Table 5 True and estimated effects for the simulated data with main and epistatic effects
From: Empirical Bayesian LASSO-logistic regression for multiple binary trait locus mapping
locus i | locus j | True β | EBLASSO- NE | EBLASSO-NEG | LASSO | HyperLasso | Two-locus test |
|---|---|---|---|---|---|---|---|
11 | 11 | 1.99 | 0.83(0.12) | 1.66(0.19) | 0.72(0.65) | 2.21(0.25) | 0.88(0.10) |
26 | 26 | 1.81 | 0.46(0.11) | 1.42(0.18) | 0.39(0.55) | 1.73(0.23) | 0.56(0.09) |
42 | 42 | −1.28 | −0.36(0.11) | −0.87(0.20) | − | −1.59(0.21)b | − |
48 | 48 | −0.91 | −0.19(0.09)b | −0.68(0.19)b | −0.14(0.55)b | − | − |
72 | 72 | 1.28 | 1.01(0.16) | 2.53(0.20) | 0.92(1.18) | 3.17(0.27) | 1.08(0.10) |
73 | 73 | 1.81 | 0.40(0.14) | − | − | − | 1.04(0.10) |
182 | 182 | 2.19 | 0.50(0.14) | 1.57(0.26) | 0.51(0.96) | 2.03(0.30) | 1.23(0.10) |
185 | 185 | 1.29 | 0.69(0.14) | 1.49(0.26) | 0.57(0.91) | 1.88(0.30) | 1.23(0.10) |
262 | 262 | −1.28 | −0.24(0.09) | −0.70(0.15) | −0.15(0.46) | −0.78(0.19)b | − |
268 | 268 | 0.91 | − | − | − | − | − |
5 | 6 | 1.28 | 0.42(0.13) | 1.11(0.22) | 0.40(0.63) | 1.63(0.28) | − |
6 | 39 | 1.29 | 0.38(0.15)b | 1.37(0.23)b | 0.15(1.16)b | 1.28(0.35)b | − |
42 | 220 | 1.99 | 0.23(0.13) | 1.99(0.25)b | − | 2.47(0.32) | 0.77(0.14) |
81 | 200 | −1.28 | −0.36(0.13)b | −1.02(0.22)b | −0.15(1.42)b | −1.22(0.27)b | − |
87 | 164 | 1.81 | 0.44(0.17) | 1.73(0.25) | 0.24(1.44) | 2.15(0.32)b | − |
87 | 322 | 2.19 | 0.90(0.15) | 2.10(0.25) | 0.74(0.66) | 2.44(0.30) | 0.79(0.13) |
118 | 278 | −1.28 | −0.29(0.12) | −0.76(0.20) | −0.19(1.29) | −0.99(0.26) | − |
328 | 404 | −0.99 | −0.21(0.12)b | − | −0.15(0.73)b | −1.15(0.30)b | − |
373 | 400 | −0.91 | −0.22(0.12)b | −1.12(0.22)b | −0.19(0.87) | −1.23(0.27) | − |
431 | 439 | 1.81 | 0.24(0.13) | 1.37(0.24) | − | 1.58(0.29)b | − |
Parameter(s) | λ = 0.1600 | a = −0.2 | λ=0.0254 | a = 0.1 |  | ||
b = 0.1 | α=0.01 | ||||||
CPU time(s) | 2037.4 | 268.6 | 62.7 | 1094.6 | 2936.0 | ||
True/False positive | 19/5c | 17/4c | 15/26c | 17/7c | 8/18d | ||