Table 1.
Main features of the exome enrichment solutions evaluated.
| Features | SureS V6 | TS DNA Na | TS DNA Ex | Nxt DNA Ex (125 bp) | Nxt DNA Ex (350 bp) | Nxt DNA Ex (450 bp) | Ill DNA Enr |
|---|---|---|---|---|---|---|---|
| Library prep | SB | SB | SB | SB | SB | SB | BB |
| Oligo probes | RNA | DNA | DNA | DNA | DNA | DNA | DNA |
| Tiling | Adjacent | Gapped | Gapped | Gapped | Gapped | Gapped | Gapped |
| Target size (Mb) | 60.5 | 45.3 | 45.3 | 45.3 | 45.3 | 45.3 | 45.3 |
| Input (ng) | 50 | 100 | 100 | 50 | 50 | 50 | 50 a |
| Fragmentation | Tagm | Ultrasont | Ultrasont | Tagm | Tagm | Tagm | Tagm |
| Insert size (bp) | 150 | 350 | 150 | 125 | 350 | 450 | 150 |
| Enrichment | Prepool | Postpool | Postpool | Postpool | Postpool | Postpool | Postpool |
| Time (days) | 1 | 3 | 4 | 3 | 3 | 3 | 2 |
| Hybridization time (min) | 79 | 40 + 40 b | 118 + 898 b | 40 + 40 b | 40 + 40 b | 40 + 40 b | 114 |
| Cost per sample | *** | ** | * | ** | ** | ** | ** |
a Specifications indicate that this can range from 10 ng to 1 μg, depending on the type of the starting material (i.e., blood, saliva, FFPE, etc.). b Two capture steps. Relative costs are indicated with categories, where the price correlates positively with the number of indicated asterisks (* means inexpensive, ** means intermediate cost, and *** means the most expensive). SureS V6: SureSelectQXT Human All Exon V6, TS DNA Na: TruSeq DNA Nano, TS DNA Ex: TruSeq DNA Exome, Nxt DNA Ex: Nextera DNA Exome, Ill DNA Enr: Illumina DNA Prep with Enrichment. bp: base pair. SB: solution-based, BB: bead-based, Tagm: tagmentation, Ultrasont: ultrasonication.