Table 4.
Number of overlap variants identified by the ABF (log10θ threshold; θ = PO/R) at various R values with π0 = 0.99 and the corresponding lower and upper P‐value thresholds, based on 30,000 and 8,000 cases, respectively
| ABF | Lower α | Upper α | ||||
|---|---|---|---|---|---|---|
| R | log10 θ threshold | Number detected (McNemar mid‐P‐value) | α L threshold (N = 30,000) | Number detected (McNemar mid‐P‐value) | αU threshold (N = 8000) | Number detected (McNemar mid‐P‐value) |
| 1 | 1.996 | 2 (1.06 × 10–3) | 1.20 × 10–4 | 2 (1.53 × 10–1) | 2.40 × 10–4 | 2 (6.95 × 10–1) |
| 2 | 1.695 | 2 (4.28 × 10–10) | 2.50 × 10–4 | 2 (6.98 × 10–1) | 5.10 × 10–4 | 2 (3.55 × 10–2) |
| 4 | 1.394 | 3 (4.20 × 10–25) | 5.50 × 10–4 | 2 (6.38 × 10–2) | 1.10 × 10–3 | 3 (2.11 × 10–6) |
| 5 | 1.297 | 3 (7.89 × 10–34) | 7.20 × 10–4 | 2 (3.37 × 10–2) | 1.40 × 10–3 | 4 (3.22 × 10–9) |
| 10 | 0.996 | 9 (1.16 × 10–82) | 1.60 × 10–3 | 6 (1.92 × 10–11) | 3.00 × 10–3 | 15 (2.22 × 10–21) |
| 12 | 0.916 | 15 (2.77 × 10–97) | 1.90 × 10–3 | 7 (1.90 × 10–12) | 3.60 × 10–3 | 23 (5.75 × 10–29) |
| 15 | 0.820 | 25 (5.77 × 10–121) | 2.50 × 10–3 | 12 (1.86 × 10–18) | 4.70 × 10–3 | 31 (3.63 × 10–35) |
| 20 | 0.695 | 45 (1.95 × 10–157) | 3.40 × 10–3 | 19 (9.24 × 10–26) | 6.50 × 10–3 | 59 (1.95 × 10–44) |
The McNemar P‐value follows the counts of detected overlap variants.