|
| Status |
Public on Jun 01, 2011 |
| Title |
MCF7-CARM1#13-E2-b |
| Sample type |
RNA |
| |
|
| Source name |
breast cancer cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: breast cancer cell line
cell line: MCF7-tet-on-CARM1 clone 13
treatment: E2
|
| Treatment protocol |
When the cells were treated with Dox, they were treated with 1ug/ml Dox for 4 days to induce CARM1 expression. The medium were changed to phenol-red free DMEM+charcoal stripped FBS for 2 days before treating with E2 (10nM)
|
| Growth protocol |
MCF7-tet-on-CARM1 cells were grown in DMEM in 10% FBS. Two days before E2 treatment, the cells were switched to phenol-red free DMEM with 5% 6X charcoal stripped FBS.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mRNA were extracted from cells using Qiagen Rneasy Kit
|
| Label |
Cy3
|
| Label protocol |
Invitrogen SuperScript Double-Stranded cDNA Synthesis Kit was used to synthesize double-stranded cDNA that was going to be labeled using a NimbleGen One-Color DNA Labeling Kit.
|
| |
|
| Hybridization protocol |
Hybridization was performed at 42C for 20hrs, according to NimbleGen gene expression arrays user’s guide (2010).
|
| Scan protocol |
One-color NimbleGen arrays were scanned with the MS 200 Microarray Scanner and the data were extract using the MS 200 Data Collection Software.
|
| Description |
E2 alone
SOM01X73
Sample barcode: 6543902
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
|
| |
|
| Submission date |
Jan 05, 2011 |
| Last update date |
Jun 01, 2011 |
| Contact name |
Wei Xu |
| Organization name |
UW-Madison
|
| Street address |
1400 University Ave
|
| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53706 |
| Country |
USA |
| |
|
| Platform ID |
GPL11219 |
| Series (1) |
| GSE26454 |
Gene expression profiles of CARM1 overexpression in MCF7 |
|
