|
| Status |
Public on Apr 19, 2010 |
| Title |
Stage II colorectal cancer tissue samples 31 (expr) |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
colorectal cancer
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: colorectal cancer
tumor stage: stage II
|
| Extracted molecule |
total RNA |
| Extraction protocol |
DNA isolation protocol according to Ambion Inc., Austin, Texas, USA
|
| Label |
Cy3
|
| Label protocol |
DNA labeling protocol available via www.agilent.com
|
| |
|
| Channel 2 |
| Source name |
universal human reference RNA, Stratagene
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: comprised of 10 cell lines for human giving broad gene coverage
|
| Extracted molecule |
total RNA |
| Extraction protocol |
DNA isolation protocol according to Ambion Inc., Austin, Texas, USA
|
| Label |
Cy5
|
| Label protocol |
DNA labeling protocol available via www.agilent.com
|
| |
|
| |
| Hybridization protocol |
Hybridization protocol available via www.agilent.com
|
| Scan protocol |
Slides were scanned using the Agilent microarray scanner version G2505B, protocol according to Agilent scanner and feature extraction version A.7.5.1
|
| Data processing |
The R-package LIMMA was used for background correction according to the Edward method and within array Lowess and between array quantile normalization according to Smyth and Speed.
|
| |
|
| Submission date |
Mar 12, 2010 |
| Last update date |
Apr 19, 2010 |
| Contact name |
Daoud Sie |
| E-mail(s) |
[email protected]
|
| Phone |
+31 20 4442428
|
| Organization name |
Vrije Universiteit Medical Center
|
| Department |
Pathology
|
| Lab |
Microarray Core Facility
|
| Street address |
De Boelelaan 1117
|
| City |
Amsterdam |
| ZIP/Postal code |
1081 HV |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL6848 |
| Series (1) |
| GSE17047 |
Candidate driver genes in focal chromosomal aberrations of stage II colon cancer |
|
