|
| Status |
Public on Aug 24, 2014 |
| Title |
Olig1-Gnas-2 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Olig1-Gnas-2
|
| Organism |
Mus musculus |
| Characteristics |
tissue: cerebellum
genotype/variation: Olig1Cre+/-,Gnaslox/lox (Olig1-Gnas)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
We isolated genomic DNAs from the cerebellum of adult wildtype mice and tumor tissue from individual GFAP-Gnas or Olig1-Gnas mutants (n = 3 for each genotype) using a DNA preparation kit (Zymo Inc.)
|
| Label |
cy3
|
| Label protocol |
not provided
|
| |
|
| Channel 2 |
| Source name |
Olig1-Gnas-2-Ctrl
|
| Organism |
Mus musculus |
| Characteristics |
tissue: cerebellum
genotype/variation: WT
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
We isolated genomic DNAs from the cerebellum of adult wildtype mice and tumor tissue from individual GFAP-Gnas or Olig1-Gnas mutants (n = 3 for each genotype) using a DNA preparation kit (Zymo Inc.)
|
| Label |
Cy5
|
| Label protocol |
not provided
|
| |
|
| |
| Hybridization protocol |
DNA were hybridized on aCGH arrays (Nimblegen, Mouse CGH 3x720K Whole-Genome Tiling Array) according to the manufacturer’s protocol.
|
| Scan protocol |
not provided
|
| Data processing |
Data from the aCGH arrays were analyzed using the Nexus aCGH software with recommended normalization settings.
Each sample was compared to a distributed baseline to identify amplified and deleted regions using a segmentation algorithm within Nexus Suite using a cutoff with gain (≥ 0.23) and loss (≤ –0.5) and significance threshold = 1.0E–5. Segments showing copy number variation were only reported if they occurred in list those regions of gain or loss with an individual False Discovery Rate (FDR) no greater than 5%.
|
| |
|
| Submission date |
Aug 14, 2014 |
| Last update date |
Aug 24, 2014 |
| Contact name |
Richard Lu |
| Organization name |
Cincinnati Children's Hospital Medical Center
|
| Department |
CBDI
|
| Lab |
Lu Lab,T6.525
|
| Street address |
3333 Burnet Ave
|
| City |
Cincinnati |
| State/province |
OH |
| ZIP/Postal code |
45229 |
| Country |
USA |
| |
|
| Platform ID |
GPL10989 |
| Series (2) |
| GSE53248 |
The G-protein Alpha Subunit Gsα Is A Tumor Suppressor In Sonic Hedgehog-driven Medulloblastoma |
| GSE60416 |
The G-protein Alpha Subunit Gsα Is A Tumor Suppressor In Sonic Hedgehog-driven Medulloblastoma [Copy number analysis] |
|
