The OncoScan assay is a whole-genome copy number, microarray-based assay that is designed to detect relevant copy number variations (CNVs). The assay enables the generation of in-depth copy number data from as little as 80 nanograms of DNA per sample and is designed specifically for use with fixed-formalin paraffin-embedded (FFPE) samples. Chromosome Analysis Suite (ChAS), free software from Thermo Fisher Scientific, enables the user to analyze data in graphical and tabular formats.
A project consultation for the OncoScan Assay service line will determine which tiered-level offering can meet the investigator's needs:
- Tier 0. Array processing and assessment of data quality. Unedited OncoScan data files will be delivered to the investigator.
- Tier 1. Add data analysis to make CNV calls versus artifact and common CNV regions. Edited OncoScan data files will be delivered to the investigator with a report.
- Tier 2. Add comparison of CNV calls to known disease gene list to determine which genes have copy number changes and the mechanism for disease association. Edited OncoScan data files will be delivered to the investigator with a report.
- Tier 3. Add full analysis of genes of interest and literature search for disease association and review combined data set accordingly. Edited OncoScan data files generated by ChAS will be delivered to the investigator with a report.
The Biospecimens Accessioning and Processing Core can be utilized for DNA extraction from FFPE samples.