Table 2.
Quality control indicators for the fresh and frozen PBMC samples.
| PBMC fresh 1 | PBMC fresh 2 | PBMC frozen 1 | PBMC frozen 2 | |
|---|---|---|---|---|
| Target nb of cells | 6,000 | 6,000 | 6,000 | 6,000 |
| Estimated nb of cells | 3,942 | 4,336 | 3,820 | 3,920 |
| Median nb of genes per cell | 2,094 | 2,030 | 1,590 | 1,664 |
| Mean nb of reads per cell | 105,465 | 95,118 | 121,573 | 121,545 |
| Fraction reads in cells | 93.5% | 93.2% | 73.7% | 81.7% |
| Total genes detected | 23,703 | 23,864 | 23,438 | 23,267 |
| Median UMI counts per cell | 8,079 | 7,852 | 5,555 | 6,385 |
| Total nb of reads | 416 M | 412 M | 465 M | 476 M |
| Sequencing saturation | 80% | 77% | 82% | 85% |
| Reads mapped to genome | 95% | 91% | 93% | 94% |
| Reads mapped to transcriptome | 53% | 51% | 39% | 45% |
| Median nb of mitochondrial genes | 6.2% | 6.1% | 5% | 4.5% |
| Doublets rate | 6.8% | 8.9% | 4.7% | 3.3% |
| Valid barcodes | 97.3% | 97.3% | 96.6% | 96.7% |
| Valid UMIs | 99.9% | 99.9% | 99.9% | 99.9% |
| Q30 bases in barcode | 95.1% | 95.2% | 95% | 94.6% |
| Q30 bases in RNA read | 93.3% | 93.7% | 93.1% | 92.6% |
| Q30 bases in UMI | 94.8% | 94.9% | 94.7% | 94.3% |