|
| Status |
Public on Dec 18, 2012 |
| Title |
20125_Mock_296361 |
| Sample type |
RNA |
| |
|
| Source name |
Bone marrow culture, mock
|
| Organism |
Homo sapiens |
| Characteristics |
disease status: acute myeloid leukemia (AML)
tissue: bone marrow
cultured: yes
treatment: DMSO vehicle (mock)
treatment duration: 3 days
aml sample identifier: 296361
|
| Treatment protocol |
Samples were cultured for 7 days, the last 3 days of which included 100 nM decitabine (DAC), 100 nm cytarabine (AraC), or DMSO vehicle (mock).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was purified using Trizol reagent, quantified using UV spectroscopy (Nanodrop Technologies, Wilmington,DE) and qualitatively assessed using an Experian Bioanalyzer (Hercules,CA). Amplified cDNA was prepared from 20ng of total RNA using the whole transcript WT-Ovation TM RNA Amplification System.
|
| Label |
biotin
|
| Label protocol |
Amplified cDNA was biotin labeled using the EncoreTM Biotin Module (NuGen Technologies, San Carlos, CA) according to the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
Labeled targets were hybridized to Human Exon 1.0 ST arrays (Affymetrix, Santa Clara, CA).
|
| Scan protocol |
GeneChips were scanned using Affymetrix GeneArray scanner GS 3000.
|
| Description |
20125
|
| Data processing |
Raw data were processed with the RMA algorithm in Affymetrix Expression ConsoleTM version1.1 (Affymetrix Inc., USA). Full exons were included in the analysis.
Meta-probeset file: HuEx-1_0-st-v1.r2.dt1.mm9.full.mps
|
| |
|
| Submission date |
Aug 28, 2012 |
| Last update date |
Dec 18, 2012 |
| Contact name |
Nobish Varghese |
| E-mail(s) |
nvarghese@path.wustl.edu
|
| Organization name |
Washington University in St.Louis
|
| Street address |
4444 Forest Park Ave.
|
| City |
StLouis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL5188 |
| Series (2) |
| GSE40442 |
Gene expression profiling in primary AML cells treated with decitabine and cytarabine |
| GSE40871 |
Gene expression and methylation profiling in primary AML cells treated with decitabine and cytarabine |
|
