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Array Comparative Genomic Hybridization Array CGH for Detection of Genomic Copy Number Variants
Published on: February 21, 2015
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Streamlining the OncoScan® Array Procedure for Use in a Clinical Laboratory
Christian N Paxton1, Leslie R Rowe1, Sarah T South1
1ARUP Institute for Clinical and Experimental Pathology®, Salt Lake City, UT.
Journal of the Association of Genetic Technologists
|July 28, 2015
Summary
This study optimized the OncoScan® assay for clinical labs. Modifications to the protocol maintained assay performance for detecting copy number changes (CNCs) and loss of heterozygosity (LOH).
Area of Science:
- Molecular Diagnostics
- Genomic Analysis
- Clinical Laboratory Science
Background:
- Microarray analysis is crucial for detecting copy number changes (CNCs) and loss of heterozygosity (LOH) in clinical settings.
- The OncoScan® array is a tool for identifying CNCs and LOH in formalin-fixed paraffin-embedded oncology samples.
Purpose of the Study:
- To identify modifications to the OncoScan® procedure for improved efficiency and user-friendliness in clinical laboratories.
- To evaluate the performance of a modified OncoScan® protocol compared to the manufacturer's standard protocol.
Main Methods:
- Eighteen oncology samples were reprocessed using a modified OncoScan® protocol.
- Key modifications included eliminating a "chill and spin" step and adjusting overnight hybridization temperature for simultaneous OncoScan® and CytoScan® array hybridization.
Main Results:
- The modified protocol yielded comparable quality control metrics and diagnostic calls to the manufacturer-recommended protocol.
- Paired sample analysis demonstrated equivalent performance between the standard and modified OncoScan® protocols.
Conclusions:
- The optimized OncoScan® protocol is a viable alternative for clinical laboratories.
- Modifications enhance efficiency and technician-friendliness without compromising diagnostic accuracy for CNCs and LOH detection.
