|
| Status |
Public on Sep 26, 2019 |
| Title |
breast_cancer_primary_sample_136 |
| Sample type |
RNA |
| |
|
| Source name |
FFPE breast cancer
|
| Organism |
Homo sapiens |
| Characteristics |
er_pos: 1
pgr_pos: 1
her2_pos: 0
grade: 3
systemic therapy: 0
menopause: 1
tumor size (millimeters): 11-20
age: >=70
Sex: female
|
| Extracted molecule |
total RNA |
| Extraction protocol |
After pathologic review, FFPE tissue was harvested with a 1 mm punch. RNA was extracted from tissue punches using the RNeasy FFPE kit (Qiagen, Hilden, Germany).
|
| Label |
biotin
|
| Label protocol |
cDNA was amplified using the Ovation FFPE WTA system (NuGEN, San Carlos, CA). Amplified cDNA was fragmented and labeled using the Encore Biotin Module (NuGEN, San Carlos, CA).
|
| |
|
| Hybridization protocol |
Samples were hybridized using Affymetrix hybridization kit materials and protocols
|
| Scan protocol |
Affymetrix GeneChip Scanner 3000 7G
|
| Description |
breast cancer primary tumor
|
| Data processing |
Data was normalized using SCAN (SCAN.UPC package from Bioconductor)
|
| |
|
| Submission date |
Aug 30, 2018 |
| Last update date |
Sep 28, 2019 |
| Contact name |
Laura Chang |
| Organization name |
PFS Genomics
|
| Street address |
1152 Mainland St, Suite 430
|
| City |
Vancouver |
| State/province |
BC |
| ZIP/Postal code |
V6B 4X2 |
| Country |
Canada |
| |
|
| Platform ID |
GPL22995 |
| Series (1) |
| GSE119295 |
Comprehensive transcriptomic profiling of breast cancer patients in SweBCG 91-RT |
|
