|
| Status |
Public on Oct 01, 2010 |
| Title |
wild-type mouse + 0mg/kg PFOS, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Wild-type, liver, left lobe, 0mg/kg PFOS, 7 day exposure
|
| Organism |
Mus musculus |
| Characteristics |
strain: 129S1/SvlmJ
genotype: wildtype
tissue: liver
gender: male
age: 6-9 months
treatment: untreated
treatment dosage: 0mg/kg
treatment time: 7 days
|
| Treatment protocol |
PPARα-null and wild-type male mice at 6-9 months of age were dosed by gavage for 7 consecutive days with either 0, 3, or 10 mg/kg PFOS (potassium salt) in 0.5% Tween 20.
|
| Growth protocol |
Animals were housed 5 per cage and allowed to acclimate for a period of one week prior to the conduct of the study. Food and municipal tap water were provided ad libitum. Animal facilities were controlled for temperature (20-24°C), relative humidity (40-60%), and kept under a 12 hr light-dark cycle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Collected tissue (≤ 50 mg) was immediately placed in 1 ml RNAlater and stored at -20◦C. RNA preparations were then completed by homogenizing the tissue in 1 ml TRI reagent followed by processing according to the manufacturer’s instructions.
|
| Label |
Biotin
|
| Label protocol |
Biotin-labeled cRNA was produced from 5 ug total RNA using Enzo Single-Round RNA Amplification and Biotin Labeling System (Cat. No. 42420-10, Enzo Life Sciences Inc, Farmingdale, NY).
|
| |
|
| Hybridization protocol |
Following fragmentation, samples were hybridized overnight at 45oC in an Affymetrix Model 640 GeneChip hybridization oven.
|
| Scan protocol |
Arrays were washed and stained using an Affymetrix 450 fluidics station, and scanned on an Affymetrix Model 3000 scanner.
|
| Description |
WT_0mg/kg-2
Liver gene expression data from control wild-type mice.
|
| Data processing |
Microarray data were summarized, background adjusted, and quantile normalized using Robust Multichip Average methodology (RMA Express, ver. 1.0). Prior to statistical analysis, microarray data were filtered to remove probe sets with weak or no signal. Data were analyzed for each strain using a one-way ANOVA across dose (Proc GLM, SAS ver. 9.1, Cary, NC). Individual treatment contrasts were evaluated using a pairwise t-test of the least square means.
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| |
|
| Submission date |
Jul 09, 2010 |
| Last update date |
Oct 01, 2010 |
| Contact name |
Mitchell B Rosen |
| E-mail(s) |
rosen.mitch@epa.gov
|
| Phone |
919-541-2223
|
| Fax |
919-541-4017
|
| Organization name |
U.S. EPA
|
| Department |
Reproductive Toxicology
|
| Lab |
GEEBB
|
| Street address |
2525 Hwy 54
|
| City |
Research Triangle Park |
| State/province |
NC |
| ZIP/Postal code |
27711 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE22871 |
Expression data from wild-type and PPARalpha-null mice exposed to perfluorooctane sulfonate (PFOS) |
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