|
| Status |
Public on Nov 22, 2013 |
| Title |
LRRK2-4mo-Striatum-KO-A-(MoGene-1.0-st-v1) |
| Sample type |
RNA |
| |
|
| Source name |
LRRK2 knockout_4 months
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6
age: 4 months
genotype/variation: LRRK2 knockout
tissue: striatum
|
| Treatment protocol |
Four month-old mice were sacrificed under anaesthesia. The striatum was isolated and snap-frozen until use.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Total RNA (200 ng per sample) was labeled using the Affymetrix GeneChip® cDNA Synthesis and Amplification Kit protocol and hybridized to the arrays as described by the manufacturer
|
| |
|
| Hybridization protocol |
The cRNA hybridization cocktail was incubated overnight at 45°C while rotating in a hybridization oven. After 16 hours of hybridization, the cocktail was removed and the arrays were washed and stained in an Affymetrix GeneChip fluidics station 450, according to the Affymetrix-recommended protocol
|
| Scan protocol |
The arrays were scanned using the Affymetrix GCS 3000 7G and the Gene-Chip Operating Software
|
| Description |
SAMPLE 1 (KO 4mo)
gene expression analysis from striatum
|
| Data processing |
Microarray data was processed using default RMA normalization (Partek v6.6, Partek Inc. St. Louis, Missouri). Differences across genotypes were compared using analysis of variance and unpaired t-test to look for differences between specific genotypes. For detecting differentially expressed genes or microRNAs, the multiple-test correction of p-value was performed by using the positive false discovery rate (FDR) and genes were filtered by a given q-value threshold
|
| |
|
| Submission date |
Nov 21, 2013 |
| Last update date |
Nov 22, 2013 |
| Contact name |
Sebastien Hebert |
| E-mail(s) |
[email protected]
|
| Organization name |
Lavay University
|
| Department |
Medecine
|
| Street address |
2705 Boul Laurier, Centre de recherche du CHU de Quebec
|
| City |
Quebec |
| State/province |
QC |
| ZIP/Postal code |
G1V4G2 |
| Country |
Canada |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE52584 |
Gene and microRNA transcriptome analysis of Parkinson's related LRRK2 mouse models |
|
