|
Status |
Public on Apr 24, 2014 |
Title |
breast_primary_MGH482 |
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: 66 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 |
MGH482
|
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 |
|