Table 1.

Comparison between 10x genomics and BD rhapsody.

Items	10x Genomics	BD Rhapsody
Library Costs	$ 1600	$ 1400
Time Costs	~8 hours	~10 hours
Reproducibility	Pretty good	good
Cell viability demand	>80%	>50%
Cells loading	500-25000	2000-40000
Cells recovery	100-16000	100-25000
Safe stop points	5	4
Single cell isolation	Microfluidics	Nanowells
Cell Surface Protein	yes	yes
Single Cell VDJ	yes	yes
Single Cell ATAC	yes	no
RNA capture beads	Gel beads	Magnetic beads
Second strand cDNA synthesis	TSO	RPE
Full-length cDNA	yes	no
Advantage	High throughput Easy operation High cell recovery	Monitor cells viability with imaging system Fewer doublets
Limitations	Fresh samples needed Detect only 10% mRNA	Fresh samples needed More hands work More cells input One sample per assay

(median: over 1000), while 10x 3’ V3 ranges from 1000 to nearly 4000 per cell (median: around 2000) with each cell capturing around 2500 RNA molecules or 5000, respectively. The median mitochondrial genes percentile for BD methods is a little bit more than 10x, while 10x delivers the range of mitochondrial genes percentile from 5 to 15. This result indicates that due to different capture mechanisms, the BD system could tolerate less cell viability, while 10x scRNASeq clearly delivers a better RNA capture rate. Therefore, the BD system might be better for a less accessible patient sample. As for cell type capture capability, there is not much difference as indicated in Fig. (4). Both methods could capture lymphocytes, myeloid cells and granulocytes well.