Do you recommend performing size selection of the DNA during the library preparation for CUT&Tag experiments?

No, we don't recommend performing size selection during the library purification for CUT&Tag. Based on our experience and feedback from customers, size selection can significantly decrease both the yield and diversity of the DNA library. This is extremely detrimental for CUT&Tag libraries due to the typical yield of the CUT&Tag assay.

If you are concerned that large background DNA fragments (> 1 kb) will negatively impact next-generation sequencing (NGS), then simply decrease the extension time when amplifying the tagmented DNA during library preparation. We find that reducing the extension time to 10-15 seconds greatly reduces the amplification of large fragments (> 1kb), while still being sufficient for the amplification of smaller and more desirable DNA fragments during the CUT&Tag library preparation.

Last updated: September 12, 2024