Can I use DNA affinity columns to purify CUT&RUN DNA for transcription factors?

Yes, we recommend using our DNA Purification Buffers and Spin Columns (for ChIP & CUT&RUN) #14209 for purifying CUT&RUN DNA, no matter its histone modifications, transcription factors, or cofactors. In our internal tests, our DNA spin columns effectively recovered DNA fragments greater than, or equal to, 35 bp. Considering >98% CUT&RUN DNA are proven to be longer than 35 bp in length, our DNA spin columns provide a simple, inexpensive, and robust method for purifying your CUT&RUN DNA fragments. Please note that not all DNA spin columns capture the same range of DNA fragment sizes, so if you use DNA spin columns from a different vendor, you will want to determine the minimum size of DNA fragment retained by those columns, as a higher fragment size cutoff can negatively impact your results.

Last updated: February 27, 2024