A Comparison of Active and Passive FFPE DNA Extraction Methods and Effects on Downstream Analysis Metrics
Formalin Fixation and Paraffin Embedding (FFPE) has been a mainstay of histology for over a century and remains a routine oncology practice due to the quality and stability of structural information preserved. However, the method was conceived primarily to facilitate microscopic analysis rather than molecular approaches such as targeted sequencing and whole genome sequencing which is becoming increasingly common in clinical settings. Chemical crosslinks, dehydrated tissue, and the paraffin matrix of FFPEpreserved samples present significant challenges for the robust extraction of Next Generation Sequencing (NGS) quality DNA. Data presented here illustrate that Covaris truXTRAC™ FFPE DNA Kit combined with Adaptive Focused Acoustics technology (AFA™) is a uniquely effective method to take full advantage of the wealth of information contained in FFPE tissue samples.