Skip to main content

Table 2 Empirical power estimates of the collapsing-variant tests based on 200 simulated data sets in SIMPHEN, according to the MAP4 subregions containing at least 1 functional variant

From: Identification of low frequency and rare variants for hypertension using sparse-data methods

  Burdena SKATa SKAT-Oa
Significance level Subregion Rare Rare & low- frequency All Rare Rare & low- frequency All Rare Rare & low- frequency All
0.01 1 0 0 0.260b 0.005 0.005 0.840b 0.005 0.005 0.805b
2 0 0.005 0.005 0 0.145 0.145 0 0.090 0.080
4 0 0.955 0.955 0 1.000 1.000 0 1.000 1.000
6 0 0.990 0.995 0 1.000 1.000 0 1.000 1.000
0.05 1 0.045 0.045 0.555b 0.015 0.020 0.960b 0.015 0.015 0.970b
2 0.060 0.030 0.030 0.020 0.330 0.330 0.005 0.255 0.250
4 0.030 0.990 0.990 0.025 1.000 1.000 0.015 1.000 1.000
6 0.105 1.000 1.000 0.075 1.000 1.000 0.085 1.000 1.000
  1. aFor each subregion, power was estimated when a test includes only rare, rare and low-frequency, and all variants
  2. bA result of 2 nonfunctional common variants that were in LD (r 2 > 0.3) with the 2 functional common variants in subregion 4