Table 1.
Summary of individuals included in this study
| Individual | ABCA7 VNTR lengths (kb) | DNA source | PromethION device | Sequencing chemistry | Number of flow cells | Yield (Gb) | Read length N50 (kb) | |
|---|---|---|---|---|---|---|---|---|
| Subject01 | 5.1 | 4.5 | QIAmp | α | 108 | 6 + 7d | 74.4 | 7.0 |
| Subject02 | 1.8 | 1.8 | QIAmp | α | 108 | 1 | 61.3 | 11.2 |
| Subject03 | 4.7 | 2.3 | QIAmp | α | 109 | 1 | 72.5 | 16.3 |
| Subject04 | 9.7 | 0.8 | QIAmp | α | 109 | 1 | 85.5 | 11.5 |
| Subject05 | 10.7 | 1.7 | QIAmp | α | 109 | 1 | 88.5 | 11.9 |
| Subject06 | 2.3 | 0.3 | QIAmp | α | 109 | 1 | 98.0 | 16.2 |
| Subject07 | 3.3 | 3.3 | Magtration | α | 109 | 1 | 77.7 | 10.6 |
| Subject08 | 2.3 | 0.4 | Magtration | β | 109 | 1 | 56.2 | 14.7 |
| Subject09a | 5.5 | 4.3 | Magtration | β | 109 | 1 | 43.2 | 29.3 |
| Subject10b | 8.7 | 2.8 | Magtration | β | 109 | 1 | 48.9 | 9.1 |
| NA19240 | 4.5 | 2.2 | Magtration | β | 109c | 5 | 220.0 | 15.8 |
DNA was either extracted with QIAmp (Qiagen) or on a Magtration robotic platform (PSS). An alpha (α) and beta (β) PromethION device were used. Two chemistries were applied: SQK-LSK108 (108) or SQK-LSK109 (109). Yield and mean read length were calculated with NanoPack [23] after Albacore or Guppy base calling. kb kilobases, Gb gigabases, N50 50% of the total sequencing dataset is contained in reads equal or larger than this value. aDNA was not sheared for this individual. bAn 8-year-old DNA extraction was used. cSQK-LSK109 was used for four flow cells and for one flow cell was run with SQK-LSK108. dSix debug PromethION flow cells and seven MinION flow cells were used