Question: Which nuclei isolation protocol should I use for the Single Cell ATAC assay?
Answer: The following flow chart has our recommended starting points for isolating nuclei from different sample types:
The protocols are linked here:
- Chromium Nuclei Isolation Kit Sample Prep User Guide (CG000505) and Chromium Nuclei Isolation Kit Tested Tissues
- Nuclei Isolation from Mouse Brain Tissue for Single Cell ATAC Sequencing (CG000212)
- Nuclei Isolation for Single Cell ATAC Sequencing (CG000169)
Additional optimization may be required to obtain high quality nuclei. We expect that the Chromium Nuclei Isolation Kit will require less optimization than the other Demonstrated Protocols for which we recommend lysis timelines and rigorous assessment of nuclei under high magnification brightfield microscopy to determine the most appropriate lysis time (see How can I assess the quality of my nuclei for Single Cell ATAC or Single Cell Multiome ATAC+GEX Sequencing?).
Products: Single Cell ATAC