|
| Status |
Public on Dec 31, 2013 |
| Title |
mbAir16 |
| Sample type |
RNA |
| |
|
| Source name |
Midbrain, Air-2BC
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Midbrain
gender: Male
strain: C57BL/6J
treatment: CIE-2BC air-exposed matched controls
|
| Treatment protocol |
Mice subjected to a Chronic Intermittent Ethanol, and tested for Two-Bottle Choice drinking, as described by Finn et al. (2007) Alcoholism, clinical and experimental research 31: 939–949.
|
| Growth protocol |
Male C57BL/6J mice were acclimated to a reverse light cycle (6:00 am lights off, 6:00 pm lights on) for 21 days, food and water were available ad libitum throughout testing, and mice were group housed before the treatment.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from CTX and MB by using the mirVana PARIS kit (Life Technologies).
|
| Label |
Cy3
|
| Label protocol |
Samples were labeled with Cy3, while the red channel was used for quality control and reference purposes
|
| |
|
| Hybridization protocol |
Standard Exiqon protocol.
|
| Scan protocol |
Images were analyzed using Imagene 8.0 (BioDiscovery, Hawthorne, CA).
|
| Description |
Samples were labeled with Cy3 (green), while the Cy5 (red) channel was used for quality control and reference purposes (Ambion Human Panel)
SAMPLE 40
A16
|
| Data processing |
MiRNA microarray data analysis was implemented in R environment using the Linear Models for Microarray Data (LIMMA) package from Bioconductor (http://www.bioconductor.org). For each miRNA, a median was calculated from the intensity values of four replicates. Data were fitted into a linear model with an appropriate design matrix. Statistical differences between groups were calculated using an empirical Bayesian approach. False discovery rate (FDR) was assessed using the method of Benjamini and Hochberg
|
| |
|
| Submission date |
Jul 08, 2013 |
| Last update date |
Dec 31, 2013 |
| Contact name |
Giorgio Gorini |
| Organization name |
The University of Texas at Austin
|
| Department |
Waggoner Center for Alcohol and Addiction Research
|
| Lab |
Harris / Mayfield
|
| Street address |
2500 Speedway A4800
|
| City |
Austin |
| State/province |
TX |
| ZIP/Postal code |
78712 |
| Country |
USA |
| |
|
| Platform ID |
GPL17411 |
| Series (1) |
| GSE48576 |
microRNA Expression based, Effects of Chronic Intermittent Ethanol paradigm on mouse brain |
|
