|
| Status |
Public on May 01, 2015 |
| Title |
yto013 |
| Sample type |
RNA |
| |
|
| Source name |
CPC mouse model
|
| Organism |
Mus musculus |
| Characteristics |
host strain: Female CD1 nude mouse
strain background (for tissue): FVB
genotype/variation (for tissue): Tp53/RB/Pten null
tissue class: reimplant
|
| Treatment protocol |
all samples are untreated tissues
|
| Growth protocol |
not applicable
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Isolation was performed using RNA STAT-60, according to the manufacturer's instructions. Briefly, tissue samples were homogenized in the STAT-60 using teflon homogenizers. Chloroform was added and the samples centrifuged. The upper layer (aqueous phase) was removed to a fresh tube and the RNA precipitated with isopropanol. Following centrifugation, the RNA pellet was washed once in 75% ethanol, then the air-dried pellet resuspended in DEPC-treated water.
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix Two-Cycle protocol from 100 ng of total RNA (Expression Analysis Technical Manual, 2005-2006, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 v2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 7G.
|
| Data processing |
The data were analyzed with Partek Genomics Suite (v.6.6) by the RMA algorithmn
|
| |
|
| Submission date |
Sep 23, 2014 |
| Last update date |
May 01, 2015 |
| Contact name |
David Finkelstein |
| E-mail(s) |
david.finkelstein@stjude.org
|
| Phone |
9014953931
|
| Organization name |
St Jude Children's Research Hospital
|
| Department |
Computational Biology
|
| Street address |
332 N. Lauderdale St.
|
| City |
Memphis |
| State/province |
TN |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE61659 |
Cross-species genomics identifies postanatal CPE as novel choroid plexus carcinoma oncogenes. |
|
