The collection and storage of formalin-fixed, paraffin-embedded (FFPE) clinical samples is a standard procedure in hospitals worldwide and represent an invaluable resource for retrospective analyses. To breakdown and identify molecular correlations between, e.g., carcinogenesis, patient treatment, and disease outcomes, the purification of substantial amounts of high quality DNA is essential.
However, there are several issues in using FFPE material for subsequent downstream molecular applications. The fixation process leads to cross-linked nucleic acids resulting in severe fragmentations. Moreover, FFPE extraction protocols often involve tedious manual steps and hazardous chemicals such as xylene.
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