Table 7.
Details and Read Metrics from All NGS Assays
| Laboratory | NGS method | NGS platform | NGS replicates | Mean number of reads per sample (in millions) | Mean sequencing depth, unique reads | No. of variants detected in reference material |
|---|---|---|---|---|---|---|
| A | SiMSen-Seq | Illumina MiSeq | 3 | NA | 12,922 (Cons20)∗ | 4 (customized) |
| B | Digital NGS | Ion Torrent PGM | 3 | 6.0 | 500 | 32 |
| C | Archer Reveal ctDNA-targeted NGS | Illumina NextSeq 500 | 3 | 2.8 | 5048 | 23 |
| D | Illumina HiSeq 2500 | 4 | 10.0 | 5269 | ||
| E | Illumina MiSeq | 3 | 7.1 | 5413 | ||
| F | Illumina MiSeq | 4 | 6.9 | 5924 | ||
| G | DEEP-Seq | Illumina MiSeq | 4 | 1.8 | 10,948 | 9 |
ctDNA, circulating tumor; DEEP-Seq, Deep Error Eliminating Plasma Sequencing; NA, not applicable; NGS, next-generation sequencing; PGM, personal genome machine; SiMSeq-Seq, Simple, Multiplexed, PCR-Based Barcoding of DNA for Sensitive Mutation Detection Using Sequencing.
∗
Cons20 is the read depth of 20 per barcode, referred to as consensus 20.