|
| Status |
Public on Mar 06, 2009 |
| Title |
Breast Cancer_Pre-Treatment_Patient 104 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
patient germline DNA
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: whole blood or cell pellets
|
| Treatment protocol |
Samples were taken from patients prior to treatment.
|
| Growth protocol |
Tissue biopsies were frozen in oct and stored in liquid nitrogen.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated using Qiagen DNA Isolation kits.
|
| Label |
Cy3
|
| Label protocol |
Agilent Genomic DNA Labeling kit.
|
| |
|
| Channel 2 |
| Source name |
DNA from patient breast biopsy
|
| Organism |
Homo sapiens |
| Characteristics |
disease: breast cancer
tissue: breast
tumor cellularity: at least 70%
storage: oct embedded
|
| Treatment protocol |
Samples were taken from patients prior to treatment.
|
| Growth protocol |
Tissue biopsies were frozen in oct and stored in liquid nitrogen.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated using Qiagen DNA Isolation kits.
|
| Label |
Cy5
|
| Label protocol |
Agilent Genomic DNA Labeling kit.
|
| |
|
| |
| Hybridization protocol |
Agilent Direct Method.
|
| Scan protocol |
Agilent Scan Control Software.
|
| Description |
104B
|
| Data processing |
A process control algorithm was used to flag log cgh probe ratios and calculate Z' scores. Z' scores >=2 were used to identify probable copy gains and Z' scores <= -2 were used to identify probable copy loss. Z' scores for the genes of interest are available on the Series record.
|
| |
|
| Submission date |
Mar 05, 2009 |
| Last update date |
Dec 26, 2023 |
| Contact name |
Cynthia Ma |
| E-mail(s) |
cynthiaxma@wustl.edu
|
| Phone |
3143628903
|
| Organization name |
Washington University
|
| Department |
Medical Oncology
|
| Lab |
Dr. Cynthia Ma Lab
|
| Street address |
4515 Mckinley, 4515 Mckinley
|
| City |
st louis |
| State/province |
Missouri |
| ZIP/Postal code |
63627 |
| Country |
USA |
| |
|
| Platform ID |
GPL4091 |
| Series (2) |
| GSE15130 |
PIK3CB aCGH Patient Results |
| GSE15134 |
PI3K inhibition in ER+ breast cancer microarray data |
|
