Table 6 Comparison of duplicate reads obtained for the same libraries sequenced on both HiSeq 2500 and HiSeq X Ten
Library preparation method | Library preparation kit | Input amount (ng) | Sequencing platform | DNA samples | Raw reads | Duplicate reads (%) | Coverage | Ratio of CpG islands/shores |
|---|---|---|---|---|---|---|---|---|
Post-BS | TruMethyl WG v1.9 | 200 | HiSeq 2500 Rapid runa | 1. Cell line (B80-T17-p12) | 303298084 | 2.0 | 9.12× | 1.0:1.1 |
2. Cell line (B80-T17-p95) | 412412960 | 2.7 | 12.40× | 0.9:1.1 | ||||
3. Cell line (B80-T8-p8) | 309366352 | 1.9 | 9.48× | 1.0:1.1 | ||||
4. Cell line (B80-T8-p46) | 337623632 | 2.2 | 10.20× | 1.0:1.1 | ||||
5. Cell line (MCF7) | 232184682 | 1.6 | 7.24× | 1.0:1.1 | ||||
6. Cell line (TAMR) | 28866392 | 1.2 | 6.66× | 1.0:1.1 | ||||
HiSeq X Ten | 1. Cell line (B80-T17-p12) | 549,330,057 | 18 | 16.41× | 1.0:1.1 | |||
2. Cell line (B80-T17-p95) | 623,032,192 | 18 | 18.83× | 0.8:1.0 | ||||
3. Cell line (B80-T8-p8) | 534,563,634 | 15 | 16.84× | 1.0:1.1 | ||||
4. Cell line (B80-T8-p46) | 551,950,690 | 16 | 17.24× | 1.0:1.1 | ||||
5. Cell line (MCF7) | 634,201,220 | 19 | 23.43× | 0.9:1.0 | ||||
6. Cell line (TAMR) | 571,714,843 | 15 | 20.48× | 0.9:1.0 |