|
| Status |
Public on May 21, 2015 |
| Title |
MDA-MB-231 control sample, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
MDA-MB-231 cells treat with DMSO vehicle
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA-MB-231
treatment: DMSO
|
| Treatment protocol |
DMSO and YW3-56 were added when cells reached around 70% confluence. Cells were then treated with 10μM YW3-56 for 8hr.
|
| Growth protocol |
MDA-MB-231 cells were cultured in DMEM medium (Gibco) supplemented with 10% FBS and 1% penicillin-streptomycin in a 5% CO2 incubator at 37 °C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction of total RNA was performed using the RNeasy Mini Kit (Qiagen) following manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Label the resulting fragmented cDNA using the Affymetrix GeneChip WT Terminal Labeling Kit (#900671) according to the manufacturer’s protocol. DNA is labeled by TdT with the affymetrix proprietary DNA Labeling Reagent that is covalently linked to biotin.
|
| |
|
| Hybridization protocol |
Prepare hybridization cocktail using the GeneChip Hybridization Wash and Stain Kit (#702232) and hybridize arrays at 45°C for 16 hours in the Affymetrix GeneChip Hybridization Oven 640.
|
| Scan protocol |
Stained arrays were scanned using the GeneChip Scanner 3000 7G.
|
| Data processing |
Data from Affymetix GeneChips were normalized using the Robust Multichip Average (RMA) method with Bioconductor’s affy package.
|
| |
|
| Submission date |
May 02, 2013 |
| Last update date |
May 21, 2015 |
| Contact name |
Yanming Wang |
| Organization name |
The Penn State University
|
| Street address |
454 North Frear Building
|
| City |
University Park |
| State/province |
Pennsylvania |
| ZIP/Postal code |
16802 |
| Country |
USA |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE46590 |
Expression data from MDA-MB-231 cells treated with vehicle or YW3-56 |
|
