Table 1.
Setting A | Setting B | |||||
---|---|---|---|---|---|---|
: | 0.1 | 0.3 | 0.5 | 0.1 | 0.3 | 0.5 |
Scenario 1: | ||||||
IVW | 0.6727 | 0.1675 | 0.0784 | 0.5949 | 0.1619 | 0.0629 |
Lars | 0.1292 | 0.0447 | 0.0298 | 0.1559 | 0.0648 | 0.0372 |
Lasso | 0.0604 | 0.0289 | 0.0162 | 0.1046 | 0.0503 | 0.0307 |
Elastic Net | 0.0673 | 0.0300 | 0.0162 | 0.1161 | 0.0480 | 0.0287 |
MR-BMA | 0.0340 | 0.0175 | 0.0105 | 0.0534 | 0.0368 | 0.0306 |
Best model | 0.0717 | 0.0320 | 0.0156 | 0.0921 | 0.0514 | 0.0376 |
Scenario 2: | ||||||
IVW | 22.9516 | 6.0594 | 2.6257 | 23.2495 | 5.7715 | 2.4802 |
Lars | 0.0354 | 0.0367 | 0.0094 | 0.0321 | 0.0212 | 0.0143 |
Lasso | 0.0064 | 0.0047 | 0.0039 | 0.0105 | 0.0086 | 0.0074 |
Elastic Net | 0.0064 | 0.0044 | 0.0034 | 0.0098 | 0.0078 | 0.0067 |
MR-BMA | 0.0051 | 0.0039 | 0.0032 | 0.0088 | 0.0076 | 0.0063 |
Best model | 0.0114 | 0.0081 | 0.0061 | 0.0150 | 0.0121 | 0.0096 |
Scenario 3: | ||||||
IVW | 1.6200 | 0.4272 | 0.1742 | 2.3140 | 0.6208 | 0.2566 |
Lars | 0.3461 | 0.1151 | 0.0482 | 0.5892 | 0.1669 | 0.0844 |
Lasso | 0.0161 | 0.0067 | 0.0040 | 0.0378 | 0.0225 | 0.0166 |
Elastic Net | 0.0168 | 0.0074 | 0.0044 | 0.0451 | 0.0224 | 0.0169 |
BMA | 0.0066 | 0.0034 | 0.0019 | 0.0235 | 0.0165 | 0.0149 |
Best model | 0.0128 | 0.0051 | 0.0027 | 0.0444 | 0.0242 | 0.0177 |
We mark in bold font the lowest MSE in each experimental setting. Scenario 1: NMR metabolites, d = 12 risk factors, Scenario 2: NMR metabolites, d = 92 risk factors, and Scenario 3: blood cell traits, d = 33 risk factors. Setting A includes four true causal risk factors which increase the risk and Setting B includes eight true causal risk factors of which half are protective and the other half increases the risk