Question: Can I sort my cells prior to running through the 10x Single Cell assay?
Answer: Yes, FACS samples are compatible with the 10x Single Cell workflow. It is a good method to enrich for specific cell types based on cell surface markers, and to get a clean cell suspension as it also removes the dead cells and debris.
If you are using a rare cell type, it is also possible to sort directly into the media that you will use with the 10x Single Cell Master Mix (PBS+0.04% BSA for example).
For a list of best practices for sorting cells, please see: What are the best practices for flow sorting cells for 10x Genomics assays?
Note: Cell counts from FACS are often overestimated. We strongly recommend recounting cells after flow sorting with one of our recommended single cell counting methods.
Products: Single Cell 3', VDJ