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Can CUT&RUN enriched DNA be analyzed by qPCR, or do I have to do NGseq to analyze my data?

Our CUT&RUN Assay Kit #86652 is compatible with downstream qPCR analysis. The protocol with the kit provides instructions and reagents for generating an input DNA sample that can be used to quantify your CUT&RUN DNA by qPCR. For qPCR analysis of CUT&RUN DNA, we recommend designing primers that generate amplicons of 60 to 80 bp in length.