|
| Status |
Public on Oct 29, 2012 |
| Title |
24 Hour vehicle treated_6116750018_K |
| Sample type |
RNA |
| |
|
| Source name |
T47D breast cancer cells
|
| Organism |
Homo sapiens |
| Characteristics |
agent: vehicle
time point: 24 Hour
shRNA: Dox-inducible shRNA for PIP
|
| Treatment protocol |
Doxycycline was added to the culture mdium for either for 24 or 48 hours to induce the knockdown of PIP mRNA. Control samples were prepared by treating the cells with equal volume of water (usually 2.5 uL per mL).
|
| Growth protocol |
T47D cells were maintained in RPMI-1640 medium supplemented with 10% fetal bovine serum from Clontech, CA.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from cells using Aurum Total RNA kit from Bio-Rad Laboratories, Inc., Hercules, CA following the manufacturer’s recommendations.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
control sample
|
| Data processing |
The raw signal intensities were imported and analyzed using the GenomeStudio® data software. After background subtraction and quantile normalization, the signal intensity values were exported to the Partek® genomics expression analysis suite using “Partek's Report Plug-in” option in the GenomeStudio® software. Differentially expressed genes in the dox- versus vehicle-treated samples were identified using the “gene expression” workflow in the Partek® software.
|
| |
|
| Submission date |
Oct 28, 2012 |
| Last update date |
Nov 06, 2012 |
| Contact name |
sanjeev k baniwal |
| E-mail(s) |
sbaniwal@gmail.com
|
| Organization name |
University of Southern California
|
| Department |
Orthopaedics
|
| Street address |
2220 Alcazar street
|
| City |
Los Angeles |
| ZIP/Postal code |
90033 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE41894 |
Prolactin-induced protein (PIP) regulates proliferation of luminal A type breast cancer cells in a hormone-independent manner |
|
