|
| Status |
Public on Dec 31, 2016 |
| Title |
4569624013_E |
| Sample type |
RNA |
| |
|
| Source name |
melanoma
|
| Organism |
Homo sapiens |
| Characteristics |
gender: M
braf/nras/wt: WT
primary/metastatic: Metastatic
age at diagosis: 70.428474
age at death: 75.52635
overall survival (weeks): 266
solar elastosis score: 2
likely sun exposure score: 3
breslow depth: 8.5
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hematoxylin and eosin (H&E) stained slides for each block were examined to identify the area with the highest concentration of tumour tissue and minimal stromal and lymphocytic infiltration. A 2mm punch biopsy was taken through the block and de-paraffinised using xylene. RNA was extracted using Life Technologies RNA extraction kit as per manufacturer’s instructions.
|
| Label |
Streptavidin-Cy3
|
| Label protocol |
Whole genome gene expression analysis was performed using the FFPE optimised Illumina cDNA-mediated Annealing, Selection, extension, and Ligation (DASL) assay and WGGEX V3 beadarrays
|
| |
|
| Hybridization protocol |
Whole genome gene expression analysis was performed using the FFPE optimised Illumina cDNA-mediated Annealing, Selection, extension, and Ligation (DASL) assay and WGGEX V3 beadarrays
|
| Scan protocol |
Beadarrays were scanned and images acquired using an Illumina Bead Array Reader
|
| Description |
SAMPLE 85
|
| Data processing |
Data was cubic spline normalised using GenomeStudio V2011.1
|
| |
|
| Submission date |
Jul 16, 2014 |
| Last update date |
Dec 31, 2016 |
| Contact name |
Nikola Bowden |
| E-mail(s) |
nikola.bowden@newcastle.edu.au
|
| Organization name |
University of Newcastle
|
| Department |
School of Medicine and Public Health
|
| Lab |
DNA Repair
|
| Street address |
University Dr
|
| City |
Callaghan |
| State/province |
NSW |
| ZIP/Postal code |
2308 |
| Country |
Australia |
| |
|
| Platform ID |
GPL8432 |
| Series (1) |
| GSE59455 |
Whole genome expression data from formalin-fixed parrafin embedded (FFPE) primary and metastatic melanomas |
|
