|
| Status |
Public on Sep 01, 2012 |
| Title |
MDS-L_Control_1 |
| Sample type |
RNA |
| |
|
| Source name |
MDS-L, 7 days, DMSO, replicate 1
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: bone marrow of a patient with MDS
cell line name: MDS-L
|
| Treatment protocol |
The MDS-L cells were treated with DMSO or 4 nM decitabine for 7 days.
|
| Growth protocol |
The MDS-L cells were maintained in RPMI1640 medium supplemented with 10% fetal bovine serum, 50μM 2-mercaptoethanol, 2.0mM L-glutamine and 100U/ml IL-3.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with a TRIZOL LS Reagent (Invitrogen) and cleaned up with an RNeasy MinElute Cleanup Kit (Qiagen)
|
| Label |
Cy3
|
| Label protocol |
Purified 100 ng of total RNA was amplified with a Low Input Quick Amp Labeling Kit, one-color (Agilent Technologies Inc.) according to the manufacturer's instructions, followed by RNeasy column purification (Qiagen).
|
| |
|
| Hybridization protocol |
600 ng of Cyanine 3-labeled fragmented cRNA was hybridized to a SurePrint G3 Human GE 8x60K Microarray Kit (Agilent Technologies Inc.) according to the manufacturer's instructions.
|
| Scan protocol |
Slides were scanned immediately after washing on a High-Resolution Microarray Scanner (Agilent Technologies Inc.) using one color scan setting for 8x60k array slides (Scan Area 61x21.6 mm, Scan resolution 3um, Dye channel is set to Green and Green PMT is set to 100%).
|
| Description |
Gene expression after 7 days in DMSO treated MDS-L cells
|
| Data processing |
The scanned images were analyzed with Feature Extraction Software 10.7.3.1 (Agilent Technologies Inc.) using default parameters (Protocol: GE1_107_Sep09 and Grid: 028004_D_F_20110325) to obtain background subtracted and spatially detrended Processed Signal intensities.
|
| |
|
| Submission date |
Jul 25, 2012 |
| Last update date |
Sep 01, 2012 |
| Contact name |
Akira Yokoi |
| E-mail(s) |
a-yokoi@hhc.eisai.co.jp
|
| Phone |
+81-29-847-5808
|
| Organization name |
Eisai Co., Ltd
|
| Department |
Oncology PCU
|
| Lab |
Tsukuba, Global Biology
|
| Street address |
Tokodai 5-1-3
|
| City |
Tsukuba |
| State/province |
Ibaraki |
| ZIP/Postal code |
300-2635 |
| Country |
Japan |
| |
|
| Platform ID |
GPL14550 |
| Series (1) |
| GSE39628 |
Effects of DNA methyltransferase inhibitors (DNMTIs) on MDS-derived cell lines |
|
