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Table 1 Summary of average mRNA/gene detection sensitivities and capture rates for each single-cell RNA-seq method

From: Systematic comparison of high-throughput single-cell RNA-seq methods for immune cell profiling

Method Avg Multiplet Rate Avg Cell Capture Efficiency Avg Library Pool Efficiency Median nUMIs (EL4) Median nGenes (EL4) GD50 EL4 (FPKM) Avg nDE genes Avg nDE genes (> 1.5 FC in bulk) Recall (mean ± sd) Precision (mean ± sd)
10x 3’ v2 0.46% 29.50% 57.90% 21,570 3,882 20.2 3,314 2,711 0.462 ± 0.005 0.818± 0.003
10x 3’ v3 1.75% 61.90%* 75.90% 28,006* 4,776* 13.6* 4,005 3,388 0.577 ± 0.007 0.846 ± 0.004
10x 5’ v1 0.49% 50.70% 76.50% 25,988 4,470 16.8 4,797* 3,491* 0.595 ± 0.006* 0.728 ± 0.008
ddSEQ 0.45%* 1.01% 18.10% 10,466 3,644 25 2,740 2,397 0.501 ± 0.002 0.875 ± 0.003
Drop-seq 0.55% 0.36% 17.80% 8,791 3,255 26.7 2,824 2,504 0.453 ± 0.004 0.887 ± 0.003*
ICELL8 3' DE 2.18% 8.63% 93.00%* 16,909 2,849 37.9 1,815 1,528 0.260 ± 0.004 0.842 ± 0.008
ICELL8 3' DE-UMI 0.98% 7.20% 92.90% 2,792 1,288 112.1 985 861 0.147 ± 0.005 0.873 ± 0.00
  1. *: The value with the best performance for each parameter is highlighted in bold