzol reagent (Invitrogen) according to the manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Fragmented cRNA was hybridized to Affymetrix HU133plus 2.0 microarrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
|
| Description |
Gene expression profiling data (HU133plus2.0) primary infant ALL cells
|
| Data processing |
The CEL files represent the raw (unscaled; scaling factor = 1) gene expression data. Raw (unscaled) array data was collectively normalized using variance-stabilizing normalization (VSN), performed in the statistical environment R (version 2.10.1) using Bioconductor packages.
|
| |
|
| Submission date |
Dec 15, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Ronald Stam |
| E-mail(s) |
r.stam@erasmusmc.nl
|
| Organization name |
Erasmus MC - Sophia Children's Hospital
|
| Street address |
Dr. Molewaterplein 60
|
| City |
Rotterdam |
| ZIP/Postal code |
3015 GE |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE19475 |
Gene expression data from infants (<1 year of age) diagnosed with Acute Lymphoblastic Leukemia (ALL) |
|
| Relations |
| Reanalyzed by |
GSE119087 |
