Table 2.
Comparison of Four Methods for Targeted DNA Sequencing
| Variable | SureSelect | HaloPlex | Nextera | SeqCap |
|---|---|---|---|---|
| Time (hours) | 72 | 48 | 48 | 72–96 |
| Recommended input DNA (μg) | 2 | 0.2 | 0.2 | 2 |
| Pooling | Optional | Optional | Required | Optional |
| Alignment (%) | ||||
| Manufacturer specified | 30–70 | 30–70 | >65 | 70–80 |
| This study | 73.25 | 98.98 | 80.18 | 73.73 |
| Library complexity (%) | 97.45 | 21.82 | 83.33 | 98.34 |
| Base calls on positive strand (%) | 50.89 | 49.26 | 49.88 | 50.46 |
| Uniformity | High | Low | Low | High |
| SNV | Yes | Yes | Yes | Yes |
| CNV | Yes | Yes | Yes | Yes |
Alignment herein means percentage of reads that aligned to the genome that aligned or should align to target regions.
CNV, copy number variation; SNV, single-nucleotide variation.