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Assessment of the performance of a hybridisation-based NGS enrichment panel with as little as 10 ng of severely formalin-compromised DNA

Jacqueline Chan, Juliette Forster, Aysel Heckel, Venu Pullabhatla, Dave Cook, Graham Speight
Oxford Gene Technology (OGT)

Introduction

Formalin-fixed, paraffin-embedded (FFPE) storage is a standard method for archiving samples from solid tumours. It ensures the preservation of the ultrastructure of tissues and prevents degradation through formation of chemical links between macromolecules, for example between and within DNA molecules. FFPE samples contain a wealth of information which can be used to study cancer development and progression. Next generation sequencing (NGS) offers the capability of unlocking this information through the simultaneous study of multiple types of mutations in cancer-associated genes for a number of applications1. However, formalin treatment can significantly compromise the quality and amount of nucleic acids available for genomics research. As such it is technically challenging to examine the true genetic complexity present in a sample.

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