The number of HiFi reads, segmented reads, cells, genes, and transcripts, and their structural categories before filtering
| Normal | ccRCC2 | ccRCC3 | ccRCC4 | ccRCC5 | |
|---|---|---|---|---|---|
| Cells | 437 | 373 | 310 | 1091 | 388 |
| HiFi reads | 3,504,085 | 3,785,895 | 2,166,307 | 1,880,180 | 2,275,670 |
| Segmented reads (S-reads) | 54,962,298 | 58,333,415 | 34,180,213 | 29,404,003 | 35,635,073 |
| Mean length of S-reads | 844.2 | 910.0 | 801.0 | 859.0 | 890.0 |
| Reads after barcode correction and UMI deduplication | 27,799,824 | 18,554,804 | 15,850,578 | 21,075,848 | 19,102,522 |
| Reads in cells | 68% | 65% | 68% | 83% | 65% |
| Median quality score | Q32 | Q32 | Q30 | Q30 | Q31 |
| Mean reads per cell | 82,703 | 96,620 | 70,423 | 21,499 | 57,006 |
| Median UMIs per cell | 56,437.0 | 41,881.5 | 42,798.5 | 17,705.0 | 40,062.5 |
| Unique genes | 29,138 | 26,260 | 26,657 | 29,074 | 30,065 |
| Unique transcripts | 346,107 | 303,547 | 216,926 | 289,556 | 301,160 |
| FSM (%) | 71,205 (20.5%) | 68,352 (22.5%) | 50,983 (23.5%) | 62,582 (21.6%) | 64,378 (21.4%) |
| ISM (%) | 126,715 (36.6%) | 101,665 (33.5%) | 96,380 (44.4%) | 109,263 (37.7%) | 102,536 (34%) |
| NIC (%) | 52,740 (15.2%) | 49,142 (16.2%) | 23,054 (10.6%) | 42,698 (14.7%) | 49,049 (16.3%) |
| NNC (%) | 83,308 (24.1%) | 73,820 (24.3%) | 37,997 (17.5%) | 62,710 (21.7%) | 72,372 (24.0%) |
| Other (%) | 12,139 (3.5%) | 10,568 (3.5%) | 8,512 (3.9%) | 12,303 (4.2%) | 12,825 (4.3%) |
[i] (FSM) Full splice match, (ISM) incomplete splice match, (NIC), novel in catalog, (NNC) novel not in catalog. Other: Genic, antisense, intergenic, fusion, more Junctions.