|
| Status |
Public on Nov 28, 2007 |
| Title |
Radiosensitive tumor-irradiated-rep3 |
| Sample type |
RNA |
| |
|
| Source name |
tumor xenografts in nude mice
|
| Organism |
Homo sapiens |
| Characteristics |
Squamous cell carcinoma
|
| Treatment protocol |
Tumors were excised, frozen in liquid nitrogen and stored at -80C
|
| Growth protocol |
SCC-61 and nu61 xenografts were generated and allowed to grow to a volume of 150-200 mm3. At that time,tumors were either irradiated at 3Gy or left un-treated and 5 hours later they were collected for RNA purification
|
| 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 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized on U133A Human GeneChip Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Agilent GeneArray Scanner
|
| Description |
Gene expression data from radiosensitive tumor, 5 hours after irradiation at 3Gy
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 700-800.
|
| |
|
| Submission date |
Nov 28, 2007 |
| Last update date |
Aug 14, 2011 |
| Contact name |
Nikolai N. Khodarev |
| E-mail(s) |
[email protected]
|
| Phone |
773-834-3282
|
| Fax |
773-702-1968
|
| Organization name |
The University of Chicago
|
| Department |
Radiation and Cellular Oncology
|
| Street address |
5841 South Maryland Avenue
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60637 |
| Country |
USA |
| |
|
| Platform ID |
GPL96 |
| Series (2) |
| GSE9712 |
Detection of genes differentially expressed in radioresistant tumors |
| GSE9716 |
Radioresistant and radiosensitive tumors and cell lines |
|
