|
| Status |
Public on Nov 04, 2013 |
| Title |
ad libitum chow, 24h, liver, biological replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
liver from C57BL/6 mice, ad libitum, 24h
|
| Organism |
Mus musculus |
| Characteristics |
gender: male
strain: C57Bl/6
age: 10-12 weeks
tissue: liver
|
| Treatment protocol |
Food was withdrawn from the fasting group (n=5) for 24 hours.
|
| Growth protocol |
mice were kept under standard conditions according to the institutional guidelines of the University of Pennsylvania. Mice were kept with normal chow diet in a 12h day/ 12h night cycle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 150ng total RNA.
|
| |
|
| Hybridization protocol |
Genechip hybridization, wash, stain and scan were performed using the GeneTitan hyb-wash-stain kit (Affymetrix) and GeneTitan Instrument.
|
| Scan protocol |
GeneTitan instrument was used for scanning.
|
| Description |
gene expression of liver of ad libitum fed male C57Bl/6 mice
|
| Data processing |
Raw array data were automatically collected by GeneTitan. Data were normalized using default RMA method within Partek Genomics Suite software. A two-way ANOVA model with an interaction term between diet (fed or fasted) and tissue (liver, skeletal muscle and white adipose tissue) was set up. Pairwise comparisons were made between fed and fasted diet for each tissue. The resulting p-values of significance were corrected for multiple testing using Benjamini-Hochberg's false discovery rate (FDR) method. Genes within 5% FDR and changed at least by 1.3-fold in either direction were called differentially expressed.
|
| |
|
| Submission date |
Apr 30, 2013 |
| Last update date |
Nov 04, 2013 |
| Contact name |
Andreas Prokesch |
| E-mail(s) |
andreas.prokesch@medunigraz.at
|
| Organization name |
Medical University Graz
|
| Department |
Institute of Cell Biology, Histology, and Embryology
|
| Street address |
Harrachgasse 21/7
|
| City |
Graz |
| State/province |
Styria |
| ZIP/Postal code |
8010 |
| Country |
Austria |
| |
|
| Platform ID |
GPL11533 |
| Series (1) |
| GSE46495 |
Transcriptome signature of white adipose tissue, liver, and skeletal muscle in 24 hours fasted mice (C57Bl/6J) |
|
