|
| Status |
Public on May 20, 2008 |
| Title |
New 3 hr 3 |
| Sample type |
RNA |
| |
|
| Source name |
MCF-7 cells treated with E2 for 3h.
|
| Organism |
Homo sapiens |
| Characteristics |
breast adenocarcinoma from 69yr old female caucasian
|
| Treatment protocol |
After MCF-7 cells were grown to 75% to 80% confluence in MEM supplemented with 10% FBS, the cells were serum starved in DMEM/F-12 without phenol red (Invitrogen) and FBS for 24 h. MCF-7 cells were then treated with vehicle or E2 at a concentration of 10–9 mol/L for 3 and 6 h. All experiments were performed in triplicate.
|
| Growth protocol |
MCF-7 cells (American Type Culture Collection) were maintained in MEM (Invitrogen) containing 25 units/mL penicillin, 25 units/mL streptomycin, and 10% fetal bovine serum (FBS) at 37°C and 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the MCF-7 breast cancer cell line using Tri-Reagent (Sigma) according to the manufacturer's instruction. Total RNA samples were treated with DNase I (Ambion) for 20 min at 37°C according to the product manual.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
Following fragmentation, cRNA were hybridized to Human Genome U133Plus2.0 GeneChips. GeneChips were washed and stained in an Affymetrix Fluidics Station.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner.
|
| Description |
biological replicate: New 3 hr 1,New 3 hr 2,New 3 hr 3
|
| Data processing |
Probe level data was converted to probe set expression values using RMA (Irizarry RA et al., Biostatistics 2003 Apr;4(2):249-64).
|
| |
|
| Submission date |
May 20, 2008 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Zhihong Lin |
| E-mail(s) |
z-lin@northwestern.edu
|
| Organization name |
Northwestern University
|
| Department |
Obstetrics and Gynecology
|
| Street address |
303 East Superior Street
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60611 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE11506 |
Novel Estrogen Receptor-{alpha} Binding Sites and Estradiol Target Genes Identified by ChIP Cloning in Breast Cancer. |
|
| Relations |
| Reanalyzed by |
GSE119087 |
