|
| Status |
Public on Apr 07, 2016 |
| Title |
mouse melanoma 1004 |
| Sample type |
RNA |
| |
|
| Source name |
mouse melanoma
|
| Organism |
Mus musculus |
| Characteristics |
strain: iBIP
tissue: macrodissected frozen tumor
days off dox: 3
|
| Treatment protocol |
Tumors were harvested from iBIP mice. Skin was trimmed off of the tumors and a small piece (10-50mg) of tumor parenchyma was placed into RNA Later preservation reagent, refrigerated overnight at 4oC, then stored at -80oC. Samples were later placed into Trizol after minimal thawing and homogenized using a hand-held electric tissue homogenizer.
|
| Growth protocol |
iBIP mice developed melanomas and dox was withdrawan from the water for the specified number of days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on a GeneChip Mouse Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
|
| Description |
cDNA from total mRNA isolated by Trizol from macrodissected frozen tumor
|
| Data processing |
Raw image files were converted to probe set data (.cel files) in Microarray Suite (MAS 5.0). The 18 probe set data files were normalized together, and expression values were determined, using the Robust Multi-chip Average (RMA) method as implemented in RMAExpress (Bolstad/Berkeley).
|
| |
|
| Submission date |
Apr 06, 2016 |
| Last update date |
Apr 07, 2016 |
| Contact name |
Lawrence N Kwong |
| E-mail(s) |
[email protected]
|
| Organization name |
UT MD Anderson Cancer Center
|
| Street address |
1901 East Rd
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77054 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE79972 |
BRAF expression in a mouse melanoma model |
|
