|
| Status |
Public on Feb 12, 2016 |
| Title |
VA145_NAF |
| Sample type |
genomic |
| |
|
| Source name |
VA145_NAF
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
sample type: NAF
cell type: NAF
cancer (ca) benign (b): B
patient: 25
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
tissue: For the preparation of cancer-associated fibroblasts (CAF) and benign/normal associated fibroblasts (NAF), de-identified prostate tissue samples were collected at Vanderbilt University under local IRB approval through the NCI-funded Cooperative Human Tissue Network. CAF and NAF were isolated from cancer and normal tissue respectively, as previously described (PMID:11719442). CAF activity was validated using a tissue recombination bioassay in which CAF or NAF were recombined with initiated reporter epithelium (BPH-1) and grafted to the renal capsule of severe combined immunodeficient (SCID) mice. Cells were classified as CAF if they demonstrated the ability to induce tumorigenesis (defined grossly and histologically) in the epithelial cells under these conditions. Cells from benign sources were also checked to confirm that they did not induce tumor growth.
Genomic DNA was extracted from cells using the QIAamp DNA mini kit (Qiagen, Inc.) according to the manufacturer’s instructions.
|
| Label |
c-bio; a-DNP
|
| Label protocol |
Standard Illumina Infinium HD protocol
|
| |
|
| Hybridization protocol |
Standard Illumina Infinium HD protocol
|
| Scan protocol |
Standard Illumina Infinium HD protocol
|
| Description |
VA145_benign/normal associated fibroblasts (NAF)
|
| Data processing |
Intensity data were extracted in Genome studio version 1.9.4
|
| |
|
| Submission date |
Dec 31, 2015 |
| Last update date |
Feb 13, 2016 |
| Contact name |
Ilsa Coleman |
| E-mail(s) |
icoleman@fredhutch.org
|
| Phone |
206-667-1703
|
| Organization name |
Fred Hutchinson Cancer Center
|
| Department |
Human Biology
|
| Lab |
Peter Nelson
|
| Street address |
1100 Fairview Ave N, E2-112
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL16333 |
| Series (1) |
| GSE76456 |
Cells Comprising the Prostate Cancer Microenvironment Lack Recurrent Clonal Somatic Genomic Aberrations |
|
