Table 2.
Variant type | Phenotype | All Cohorts | Balanced Cohorts | ||||||
---|---|---|---|---|---|---|---|---|---|
No. of individuals | No. of SNVs | ISUB score (mean/median/sd) | p value | No. of individuals | No. of SNVs | ISUB score (mean/median/sd) | p value | ||
DEL | Case | 4244 | 6600 | 1.58/1.23/1.57 | 0.21 | 2489 | 4201 | 1.47/1.20/1.62 | 0.51 |
Control | 3106 | 3135 | 1.38/1.13/1.49 | 2580 | 4025 | 1.42/1.21/1.20 | |||
NS | Case | 4244 | 23,231 | 4.33/3.49/4.16 | 9.6 × 10−137 | 2489 | 14,831 | 3.97/3.43/4.55 | 0.37 |
Control | 3106 | 11,088 | 2.30/1.89/2.10 | 2580 | 14,310 | 3.83/3.49/2.82 |
Results given for analysis comprising all individuals (all cohorts; N = 7350) and for a subset of samples comprising balanced case-control cohorts only (balanced cohorts; samples from The Netherlands, Belgium and Ireland, N = 5069). P values given for logistic regression with first six principal components and country of sample origin included as covariates. DEL = deleterious variants, NS = all nonsynonymous and loss-of-function variants.