|
| Status |
Public on Jul 01, 2008 |
| Title |
BC6005wdh: Mainz_N0_untreated_frozen _005 |
| Sample type |
RNA |
| |
|
| Source name |
primary breast cancer tissue
|
| Organism |
Homo sapiens |
| Characteristics |
storage: fresh frozen
node: 0
grade: 2
size_in_cm: 2.4
t.dmfs: 103
e.dmfs: 0
clinic: Mainz
|
| Treatment protocol |
For all tumors, samples were snap frozen and stored at -80°C. Tumor cell content exceeded 40% in all samples
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Approximately 50 mg of frozen breast tumor tissue was crushed in liquid nitrogen. RLT-Buffer was added and the homogenate was centrifuged through a QIAshredder column (QIAGEN, Hilden, Germany). RNeasy extraction (QIAGEN) of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Starting from 5 µg total RNA, labeled cRNA was prepared using the Roche Microarray cDNA Synthesis, Microarray RNA Target Synthesis (T7) and Microarray Target Purification Kit, according to the manufacturer’s instructions
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133a 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 |
Gene expression data from primary breast tumors
|
| 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 |
Apr 17, 2008 |
| Last update date |
Sep 21, 2020 |
| Contact name |
Mathias Gehrmann |
| E-mail(s) |
mathias.gehrmann@bayer.com
|
| Phone |
+49-214-30-49539
|
| Fax |
+49-214-30-50698
|
| Organization name |
Bayer Technology Services GmbH
|
| Department |
BTS-PT-AS-AT
|
| Street address |
Kaiser-Wilhelm-Allee
|
| City |
Leverkusen |
| ZIP/Postal code |
51368 |
| Country |
Germany |
| |
|
| Platform ID |
GPL96 |
| Series (1) |
| GSE11121 |
The humoral immune system has a key prognostic impact in node-negative breast cancer |
|
| Relations |
| Reanalyzed by |
GSE47561 |
| Reanalyzed by |
GSM4797016 |
