|
| Status |
Public on Sep 18, 2016 |
| Title |
SD0044-Tumour-copy number 0 |
| Sample type |
RNA |
| |
|
| Source name |
Primary breast cancer
|
| Organism |
Homo sapiens |
| Characteristics |
gender: female
age (year): 68
Stage: 3c
t: 4
n: 3
m: 0
grade: 2
size (cm): 4
site: right
histology: intraductal carcinoma
germline apobec3b copy number: 0
|
| Treatment protocol |
fresh frozen
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction was conducted using QIAGEN AllPrep DNA/RNA Mini kit (QIAGEN, Hilden, Germany) according to the manufacturer’s instruction
|
| Label |
biotin
|
| Label protocol |
RNA from each sample (50ng) was used to generate biotinylated sense-strand cDNA using the GeneChip WT Plus Reagent Kit according to the manufacturer’s instruction (Affymetrix Inc., Santa Clara, CA)
|
| |
|
| Hybridization protocol |
cDNA were hybridized to GeneChip Human Transcriptome Array 2.0 at 45°, 60rpm for 16 hours. The arrays were washed and stained using the Fluidics Station 450 with GeneChip Hybridization Wash and Stain Kit according to the manufacturer’s instruction (Affymetrix Inc., Santa Clara, CA)
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000
|
| Data processing |
The data were analyzed with Affymetrix Expression Console Software using Affymetrix default analysis settings and robust multi-array average (SST-RMA) as normalization method
|
| |
|
| Submission date |
Sep 28, 2015 |
| Last update date |
Sep 18, 2016 |
| Contact name |
Wei Xiong Wen |
| E-mail(s) |
[email protected]
|
| Phone |
+60126631369
|
| Organization name |
Cancer Research Malaysia
|
| Department |
Breast Cancer Team
|
| Street address |
No. 1, Jalan SS12/1A
|
| City |
Subang Jaya |
| State/province |
Selangor |
| ZIP/Postal code |
47500 |
| Country |
Malaysia |
| |
|
| Platform ID |
GPL17586 |
| Series (1) |
|
