|
| Status |
Public on Mar 01, 2012 |
| Title |
Mouse control 2 |
| Sample type |
RNA |
| |
|
| Source name |
Control diet_liver
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57B1/6J
gender: female
age: 7-weeks old
genotype/variation: OVX (ovariectomized)
tissue: liver
|
| Treatment protocol |
Mice were then divided into two dietary groups, with eight mice per group: HFD or HFD+WBM. The diets were started one week after surgery and continued for 3 months.
|
| Growth protocol |
To create a mouse model of postmenopausal women, seven-week old, female C57B1/6J mice were ovariectomized (OVX, n=16). These OVX mice only produce estrogen from extragonadal sites and are used extensively as a model of postmenopausal women. Control mice (sham, n=16) were subjected to sham operation survival surgery. The sham mice were subjected to the same general surgical procedure as OVX mice, except the removal of the ovaries.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from four liver specimens from OVX mice fed with HFD or from OVX mice fed with HFD+WBM using TRIzol reagent (Invitrogen, Carlsbad, CA)
|
| Label |
Biotin
|
| Label protocol |
Synthesis and labeling of cRNA targets, hybridization of GeneChips, and signal detection were carried out by the Microarray Core Facility at City of Hope. Briefly, biotinylated cRNA was generated using 5 μg total RNA using T7 RNA polymerase
|
| |
|
| Hybridization protocol |
The GeneChip arrays were hybridized with 15 μg of fragmented cRNA targets and then washed
|
| Scan protocol |
The staining was performed with streptavidin-PE. Affymetrix GeneChip images were scanned at 11-μm resolution using a high resolution GeneChip Scanner 3000 (Hewlett-Packard, Palo Alto, CA) and GeneChip operating software to produce CEL intensity files
|
| Description |
C6449
|
| Data processing |
Raw intensity measurements of all probe sets were corrected for the background, normalized and converted into transcript-level expression measurements by using the IterPlier method in Affymetrix Power Tools (version 1.8.6).
|
| |
|
| Submission date |
Sep 02, 2011 |
| Last update date |
Mar 01, 2012 |
| Contact name |
Noriko Kanaya |
| E-mail(s) |
[email protected]
|
| Organization name |
Beckman Research Institute at City of Hope
|
| Department |
Cancer Biology
|
| Street address |
1500 East Duarte
|
| City |
Duarte |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE31854 |
Liver protective effects of white button mushroom (Agaricus Bisporus) |
|
