|
| Status |
Public on Dec 31, 2019 |
| Title |
Liver of 6-week cellulose-fed mouse, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
8-week old male C57BL/6J mouse fed on cellulose diet for 6 weeks
|
| Organism |
Mus musculus |
| Characteristics |
starting age: 8-week old
gender: male
strain: C57BL/6J
organ: Liver
diet: 4% cellulose in a special diet (Yeh and Yeh, 1994)
|
| Treatment protocol |
Garlic bulbs (husk free) were homogenized with a food processor, lyophilized, ground into dry powder in a mortar with pestle and stored at -20 C until use. Mice were fed (ad libitum) a diet containing 20/ vitamin free casein, 10% sucrose, 53.95% cornstarch, 7% soybean oil, 3.5% AIN93 regular mineal mix, 1% AIN93G vitamin mix, 0.25% choline bitartrate (41.1% choline), 0.3% L-cysteine with the adition of 4% cellulose (Control diet) or 4% lyophilized raw garlic powder (Garlic diet). At the end of 6 and 10-week treatment periods, mice were sacrifificed by cervical dislocation to collect livers, which were snap-frozen in liquid nitrogen for storage at -80C until use.
|
| Growth protocol |
8-week old mice were divided into two groups and maintained at a non-barrier facility of Institute of Biomedical Sciences, Taipei, Taiwan, ROC.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from the frozen liver tissues using Qiagen RNeasy Midi Kit according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (GeneChip Expression Analysis Technical Manual rev5, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 11 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 with EukGE_2v5-450 protocol.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 7G.
|
| Description |
Gene expression data from liver of mice fed on cellulose for 6 weeks
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings. The trimmed mean target intensity of each array was arbitrarily set to 500.
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| |
|
| Submission date |
Jan 29, 2010 |
| Last update date |
Dec 31, 2019 |
| Contact name |
Bunyamin Akgul |
| E-mail(s) |
bunyaminakgul@iyte.edu.tr
|
| Organization name |
Izmir Institute of Technology
|
| Department |
Molecular Biology and Genetics
|
| Lab |
Non-coding
|
| Street address |
Gulbahcekoyu
|
| City |
Urla |
| State/province |
izmir |
| ZIP/Postal code |
35430 |
| Country |
Turkey |
| |
|
| Platform ID |
GPL339 |
| Series (1) |
| GSE20093 |
Expression data from livers of 6 and 10-weeks garlic-fed mice |
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