What are the main differences of running single-nucleus over single-cell sequencing?

While single cells provide more information (transcripts in the nucleus and the cytoplasm), sometimes they are difficult to isolate and process due to several factors (for instance, freezing tissues damages the integrity of the cell membrane and adipocytes are too light and large to be captured in the microwells). In these cases, it is beneficial to isolate single nuclei. In turn, some cell types might be more difficult to isolate, creating a bias towards the easy-to-isolate cells. Using single nucleus RNA seq, this bias is reduced.