|
| Status |
Public on Sep 22, 2010 |
| Title |
204714 DFI<100 |
| Sample type |
RNA |
| |
|
| Source name |
Canine primary tumor from poor responder cohort
|
| Organism |
Canis lupus familiaris |
| Characteristics |
tissue: snap frozen primary tumor
genotype(breed): Greyhound
age (years): 8
|
| Growth protocol |
Primary tumor collected at time of limb amputation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA followed by Qiagen Rneasy cleanup was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
One-Cycle Target Labeling and Control Reagents package (Affymetrix, Santa Clara, CA, USA) was used to synthesize cDNA from total RNA spiked with prokaryotic Poly-A RNA as a control. The Sample Cleanup Module (Affymetrix, Santa Clara, CA, USA) was used to purify the cDNA which was then used for synthesis of biotin-labeled cRNA.
|
| |
|
| Hybridization protocol |
cRNA was purified, quantified and fragmented before hybridization with the GeneChips. Hybridized chips were washed, stained using streptavidin-conjugated phycoerythrin dye (Invitrogen, Carlsbad, CA, USA) and enhanced with biotinylated goat anti-streptavidin antibody (Vector Laboratories, Burlingame, CA, USA) using an Affymetrix GeneChip Fluidics Station 450.
|
| Scan protocol |
The Affymetrix GeneChip scanner 3000 was used to acquire images.
|
| Description |
Gene expression data from primary tumor
|
| Data processing |
The data were analyzed with Expression Console (PLIER).
|
| |
|
| Submission date |
Sep 21, 2010 |
| Last update date |
Sep 21, 2010 |
| Contact name |
Liza Emily O'Donoghue |
| E-mail(s) |
lpfaff@rams.colostate.edu
|
| Phone |
7739836434
|
| Organization name |
Colorado State University
|
| Department |
Clinical Sciences
|
| Lab |
Duval
|
| Street address |
300 W. Drake Rd
|
| City |
Fort Collins |
| State/province |
CO |
| ZIP/Postal code |
80523 |
| Country |
USA |
| |
|
| Platform ID |
GPL3738 |
| Series (1) |
| GSE24251 |
Expression data from canine osteosarcoma primary tumors (Affymetrix Canine 2.0 array) |
|
