Table 3. Predictive abilities obtained with LASSO, the elastic net, BayesB, and RR-BLUP for three experimental data sets.
Predictive ability |
||||||
---|---|---|---|---|---|---|
Data | Trait | n | LASSO | Elastic net | BayesB | RR-BLUP |
Rice | Flowering time | 359 | 0.46 ± 0.013 | 0.52 ± 0.011 | 0.59 ± 0.006 | 0.59 ± 0.007 |
Plant height | 383 | 0.71 ± 0.005 | 0.73 ± 0.003 | 0.76 ± 0.002 | 0.76 ± 0.002 | |
Panicle length | 375 | 0.60 ± 0.004 | 0.61 ± 0.007 | 0.66 ± 0.006 | 0.66 ± 0.006 | |
Seed length | 377 | 0.75 ± 0.003 | 0.78 ± 0.003 | 0.75 ± 0.003 | 0.75 ± 0.003 | |
Wheat | Yield | 254 | 0.44 ± 0.010 | 0.43 ± 0.006 | 0.51 ± 0.006 | 0.51 ± 0.005 |
TKWa | 254 | 0.48 ± 0.010 | 0.48 ± 0.011 | 0.55 ± 0.004 | 0.55 ± 0.004 | |
Days to heading | 254 | 0.60 ± 0.005 | 0.61 ± 0.008 | 0.66 ± 0.005 | 0.66 ± 0.004 | |
Arabidopsis | Flowering time | 180 | 0.71 ± 0.008 | 0.65 ± 0.004 | 0.75 ± 0.004 | 0.75 ± 0.004 |
Plant diameter | 180 | 0.47 ± 0.012 | 0.49 ± 0.016 | 0.51 ± 0.006 | 0.51 ± 0.007 | |
FRIb | 164 | 0.48 ± 0.020 | 0.36 ± 0.026 | 0.41 ± 0.014 | 0.41 ± 0.013 | |
Plant width | 176 | 0.46 ± 0.024 | 0.49 ± 0.010 | 0.44 ± 0.009 | 0.43 ± 0.009 |
Predictive abilities for all 11 traits were estimated using fivefold cross-validation and results were averaged over 10 replications ± SE.
TKW, thousand-kernel weight.
FRI, FRI gene expression.