|
| Status |
Public on Apr 03, 2008 |
| Title |
cancer_epithelial_rep28 |
| Sample type |
RNA |
| |
|
| Source name |
invasive breast cancer, tumor epithelium
|
| Organism |
Homo sapiens |
| Characteristics |
tumor epithelium from breast cancer patient
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Arcturus Picopure kit (Arcturus Engineering) following manufacturer's protocol for laser captured frozen tissue. The DNase step was ommitted to prevent unnecessary losses of the limited RNA.
|
| Label |
Biotin
|
| Label protocol |
Target preparation was accomplished using NuGen Ribo-SPIA Ovation Technology with a 10 minute increase in the incubation time for the first strand cDNA synthesis reaction and SPIA amplification step in order to generate enough products for the Affymetrix HG U133A 2.0 GeneChip.
|
| |
|
| Hybridization protocol |
Standard Affymetrix protocols were used at 45°C, for 16h, at 60 rpm
|
| Scan protocol |
Standard Affmetrix protocols were followed using GS300.
|
| Description |
Our objective was to analyze transcriptome differences between stromal and epithelial cells in normal breast tissue and invasive breast cancer to define the role stroma plays in invasion.
|
| Data processing |
Robust Multi-array Average (RMA)
|
| |
|
| Submission date |
Mar 12, 2008 |
| Last update date |
Apr 03, 2008 |
| Contact name |
Jeffrey P Bond |
| Organization name |
University of Vermont
|
| Department |
Microbiology and Molecular Genetics
|
| Street address |
95 Carrigan Dri e
|
| City |
Burlington |
| State/province |
VT |
| ZIP/Postal code |
05405 |
| Country |
USA |
| |
|
| Platform ID |
GPL571 |
| Series (1) |
| GSE10797 |
Transcriptomes of breast epithelium and stroma in normal reduction mammoplasty and invasive breast cancer patients. |
|
