|
| Status |
Public on Nov 27, 2012 |
| Title |
347670 |
| Sample type |
RNA |
| |
|
| Source name |
ALL, total RNA
|
| Organism |
Homo sapiens |
| Characteristics |
pathology: ALL
cytogenetics: E2A/PBX1, TEL_AML
immunophenotype: Pre-B-ALL
site (pb: peripheral blood; BM: bone marrow): BM
age: 46
Sex: M
white blood count (wbc, 10^9/l): 5.6
%blasts: 80%
imatinib: neg
overall_survival(days): 2633
code_os (dead_1): 0
hyperdiploid: neg
cd25(pos >=5%, neg <5%): 0
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted with Qiagen's RNeasy Plus Mini kit from Qiagen (Valencia, CA), per manufacturer's instructions.
|
| Label |
Cy5/635
|
| Label protocol |
Random priming with 7-mers pre-labeled with either Cy3 or Cy5 according to manufacturer's instructions using the NimbleGen Dual-Color DNA Labeling Kit (cat # 06370381001)
|
| |
|
| Hybridization protocol |
See Roche NimbleGen website for the detailed manufacturers protocol.
|
| Scan protocol |
Scanning was performed using NimbleGen MS 200 scanner
|
| Description |
12390
|
| Data processing |
RMA normalization using the RMA algorithm in NimbleScan 2.5 software (Roche NimbleGen, Inc).
|
| |
|
| Submission date |
Jan 04, 2012 |
| Last update date |
Nov 27, 2012 |
| Contact name |
Huimin Geng |
| E-mail(s) |
huimin.geng@ucsf.edu
|
| Organization name |
UCSF
|
| Department |
Department of Laboratory Medicine
|
| Street address |
513 Parnassus Ave., MSB S-1480
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94143 |
| Country |
USA |
| |
|
| Platform ID |
GPL15088 |
| Series (2) |
| GSE34861 |
Integrative Epigenomic Analysis Identifies Biomarkers and Therapeutic Targets in Adult B-Acute Lymphoblastic Leukemia [mRNA profiling] |
| GSE34941 |
Integrative Epigenomic Analysis Identifies Biomarkers and Therapeutic Targets in Adult B-Acute Lymphoblastic Leukemia |
|
