What is the expected size distribution of CUT&RUN DNA?

When using antibodies for CUT&RUN against histone modifications, we typically see fragment sizes as small as 150 bp (size of a mono-nucleosome) and quite often see a nucleosomal ladder of DNA fragment sizes (i.e. 150, 300, 450, 600 bp). When using antibodies against transcription factors, we see a range of DNA fragment sizes, with the majority being greater than 35 bp.

Last updated: May 5, 2023