|
| Status |
Public on Dec 29, 2009 |
| Title |
DS-TL_sample3 |
| Sample type |
RNA |
| |
|
| Source name |
Down syndrome transient leukemia blasts, sample3
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: sorted leukemic blast cells
disease status: Down syndrome transient leukemia
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA followed by cleaning up using columns from the Promega SV total RNA isolation kit.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
The fragmented cRNA was added to a hybridization solution containing several biotinylated control oligonucleotides (for quality control), and hybridized to MOE 430.2 chips overnight at 45°C. The chips were then transferred to a fluidics instrument that performs washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
|
| Scan protocol |
Each cRNA bound at its complementary oligonucleotide was excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions were captured.
|
| Description |
Gene expression data from sorted leukemic blasts (DS-TL)
|
| Data processing |
The raw CEL files were imported into dChip and invariant-set normalized with dChip as described in the user's manual (http://biosun1.harvard.edu/complab/dchip/normalizing%20arrays.htm). After normalization, the model-based expression values were calculated by dChip and exported.
|
| |
|
| Submission date |
Dec 28, 2009 |
| Last update date |
Dec 28, 2009 |
| Contact name |
Jan-Henning Klusmann |
| E-mail(s) |
jan-henning.klusmann@kgu.de
|
| Organization name |
Goehte University Frankfurt
|
| Department |
Pediatric Hematology and Oncology
|
| Street address |
Theodor-Stern-Kai 7
|
| City |
Frankfurt |
| ZIP/Postal code |
60590 |
| Country |
Germany |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE19681 |
Global gene expression profile of primary human leukemic blasts |
|
