Automating FFPE Samples from Extraction to NGS Library Preparation
While formalin-fixed, paraffin-embedded (FFPE) archival samples possess great potential for understanding the differences of gene expression between diseased and normal or baseline tissue samples, the extraction of high-quality DNA is often difficult and suffers from low yields due to partially degraded and limited genomic material. Building on our established automation and applications expertise across the genomics workflow, we describe an automated workflow partnering with Covaris®, Inc. to prepare NGS libraries from FFPE tissues samples (Figure 1).
In this application note, we demonstrate an automated, high-throughput workflow that encompasses DNA extraction, purification, sample quality assessment, and subsequent library preparation designed to minimize process variability, while increasing and standardizing yields for next-generation sequencing (NGS) library preparation. The increased efficiency resulting from this automated process, lowers the barrier towards implementation where increased sample throughput for NGS library preparation from input FFPE samples is required.