Table 2.

Cell and gene capture metrics summaries of cell and RNA sequence data from all libraries

Experiment	iPSC				TMWC
Platform	Illumina1	BGI2	BGI (Subsampled)2	|Δ|	Illumina1	BGI2	BGI (Subsampled)2	|Δ|
Estimated number of cells	12 909	12 940	12 940	31	18 782	18 784	18 784	2
Total number of reads	580 398 477	1 122 883 312	581 782 400	1 383 923	425 891 295	1 119 142 907	425 927 200	35 905
Mean reads per cell	44 960	86 776	44 960	0	22 675	59 579	22 675	0
Median UMI counts per cell	16 800	22 431	14 998	1803	11 540	18 411	10 282	1258
Median genes per cell	3946	4655	3748	198	2878	3781	2709	169
Total number of genes detected	24 202	24 799	23 941	261	23 212	23 999	23 943	731
Experiment	PBMC1				PBMC1
Platform	Illumina3	BGI2	BGI (Subsampled)2	|Δ|	Illumina3	BGI2	BGI (Subsampled)2	|Δ|
Estimated number of cells	20 982	20 839	20 839	143	18 634	18 537	18 537	97
Total number of reads	588 565 199	1 086 836 730	584 533 950	4 031 249	616 115 423	1 339 580 496	612 907 368	3 208 055
Mean reads per cell	28 050	52 153	28 050	0	33 064	72 265	33 064	0
Median UMI counts per cell	2605	2282	2058	547	3004	2676	2357	647
Median genes per cell	855	790	732	123	956	897	814	142
Total number of genes detected	21 671	21 832	21 296	375	21 860	22 188	21 516	344

All details were provided by the CellRanger software. To provide fair comparison between platforms we have also down sampled data from MGISEQ-2000 sequences to equal read depths per library as obtained from Illumina sequencers.