|
| Status |
Public on Sep 17, 2016 |
| Title |
53834hg133a11 |
| Sample type |
RNA |
| |
|
| Source name |
CML (Set A)
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Bone marrow
risk group: CML
|
| Treatment protocol |
All blood and bone marrow have been subjected to ficoll density centrifugation and frozen viable cells were prepared in DMSO+FCS+RPMI and stored over liquid nitrogen. Tissue samples have been minced and a cell suspension was prepared. Cell suspension was then stored as frozen viable cells in DMSO+FCS+RPMI and stored in liquid nitrogen
|
| Growth protocol |
The samples were obtained fresh in the operating room
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Approximately 10X106 cells per case were used for the extraction of total RNA by RNeasy Micro kit (Qiagen, Valencia, CA) according to manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Each RNA sample was labeled by synthesizing complementary cDNA and converted to labeled complementary RNA using T7 RNA polymerase in the presence of biotinylated UTP (Affymetrix).
This cRNA is used as the target for microarray fragmentation and hybridization.
|
| |
|
| Hybridization protocol |
Sample pre-processing and array hybridization were performed according to the manufacturer’s directions. The detailed protocol is available at the following url: http://www.affymetrix.com/support/technical/manuals.affx.
|
| Scan protocol |
Array were scanned using GeneArray Laser Scanner (Affymetrix).
|
| Description |
Expression data from mononuclear cells from bone marrow and peripheral blood
|
| Data processing |
The data were normalized using RMA.
|
| |
|
| Submission date |
Sep 23, 2013 |
| Last update date |
Nov 14, 2018 |
| Contact name |
Byung Park |
| Organization name |
Oregon Health & Science University
|
| Street address |
3181 SW Sam Jackson Park Rd. CR145
|
| City |
Portland |
| State/province |
Oregon |
| ZIP/Postal code |
97239 |
| Country |
USA |
| |
|
| Platform ID |
GPL96 |
| Series (1) |
| GSE51082 |
Expression data from mononuclear cells from bone marrow and peripheral blood of leukemia patient samples |
|
| Relations |
| Reanalyzed by |
GSE122505 |
