|
| Status |
Public on Aug 01, 2013 |
| Title |
ethanol_ethanol_91 |
| Sample type |
RNA |
| |
|
| Source name |
MCF-7_ethanol_ethanol
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. vehicle (ethanol) + 1 uM vehicle (ethanol) for 24hr
batch: 3
|
| Treatment protocol |
48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
|
| Growth protocol |
MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
|
| Label |
Biotin
|
| Label protocol |
Ambion MessageAmp Premier Labeling
|
| |
|
| Hybridization protocol |
Gene Chip hG-133 plus 2.0 (Affymetrix)
|
| Scan protocol |
Affymetrix GeneChip Scanner 7G
|
| Data processing |
Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
|
| |
|
| Submission date |
May 14, 2013 |
| Last update date |
Dec 03, 2013 |
| Contact name |
Jeff Jasper |
| Organization name |
Duke University
|
| Department |
Pharmacology and Cancer Biology
|
| Lab |
McDonnell
|
| Street address |
Box 3813
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27710 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE46924 |
27-Hydroxycholesterol links cholesterol and breast cancer pathophysiology. |
|
