Table 1. Sequence metrics for whole genome bisulfite libraries.
| Method & DNA quantity | Cell line | PCR cycles | Mapping efficiency (%)a | Aligned read pairs (M)a | PCR duplicates (%) | ||
|---|---|---|---|---|---|---|---|
| TruSeq/ | NA10860 | 9 | 76 | 77 | 133 | 126 | 13–17 |
| 100 ng | REH | 9 | 78 | 78 | 133 | 141 | 12–15 |
| Accel-NGS/ | NA10860 | 4 | 83 | 82 | 129 | 131 | 1–2 |
| 100 ng | REH | 4 | 82 | 82 | 100 | 115 | 1–2 |
| SPLAT/ | NA10860 | 4 | 70 | 70 | 92 | 128 | 1–2 |
| 100 ng | REH | 4 | 83 | 77 | 136 | 176 | 1–2 |
| NEBNextUltra/ | NA10860 | 6 | 75 | 75 | 131 | 102 | 1–2 |
| 1000 ng | REH | 6 | 79 | 79 | 129 | 125 | 1–2 |
afor each individual sequenced library (technical replicates).