|
| Status |
Public on May 30, 2012 |
| Title |
non-western liver control diet rep3 |
| Sample type |
RNA |
| |
|
| Source name |
liver, fed control AIN93G diet for 20 weeks
|
| Organism |
Mus musculus |
| Characteristics |
gender: male
strain: C57BL/6J
tissue: liver
diet: AIN93G diet for 20 weeks
|
| Treatment protocol |
The mice were divided into 10 groups of 6 mice each, housed in groups of 3 per cage and fed one of the following diets for 20 weeks : AIN93G (control), AIN93G containing 0.05% quercetin (0.05% quercetin, (Funakoshi, Tokyo, Japan)), a high fat, high cholesterol and high sucrose Western-style diet (39.9% of energy from fat (20% unsalted butter, 1% soy oil, 0.15% cholesterol) and 34.0% of energy from sucrose) (Oriental Yeast) or this Western diet supplemented with 0.05% quercetin.
|
| Growth protocol |
Five-week-old male C57BL/6J mice were obtained from the Institute for Animal Reproduction, Charles River Japan Inc. (Ibaraki, Japan). The mice were housed under conditions of 24± 1°C, 55 ± 5% humidity, and 12 hour light/dark photocycles (dark period from 0800 to 2000) with free access to water and a standard nonpurified diet (NMF, Oriental Yeast Co., Tokyo, Japan) for a week prior to the experiment.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The mice were killed under anesthesia with pentobarbital, and blood and liver tissue were immediately collected. Total RNA was extracted from liver tissues using an RNeasy Midi Kit (Qiagen KK, Tokyo, Japan) according to the manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Double-stranded cDNA was synthesized from the total RNA of each mouse using the One-Cycle cDNA Synthesis Kit (Affymetrix Japan KK, Tokyo, Japan) with a T7-(dT)24 primer. Biotin-labeled cRNA was then synthesized using an IVT Labeling Kit (Affymetrix). The biotin-labeled cRNA was further purified and fragmented using the Sample Cleanup Module (Affymetrix).
|
| |
|
| Hybridization protocol |
Fragmented cRNA were hybridized to an array (Mouse Genome 430 2.0 array, Affymetrix) at 45°C for 16 h.
|
| Scan protocol |
After hybridization, the gene chips were washed and stained using a GeneChip Fluidics Station 450 (Affymetrix) and then scanned (GeneChip Scanner; Affymetrix) with the GeneChip Operation Software Ver. 1.4 (Affymetrix).
|
| Description |
Gene expression data from liver after 20 week feeding of control AIN93G diet
|
| Data processing |
Data analysis was performed with a GeneChip Operating Software (Ver. 1.4) using Affymetrix default analysis settings and global scaling as normalization method..
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| |
|
| Submission date |
May 22, 2012 |
| Last update date |
Mar 22, 2017 |
| Contact name |
Masuko Kobori |
| E-mail(s) |
kobori@affrc.go.jp
|
| Organization name |
Food Research Institute, National Agriculture and Food Research Organization
|
| Street address |
2-1-13 Kannondai
|
| City |
Tsukuba |
| State/province |
Ibaraki |
| ZIP/Postal code |
305-8642 |
| Country |
Japan |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE38141 |
Chronic dietary intake of quercetin alleviates hepatic fat accumulation associated with consumption of a Western-style diet in C57/BL6J mice |
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