Table 3 Performance of different commercially available library preparation kits for 30X human genome builds
From: Bead-linked transposomes enable a normalization-free workflow for NGS library preparation
Parameter | Library Preparation Kit | |||||
|---|---|---|---|---|---|---|
Nextera DNA Flex | TruSeq Nano | NEBNext Ultra | Kapa HyperPlus | Kapa HyperPrep | TruSeq DNA PCR-free | |
No. samples | 30 | 20 | 4 | 4 | 4 | 6 |
Includes PCR in protocol | Yes | Yes | Yes | Yes | Yes | No |
Fragmentation method | BLT | Sonication | Enzymatic | Enzymatic | Sonication | Sonication |
Input direct from blood and saliva | Yes | No | No | No | No | No |
Incorporates normalization for inputs ≥100 ng | Yes | No | No | No | No | No |
Total assay time, hours | 3.5 | 11 | 6 | 6 | 6 | 10 |
Total PF PE reads | 3.70E + 08 | 3.70E + 08 | 3.70E + 08 | 3.70E + 08 | 3.70E + 08 | 3.70E + 08 |
Diversity | 3.1E + 09 | 2.0E + 09 | 1.3E + 09 | 2.8E + 09 | 4.6E + 09 | 1.9E + 09 |
Autosome coverage at 15X, % | 97.9 | 98.0 | 97.8 | 96.1 | 91.3 | 98.1 |
Autosome callability, % | 96.7 | 96.9 | 96.8 | 96.6 | 96.2 | 96.9 |
Autosome exon callability, % | 98.7 | 98.4 | 98.8 | 98.7 | 98.5 | 99.0 |
SNV recall, % | 98.7 | 98.7 | 98.8 | 98.5 | 97.8 | 98.8 |
SNV precision, % | 99.8 | 99.7 | 99.7 | 99.1 | 94.4 | 99.9 |
Indel recall, % | 94.2 | 92.9 | 94.5 | 93.1 | 91.0 | 95.9 |
Indel precision, % | 97.2 | 94.9 | 97.7 | 97.6 | 96.1 | 98.3 |