|
| Status |
Public on Oct 06, 2014 |
| Title |
melanoma_AJCCstageIII_TumourID94 |
| Sample type |
RNA |
| |
|
| Source name |
melanoma lymph node, fresh frozen tissue (>80% tumor cell content, <30% necrosis)
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: lymph node
diagnosis: melanoma
patient age at primary dignosis (years): 84
patient sex: Female
patient age at stage iii sample banked (years): 87
survival from stage iii tumour banked (months): 75.39
survival from primary melanoma (months): 103.00
number of primary melanomas: 3
stage at primary diagnosis 5th edition: Stage II
patient last status: Dead Cause Unknown
|
| Growth protocol |
All the tumour tissues were stored in liquid nitrogen untill extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from fresh frozen tissues using the Roche High Pure miRNA Isolation kit (Cat No 05080576001, Roche Diagnostic, Indiana, IN, USA) in accordance with the manufacturer’s protocol. The quality and quantity of small RNAs present in the total RNA extract was assessed using an Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA).
|
| Label |
Cy3
|
| Label protocol |
100ng of total RNA was used. miRNAs were fluorescently labelled by lagation of one Cyanine 3-pCp molecule to the 3' end of a RNA molecule
|
| |
|
| Hybridization protocol |
Labelled material was hybridised to the arrays at 55C for 20hrs, rotating at 20rpm. Slides were washed with agilent wash buffers.
|
| Scan protocol |
Agilent High Resolution Scanner, G2505B was used. Agilent Feature Extractiob version 10.7.3.1. software was used for data extraction and protocol used by Fe software: miRNA 107 Sep09
|
| Data processing |
Data has been quantile normalised with no background subtraction.
|
| |
|
| Submission date |
Jul 11, 2014 |
| Last update date |
Oct 06, 2014 |
| Contact name |
Graham J. Mann |
| E-mail(s) |
graham.mann@sydney.edu.au
|
| Organization name |
Melanoma Institute Australia
|
| Street address |
Poche Centre, 40 Rocklands Road
|
| City |
North Sydney |
| State/province |
NSW |
| ZIP/Postal code |
2060 |
| Country |
Australia |
| |
|
| Platform ID |
GPL15018 |
| Series (1) |
| GSE59334 |
microRNA expression profiling and its integration with mRNA in metastatic melanoma reveal associations with BRAF mutation status and patient prognosis |
|
