|
| Status |
Public on Jul 12, 2013 |
| Title |
Striatum XY male 9 |
| Sample type |
RNA |
| |
|
| Source name |
Striatum XY male
|
| Organism |
Mus musculus |
| Characteristics |
strain: MF1
age: 152 days
tissue: Striatum
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from the striatum using Qiagen AllPrep DNA/RNA Mini Kit (catalog no. 80204).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared by the UCLA Neuroscience Genomics Core.
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
Biological Replicate 9, Batch 2
XYSry_1b
|
| Data processing |
Microarray data were processed using the statistical software program R (http://www.r-project.org/). Data were first background corrected using the nec function in the limma package (W. Shi, Oshlack, & Smyth, 2010). Probes with low-quality data (detection p-value of >0.05 in more than a third of the samples) were then removed from the dataset. Next, batch effects were corrected using the ComBat R script and the data underwent quantile normalization and log2 transformation using the limma package (Johnson, Li, & Rabinovic, 2007).
|
| |
|
| Submission date |
Jul 11, 2013 |
| Last update date |
Jul 12, 2013 |
| Contact name |
Tuck Cheong Ngun |
| E-mail(s) |
tuckngun@g.ucla.edu
|
| Phone |
310-267-2456
|
| Organization name |
UCLA
|
| Department |
Human Genetics
|
| Lab |
Vilain Lab
|
| Street address |
695 Charles E Young Dr S Gonda 5524
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE48784 |
Feminized behavior and gene expression in the striatum in a novel mouse model of Klinefelter Syndrome |
|
