|
| Status |
Public on Nov 05, 2013 |
| Title |
Naproxen, biological rep4 |
| Sample type |
RNA |
| |
|
| Source name |
liver_Naproxen
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague Dawley
treated with: Naproxen (400mg/kg diet) for 7 days
tissue: liver
|
| Treatment protocol |
rats administered naproxen (400 mg/kg), NO-naproxen (550 mg/kg) or control diet for 7 days
|
| Growth protocol |
All rats were housed individually, given free access to water and food, and maintained under controlled conditions of temperature (21±1°C) and humidity (50±10%), under a 12 hr light/dark cycle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions. RNA was further purified by Dnase treatment and Rneasy Mini kit (Qiagen, UK).
|
| Label |
biotin
|
| Label protocol |
Biotin-labeled targets for the microarray experiment were prepared using 1µg of total RNA. Ribosomal RNA was removed with the RiboMinus Human/Mouse Transcriptome Isolation kit (Invitrogen), and cDNA was synthesized using the GeneChip® WT (Whole Transcript) Sense Target Labeling and Control Reagents kit as described by the manufacturer (Affymetrix, Santa Clara, CA, USA).
|
| |
|
| Hybridization protocol |
Hybridization was performed using 5 micrograms of biotinylated target, which was incubated with the GeneChip® Rat Exon 1.0 ST array (Affymetrix) at 45oC for 16 h. After hybridization, non-specifically bound material was removed by washing and specifically bound target was detected using the GeneChip Hybridization, Wash and Stain kit, and the GeneChip Fluidics Station 450 (Affymetrix).
|
| Scan protocol |
Arrays were scanned using the GeneChip Scanner 3000 7G (Affymetrix) and .CEL intensity files were produced using GeneChip Operating Software version 1.4 (Affymetrix).
|
| Description |
Naproxen_4
|
| Data processing |
Data were processed using Expression Console software v1.1.1 from Affymetrix Inc. MAT background correction were applied to probe intensities, gene level expression were summarized using IterPLIER algorithm.
probe group file: RaEx-1_0-st-v1.r2.pgf
meta-probeset file: RaEx-1_0-st-v1.r2.dt1.rn4..full.mps
|
| |
|
| Submission date |
Nov 04, 2013 |
| Last update date |
Nov 05, 2013 |
| Contact name |
Yan Lu |
| Organization name |
Medical College of Wisconsin
|
| Department |
Physiology
|
| Lab |
Lu
|
| Street address |
8701 Watertown Plank Rd
|
| City |
Milwaukee |
| State/province |
WI |
| ZIP/Postal code |
53226 |
| Country |
USA |
| |
|
| Platform ID |
GPL6543 |
| Series (1) |
| GSE52054 |
Expression data from rat livers - Naproxen and NO-Naproxen treatment |
|
