|
| Status |
Public on Aug 22, 2008 |
| Title |
CN_AML Patient 5 (U133B) |
| Sample type |
RNA |
| |
|
| Source name |
bone marrow mononuclear cells
|
| Organism |
Homo sapiens |
| Characteristics |
MDS RAEB, normal karyotype (training set) MDS RAEB; age =61 years; OS = 275 days; status (0=alive/1=dead): 0
|
| Treatment protocol |
Pretreatment bone marrow or peripheral blood mononuclear cells from patients with newly diagnosed acute myeloid leukemia (AML) with a normal karyotype
|
| Growth protocol |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mononuclear cells from bone marrow (BM) or peripheral blood (PB) were enriched by Ficoll gradient centrifugation. Total RNA was isolated using the RNeasy Mini Kit (Qiagen, Hilden, Germany). cDNA preparation and in vitro transcription were performed according to standard Affymetrix protocols.
|
| Label |
biotin
|
| Label protocol |
Biotin labeling of antisense cRNA was performed according to standard Affymetrix protocols
|
| |
|
| Hybridization protocol |
Sample hybridisation was performed for 16 hours according to standard Affymetrix protocols
|
| Scan protocol |
Samples were scanned using an Affymetrix GeneChip scanner
|
| Description |
MDS RAEB, normal karyotype (training set) MDS RAEB; age =61 years; OS = 275 days; status (0=alive/1=dead): 0
|
| Data processing |
Normalization was performed using the variance stabilizing normalization algorithm, and probe set expression values were calculated by the median polish method. Quality control consisted of visual inspection of the array image for artifacts, assessment of RNA degradation plots, and inspection of rank-vs.-residual plots after normalization and probe set summarization.
|
| |
|
| Submission date |
Aug 12, 2008 |
| Last update date |
Aug 22, 2008 |
| Contact name |
Klaus H Metzeler |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Munich
|
| Department |
Department of Internal Medicine III
|
| Lab |
Laboratory for Leukemia Diagnostics
|
| Street address |
Marchioninistr. 15
|
| City |
Munich |
| ZIP/Postal code |
81377 |
| Country |
Germany |
| |
|
| Platform ID |
GPL97 |
| Series (1) |
| GSE12417 |
Prognostic gene signature for normal karyotype AML |
|
