|
| Status |
Public on May 03, 2016 |
| Title |
Adults B-cell ALL Bone marrow, sample 128 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Bone marrow cells (test)
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Bone marrow cells
gender: Male
disease state: B-cell acute lymphoblastic leukemia
age group: Adults ≥18 years
genetic subtype: BCR-ABL1
treatment: Second-generation TKI
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The genomic DNA was extracted from frozen bone marrow or fixed peripheral blood cell samples with QIAmp DNA Mini Kit (Qiagen, 16 Valencia, CA, USA) following the manufacturer’s instructions
|
| Label |
Cy3
|
| Label protocol |
Samples were denatured and labeled in parallel with Cy3 for the test group and Cy5 for the control group, each through a random priming method, using Klenow fragments (NimbleGen Dual-Color DNA Labeling Kit, Roche NimbleGen, Inc., Madison, WI, USA)
|
| |
|
| Channel 2 |
| Source name |
control
|
| Organism |
Homo sapiens |
| Characteristics |
gender: Male
disease state: Not applicable
age group: Not applicable
treatment: Not applicable
reference composition: Human Genomic DNA: Male, Promega, Madison, WI, USA
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The genomic DNA was extracted from frozen bone marrow or fixed peripheral blood cell samples with QIAmp DNA Mini Kit (Qiagen, 16 Valencia, CA, USA) following the manufacturer’s instructions
|
| Label |
Cy5
|
| Label protocol |
Samples were denatured and labeled in parallel with Cy3 for the test group and Cy5 for the control group, each through a random priming method, using Klenow fragments (NimbleGen Dual-Color DNA Labeling Kit, Roche NimbleGen, Inc., Madison, WI, USA)
|
| |
|
| |
| Hybridization protocol |
Hybridization was performed according to the instructions in the NimbleGen Array User Guide
|
| Scan protocol |
Scanning was performed according to the instructions in the NimbleGen Array User Guide
|
| Data processing |
Arrays were processed using Nimblegen's standard protocol and segmented using the CGHweb tool.
|
| |
|
| Submission date |
Dec 03, 2015 |
| Last update date |
May 03, 2016 |
| Contact name |
Jesús Maria Hernández-Rivas |
| E-mail(s) |
jmhr@usal.es
|
| Organization name |
Hospital Universitario de Salamanca, Universidad de Salamanca-CSIC
|
| Department |
Hematology
|
| Street address |
Paseo San Vicente, 88-182
|
| City |
Salamanca |
| State/province |
Salamanca |
| ZIP/Postal code |
37007 |
| Country |
Spain |
| |
|
| Platform ID |
GPL16707 |
| Series (1) |
| GSE75671 |
Genome-Wide DNA Copy Number Analysis of Acute Lymphoblastic Leukemia Identifies New Genetic Markers Associated with Clinical Outcome |
|
