|
| Status |
Public on Jul 04, 2011 |
| Title |
OPM2 DZNep treated |
| Sample type |
RNA |
| |
|
| Source name |
B lymphocyte
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Multiple Myeloma Cell Line
cell line: OPM-2
treatment group: DZNep treated
|
| Treatment protocol |
Cells were treated with 0.5 μmol/L DZNep for 48 h.
|
| Growth protocol |
Human MM cell lines KMS18, MM.1S and OPM-2 were maintained in RPMI 1640, supplemented with 10% fetal calf serum (FCS), 100 U/mL penicillin and 100 ug/mL streptomycin. MM cell line NCI-H929 was cultured in RPMI 1640 with 15% FCS and 0.00036% 2-mercaptoethanol. All cells were grown at 37°C in a humidified atmosphere with 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen RNeasy Mini kit (Germany) extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated aRNA were prepared according to the standard Affymetrix protocol from 100ng total RNA (GeneChip 3' IVT Express Kit Manual, 2009, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 12.5 ug of aRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix scanner 3000 7G
|
| Description |
8.OPM-2 DZNep
OPM2-DZNep
|
| Data processing |
The data were analyzed with Genespring GX (Agilent Technologies). The data normalization was done using MAS5 algorithm in GeneSpring GX. For each control-treatment comparison, entities that have flagged present or marginal in at least 1 out of 2 samples were retained, and the differentially expressed genes were identified using the fold change function.
|
| |
|
| Submission date |
Jan 27, 2011 |
| Last update date |
Jul 04, 2011 |
| Contact name |
Zhigang Xie |
| E-mail(s) |
xiezhigang@nus.edu.sg
|
| Organization name |
National University of Singapore
|
| Department |
CSI Singapore
|
| Street address |
14 Medical Drive, CeLS Building #02-07
|
| City |
Singapore |
| ZIP/Postal code |
117599 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE26921 |
Determinants of sensitivity to DZNep induced apoptosis in multiple myeloma cells |
|
