Question: What is the maximum number of cells that can be targeted per barcode when using the Chromium Fixed RNA Profiling Reagent Kits for Multiplexed Samples (i.e., Single Cell Gene Expression Flex assay for Multiplexed Samples)?
Answer: When using the 4 rxns x 4 BC Chromium Fixed RNA Kit (PN-1000475/PN-1000495), up to 10,000 cells can be targeted and demultiplexed per probe barcode, yielding a total of 40,000 cells recovered per GEM reaction.
When using more than four probe barcodes, up to 8,000 cells can be targeted and demultiplexed per probe barcode; thus with the 4 rxns x 16 BC Chromium Fixed RNA Kit (PN-1000476/PN-1000496) using 16 Probe Barcodes, 128,000 cells (16 samples * 8,000 cells) can be recovered and demultiplexed.
128,000 cells recovered per GEM reaction represents the upper cell limit supported by the chip. Higher cell numbers may result in clogs or microfluidic failures.
We do not recommend exceeding 8,000 cells per barcode when the number of samples is 4 < n < 16. The undetected multiplet rate will increase if the recommended number of cells per Probe Barcode is exceeded.
Products: Fixed RNA Profiling, Single Cell Gene Expression Flex