|
| Status |
Public on Apr 01, 2013 |
| Title |
Liver_LPS-control_2 |
| Sample type |
RNA |
| |
|
| Source name |
mouse liver
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
age: 2.5 months
tissue: liver
paradigm: water
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using mirVana™ miRNA Isolation kit, followed by DNase treatment with Turbo DNA-free™ according to the protocol supplied by the manufacturer (Ambion, Austin, TX). Quality control was performed with the Agilent Bioanalyzer.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNAs were prepared with the Illumina® TotalPrep™ RNA Amplification kit from Ambion.
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
Replicate 2
|
| Data processing |
The R package Lumi was used to transform and normalize the data using variance stabilization transformation and quantile normalization. Only genes with a detection p value ≤ 0.05 and present on ≥ 80% of arrays are included in the normalized data.
Expression value outliers were identified with Grubbs' test and removed.
|
| |
|
| Submission date |
Dec 06, 2012 |
| Last update date |
Apr 01, 2013 |
| Contact name |
Elizabeth Osterndorff-Kahanek |
| Organization name |
University of Texas at Austin
|
| Street address |
2500 Speedway
|
| City |
Austin |
| State/province |
TX |
| ZIP/Postal code |
78712 |
| Country |
USA |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE42789 |
Gene expression in brain and liver produced by three different regimens of alcohol consumption in mice: Comparison with immune activation |
|
