FFPE DNA Repair

Archiving of clinical materials as Formalin-Fixed, Paraffin-Embedded (FFPE) samples is a common practice. However, the methods used for fixation and storage severely damage the nucleic acids from these samples. Additionally, FFPE DNA samples are often available in only very small amounts (e.g., a microns-thick tissue section or a region of interest from a laser-capture microdissection). As a result, it can be challenging to construct high quality libraries in sufficient quantity to achieve good sequence data at the desired depth of coverage. FFPE DNA repair is an essential step towards obtaining high-quality libraries from formalin fixed cells and tissues. 
 
The new NEBNext® FFPE DNA Repair V2 Module improves FFPE DNA repair through an optimized combination of enzymes, designed to be used upstream of NGS library prep for the repair of several of the most common types of damage caused by FFPE treatment. The latest version, “V2”, offers higher repair efficiency and a more streamlined workflow than the original NEBNext FFPE DNA Repair Mix. 
 

Table 1: Types of FFPE DNA damage and their ability to be repaired by the NEBNext FFPE DNA Repair v2 Module

FFPE DAMAGE TYPE REPAIRED BY THE FFPE DNA REPAIR v2 MODULE
Deamination of cytosine to uracil Yes
Nicks and gaps Yes
Oxidized bases Yes
Blocked 3´ ends Yes
DNA fragmentation No
DNA-protein crosslinks No


Figure 1: Workflow demonstrating the use of the NEBNext FFPE DNA Repair v2 Module with the NEBNext Ultra™ II DNA Library Prep Kit for Illumina®




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FFPE DNA Repair

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This product is intended for research purposes only. This product is not intended to be used for therapeutic or diagnostic purposes in humans or animals.


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