Question: Can I pool CMO-labeled samples together with unlabeled samples using the 3’ CellPlex Kit for Cell Multiplexing?
Answer: We do not recommend or support pooling CMO-labeled cells/nuclei together with unlabeled cells/nuclei when using the 3’ CellPlex Kit for Cell Multiplexing.
The Cell Ranger CMO tag assignment algorithms have not been validated for analysis of mixed pools of labeled and unlabeled cells. It is likely that the algorithms will not perform well under these circumstances. Therefore, we cannot guarantee accurate CMO tag assignments when mixing labeled and unlabeled cells.
Products: Single Cell Gene Expression, CellPlex