Table 4 The empirical Type I error rates (× 100) and power (× 100) for the six tests when methylation values generated from chi-squared distributions. The numbers of non-diseased and diseased samples are (100, 100)
From: Robust joint score tests in the application of DNA methylation data analysis
Scenarios | Outlier | α(%) | jointLRT | KS | AW | iAW.Lev | iAW.BF | iAW.TM |
|---|---|---|---|---|---|---|---|---|
eqM&eqV | No | 5 | 13.8 | 4.2 | 5.0 | 6.3 | 5.3 | 5.2 |
(Type I errror) | No | 1 | 6.3 | 0.7 | 0.9 | 1.5 | 1.3 | 1.2 |
No | 0.5 | 4.4 | 0.4 | 0.4 | 0.8 | 0.5 | 0.5 | |
diffM&eqV | No | 5 | 90.2 | 99.7 | 99.8 | 99.6 | 99.9 | 99.9 |
No | 1 | 53.8 | 97.1 | 99.0 | 97.1 | 99.4 | 99.4 | |
No | 0.5 | 40.9 | 95.9 | 98.1 | 94.9 | 99.2 | 99.0 | |
eqM&diffV | No | 5 | 18.6 | 10.2 | 29.2 | 29.6 | 35.4 | 34.6 |
No | 1 | 5.8 | 2.1 | 10.3 | 11.4 | 14.7 | 15.0 | |
No | 0.5 | 3.9 | 1.3 | 6.9 | 7.0 | 11.1 | 10.4 | |
diffM&diffV | No | 5 | 18.4 | 42.2 | 59.9 | 54.9 | 70.6 | 69.0 |
No | 1 | 3.7 | 17.9 | 35.7 | 27.5 | 45.5 | 43.8 | |
No | 0.5 | 2.1 | 13.9 | 27.9 | 18.9 | 38.9 | 35.6 | |
eqM&eqV | Yes | 5 | 20.1 | 4.0 | 4.8 | 6.7 | 5.5 | 5.3 |
(Type I error) | Yes | 1 | 10.3 | 0.7 | 0.7 | 1.7 | 1.1 | 1.1 |
Yes | 0.5 | 7.8 | 0.5 | 0.2 | 0.8 | 0.5 | 0.5 | |
diffM&eqV | Yes | 5 | 67.9 | 99.5 | 99.9 | 99.4 | 99.9 | 99.9 |
Yes | 1 | 23.7 | 96.5 | 99.1 | 96.4 | 99.4 | 99.3 | |
Yes | 0.5 | 12.9 | 95.0 | 98.7 | 94.0 | 99.0 | 98.8 | |
eqM&diffV | Yes | 5 | 27.5 | 9.5 | 34.0 | 39.7 | 41.0 | 41.5 |
Yes | 1 | 9.9 | 1.8 | 11.9 | 16.6 | 19.3 | 19.0 | |
Yes | 0.5 | 6.1 | 1.1 | 7.3 | 11.2 | 14.0 | 13.7 | |
diffM&diffV | Yes | 5 | 21.9 | 39.8 | 65.2 | 60.4 | 73.2 | 72.1 |
Yes | 1 | 6.3 | 16.3 | 39.9 | 31.7 | 49.7 | 47.7 | |
Yes | 0.5 | 3.4 | 12.2 | 32.5 | 23.9 | 41.8 | 39.7 |