Table 1.
Sequencing statistics of PCS and DRS of archival ccRCC tumor samples
| PCR-cDNA-seq | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Tumor samples | 135 | 171 | 243 | 254 | 260 | 273 | 314 | 318 | 320 | 329 | 382 | 395 |
| Passed reads (Q > 7, 106) | 72.3 | 43.9 | 59.5 | 71.7 | 60.7 | 53.7 | 51.0 | 27.6 | 72.8 | 53.6 | 51.3 | 63.2 |
| Median alignment length (nt) | 461 | 554 | 519 | 447 | 515 | 552 | 616 | 539 | 446 | 552 | 490 | 510 |
| Median accuracy (%) | 95.3 | 95.6 | 95.2 | 95.9 | 95.9 | 96.0 | 95.5 | 95.0 | 95.2 | 95.5 | 92.0 | 95.4 |
| Full-length transcripts (%) | 22.7 | 37.1 | 25.2 | 21.8 | 25.1 | 34.2 | 36.4 | 30.3 | 21.0 | 31.7 | 25.4 | 26.4 |
| Direct-RNA-seq | ||||||||||||
| Tumor samples | 135 | 171 | 243 | 254 | 260 | 273 | 314 | 318 | 320 | 329 | 382 | 395 |
| Passed reads (Q > 7, 106) | 4.44 | 5.10 | 6.01 | 4.05 | 4.71 | 4.95 | 3.43 | 5.44 | 2.41 | 5.06 | 3.62 | 3.39 |
| Median alignment length (nt) | 426 | 483 | 507 | 301 | 342 | 396 | 384 | 413 | 362 | 481 | 419 | 345 |
| Median accuracy (%) | 90.1 | 91.0 | 89.8 | 90.6 | 90.8 | 91.0 | 90.7 | 90.5 | 90.0 | 90.6 | 90.5 | 90.3 |
| Full-length transcripts (%) | 15.8 | 11.3 | 18.1 | 2.76 | 3.20 | 7.20 | 4.90 | 7.40 | 7.80 | 10.3 | 8.14 | 4.20 |
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Tables showing the number of passed reads (Q > 7), median reference genome (Ensembl release 105, GRCh38) alignment length (nt), median read accuracy (%), and percentage of reads representing full-length transcripts (95%+ coverage of reference transcript isoform) of sequenced archival ccRCC tumor samples.
