|
| Status |
Public on Dec 01, 2011 |
| Title |
Patient 3 |
| Sample type |
RNA |
| |
|
| Source name |
melanoma
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: metastatic melanoma tumor
|
| Growth protocol |
Melanoma metastases were collected from 82 patients attending the Newcastle Melanoma Unit. The melanomas were cleaned of surrounding tissue, cut into 2-3 mm fragments and stored in vials in liquid nitrogen. Written consent was given by the patients for collection of their samples. Melanocytes were cultured in Medium 154 (Cascade Biologics) and maintained in exponential growth at 37oC and 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol reagent (Invitrogen, VIC, Australia) and the RNeasy Kit (Qiagen, VIC, Australia) according to the manufacturers’ instructions.
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Data processing |
All samples were cubic spline normalised and background subtracted using GenomeStudio v2009.2 software (Illumina). Two-hundred and forty three probes, identified through literature and database searches to either be regulated by p53 or known to regulate p53 activity, were used for further analysis.
|
| |
|
| Submission date |
May 17, 2011 |
| Last update date |
Dec 01, 2011 |
| Contact name |
Kelly Kiejda |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Newcastle
|
| Street address |
HMRI
|
| City |
New Lambton Heights |
| State/province |
NSW |
| ZIP/Postal code |
2305 |
| Country |
Australia |
| |
|
| Platform ID |
GPL6104 |
| Series (2) |
| GSE29359 |
Analysis of p53 target genes in melanoma part 1 |
| GSE29377 |
Analysis of p53 target genes in melanoma |
|
