|
| Status |
Public on Apr 24, 2014 |
| Title |
breast_primary_MGH153 |
| Sample type |
RNA |
| |
|
| Source name |
primary breast tumor
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: nonmetastatic breast cancer
tissue: primary breast tumor
er status: ER+
her2 status: Her2+
age: 46 yr
|
| Treatment protocol |
The 19 HER2+ breast cancer brain metastatic specimens were fresh-frozen biopsies obtained from the M.D. Anderson Cancer Center between 1998 and 2001. The HER2+ primary breast cancer specimens were fresh-frozen biopsies obtained from the Massachusetts General Hospital in 2006.
|
| Growth protocol |
Not applicable.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
4,000–5,000 malignant epithelial cells were procured by laser capture microdissection using a PixCell IIe system (Molecular Devices, Mountain View, CA, USA) as described in PubMed ID: 19187537. Total RNA was isolated from captured cells using the PicoPure RNA isolation kit (Molecular Devices), then amplified by T7 RNA amplification (RiboAmp; Molecular Devices).
|
| Label |
biotin
|
| Label protocol |
According to manufacturer's instructions (Affymetrix, Santa Clara, CA, USA).
|
| |
|
| Hybridization protocol |
According to manufacturer's instructions (Affymetrix, Santa Clara, CA, USA).
|
| Scan protocol |
According to manufacturer's instructions (Affymetrix, Santa Clara, CA, USA). The scanner model used to scan the arrays was an Affymetrix GeneChip Scanner 3000-7G.
|
| Description |
MGH153
|
| Data processing |
MAS5.0 as implemented by Bioconductor package simpleaffy, version 2.14.05.
|
| |
|
| Submission date |
Jan 28, 2013 |
| Last update date |
Apr 24, 2014 |
| Contact name |
Ben S. Wittner |
| E-mail(s) |
wittner.ben@mgh.harvard.edu
|
| Organization name |
Massachusetts General Hospital
|
| Department |
Center for Cancer Research
|
| Lab |
Lawrence
|
| Street address |
149 13th Street
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02129 |
| Country |
USA |
| |
|
| Platform ID |
GPL1352 |
| Series (1) |
| GSE43837 |
A BRCA1 Deficient-Like Signature is Enriched in Breast Cancer Brain Metastases |
|
