The 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. See Figure 1 below for workflow details.
The NEBNext UltraShear™ FFPE DNA Library Prep Kit is the newest option for high-quality library preparation from FFPE-treated samples. This kit incorporates enzymatic fragmentation of FFPE DNA using NEBNext UltraShear, a new enzyme mix optimized for use with FFPE DNA that increases library yields and quality, while improving scalability and ease of use. The kit also repairs damage to DNA caused by the FFPE process and includes reagents and a protocol optimized for library prep of FFPE DNA. The workflow is streamlined and user-friendly, with minimal hands-on time, and the kit improves yields and quality of libraries from a range of FFPE DNA sample input (5-250 ng) and quality. See Figure 2 below for workflow details. NEBNext UltraShear is available as a standalone enzyme mix for enzymatic shearing that is compatible with FFPE DNA.
For FFPE samples for which enzymatic fragmentation is not desired, the NEBNext FFPE DNA Library Prep Kit is designed for pre-sheared FFPE DNA and improves yields and quality of libraries from a range of sample inputs (5-250 ng) and quality.
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 NEBNext FFPE DNA Repair V2 Module, NEBNext UltraShear FFPE DNA Library Prep Kit, and NEBNext FFPE DNA Library Prep Kit?|
|Deamination of cytosine to uracil||Yes|
|Nicks and gaps||Yes|
|Blocked 3´ ends||Yes|
- What is the difference between the NEBNext FFPE DNA Repair v2 Module (NEB #E7360) and the NEBNext FFPE DNA Repair Mix (NEB #M6630)?
- When working with fragmented DNA, will the ends be ligated together by the FFPE DNA Repair v2 Module?
- Can the FFPE DNA Repair v2 Mix repair damage in both single- and double-stranded DNA? Or, does it require double stranded DNA as a template?
- High Quality Automation Libraries Prepared from a Broad Range of DNA Input Amounts (2017)
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