Assessing FFPE DNA Quality: the “Illumina FFPE QC Kit” Enables Quantitation of Improvements in FFPE DNA Extraction Technologies.
In this technical note, we used the Illumina FFPE QC kit (2) to assess the quality of DNA extracted from two different extraction technologies using four different types of FFPE samples. The QC Kit assay is qPCR-based and compares the amplificability of the extracted DNA to a reference template. For the TruSeq Amplicon – Cancer Panel, a ΔCq value below 2 is indicative of good DNA amplificability and predicts assay success with the TruSeq® Amplicon kit. We compared DNA extracted with the Covaris® truXTRAC™ FFPE DNA Kit to DNA extracted with the QIAamp® DNA FFPE Tissue Kit from paired FFPE tissue samples.