Table A5.
RMSE of the imputation methods across different parameters on different metabolites.
| Missing Mechanism | Sample Size | Missing Percentage | Metabolites/Imputation Method | |||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PC(32:2) | Succinylcarnitine | Glutamate | Urate | |||||||
| MICE-pmm | kNN-obs-sel | MICE-pmm | kNN-obs-sel | MICE-pmm | kNN-obs-sel | MICE-pmm | kNN-obs-sel | |||
| MCAR | n = 50 | 15% | 6.56 × 10−8 | 7.48 × 10−8 | 6.5 × 10−7 | 7.73 × 10−7 | 3.32 × 10−9 | 3.3 × 10−9 | 1.44 × 10−9 | 1.69 × 10−9 |
| 30% | 1.04 × 10−7 | 1.22 × 10−7 | 1.02 × 10−6 | 1.44 × 10−6 | 5.76 × 10−9 | 5.8 × 10−9 | 3.59 × 10−9 | 2.8 × 10−9 | ||
| 60% | 2.33 × 10−7 | 2.49 × 10−7 | 2.22 × 10−6 | 2.95 × 10−6 | 1.01 × 10−8 | 1.16 × 10−8 | 1.31 × 10−8 | 5.59 × 10−9 | ||
| n = 150 | 15% | 1.71 × 10−8 | 1.69 × 10−8 | 3.97 × 10−7 | 4.6 × 10−7 | 1.62 × 10−9 | 1.46 × 10−9 | 8.24 × 10−10 | 8.75 × 10−10 | |
| 30% | 2.63 × 10−8 | 2.49 × 10−8 | 6.48 × 10−7 | 8.5 × 10−7 | 2.45 × 10−9 | 2.29 × 10−9 | 1.38 × 10−9 | 1.47 × 10−9 | ||
| 60% | 5.23 × 10−8 | 4.78 × 10−8 | 1.27 × 10−6 | 1.84 × 10−6 | 4.62 × 10−9 | 4.96 × 10−9 | 2.97 × 10−9 | 3.51 × 10−9 | ||
| n = 599 | 15% | 8.64 × 10−9 | 1.08 × 10−8 | 2,00 × 10−7 | 3.35 × 10−7 | 8.12 × 10−10 | 8.17 × 10−10 | 4.45 × 10−10 | 6.71 × 10−10 | |
| 30% | 1.28 × 10−8 | 1.95 × 10−8 | 3.08 × 10−7 | 6.6 × 10−7 | 1.28 × 10−9 | 1.36 × 10−9 | 7.05 × 10−10 | 1.24 × 10−9 | ||
| 60% | 2.63 × 10−8 | 5.04 × 10−8 | 5.91 × 10−7 | 1.61 × 10−6 | 2.5 × 10−9 | 3.29 × 10−9 | 1.35 × 10−9 | 3.04 × 10−9 | ||
| PLoD | n = 50 | 15% | 3.99 × 10−8 | 3.23 × 10−8 | 2.98 × 10−7 | 2,00 × 10−7 | 2.81 × 10−9 | 2.26 × 10−9 | 1.11 × 10−9 | 1.38 × 10−9 |
| 30% | 7.36 × 10−8 | 5.36 × 10−8 | 5.66 × 10−7 | 3.48 × 10−7 | 4.47 × 10−9 | 3.51 × 10−9 | 2.4 × 10−9 | 2.24 × 10−9 | ||
| 60% | 1.87 × 10−7 | 1.25 × 10−7 | 2,00 × 10−6 | 1.27 × 10−6 | 1.1 × 10−8 | 9.79 × 10−9 | 7.42 × 10−9 | 5.62 × 10−9 | ||
| n = 150 | 15% | 1.33 × 10−8 | 1.36 × 10−8 | 3.62 × 10−7 | 3.8 × 10−7 | 1.7 × 10−9 | 1.45 × 10−9 | 6.97 × 10−10 | 5.99 × 10−10 | |
| 30% | 1.96 × 10−8 | 2.15 × 10−8 | 5.97 × 10−7 | 6.46 × 10−7 | 2.27 × 10−9 | 2.36 × 10−9 | 1.18 × 10−9 | 9.27 × 10−10 | ||
| 60% | 4.42 × 10−8 | 3.98 × 10−8 | 1.07 × 10−6 | 1.23 × 10−6 | 5.11 × 10−9 | 6.55 × 10−9 | 2.39 × 10−9 | 2.07 × 10−9 | ||
| n = 599 | 15% | 7.54 × 10−9 | 8.52 × 10−9 | 1.67 × 10−7 | 2.56 × 10−7 | 6.6 × 10−10 | 6.22 × 10−10 | 3.77 × 10−10 | 4.03 × 10−10 | |
| 30% | 1.17 × 10−8 | 1.64 × 10−8 | 2.64 × 10−7 | 5.32 × 10−7 | 9.61 × 10−10 | 1.01 × 10−9 | 6.55 × 10−10 | 7.2 × 10−10 | ||
| 60% | 2.96 × 10−8 | 5.82 × 10−8 | 6.4 × 10−7 | 1.65 × 10−6 | 1.64 × 10−9 | 1.68 × 10−9 | 1.25 × 10−9 | 2.53 × 10−9 | ||
Abbreviations: MCAR: missing completely at random; PLoD: probabilistic limit of detection; MICE-pmm [m = 1]: MICE-pmm with a single imputation.