|
| Status |
Public on Oct 24, 2008 |
| Title |
cecal tumor, biological replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
cecal tumor, biological replicate 1
|
| Organism |
Mus musculus |
| Characteristics |
cecal tumor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Duodenal mouse tumors (including tumor tissue arising from the pyloris) and cecal tumors were excised with the aid of a Zeiss Stemi SV6 dissecting microscope, and immediately frozen in liquid nitrogen. RNA was extracted from three duodenal and three cecal tumors from six different individual mice, and was purified by using Qiagen RNeasy Kits, and analyzed at the Harvard Partners Center for Genetics and Genomics Microarray Facility. RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100.
|
| Label |
biotin
|
| Label protocol |
Affymetrix protocol
|
| |
|
| Hybridization protocol |
Affymetrix protocol
|
| Scan protocol |
GeneChips were scanned using Affymetrix GeneChip Model 3000 7G scanner with autoloader
|
| Description |
Gene expression data from cecal tumor.
|
| 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 500.
|
| |
|
| Submission date |
Oct 21, 2008 |
| Last update date |
Mar 18, 2009 |
| Contact name |
Dmitriy Sonkin |
| Organization name |
Novartis Institutes for BioMedical Research
|
| Street address |
250 Massachusetts Avenue
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
| |
|
| Platform ID |
GPL8321 |
| Series (1) |
| GSE13298 |
Rb1 deficient Apc1638N cecal tumors vs duodenal tumors |
|
