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Table 3 Performance comparison of seven prediction methods in seven training scenarios for line B2

From: Genomic prediction based on data from three layer lines using non-linear regression models

 

Training data

Model

B1

B2

W1

B1 + B2

B1 + W1

B2 + W1

B1 + B2 + W1

GBLUP1

0.079

0.192

0.079

0.194

0.111

0.212

0.219

RRPCA1

0.091

0.286

0.070

0.304

0.118

0.296

0.316

MTGBLUP

0.080

0.223

-0.086

0.244

0.046

0.213

0.235

Poly

0.011

0.231

-0.083

0.231

-0.081

0.225

0.226

PolyPCA

0.002

0.230

-0.085

0.230

-0.083

0.224

0.224

RBF

0.063

0.232

0.083

0.236

0.068

0.233

0.237

RBFPCA

0.105

0.270

0.151

0.278

0.112

0.271

0.279

  1. The predictive correlation is computed as the correlation coefficient of the predicted value and phenotype of line B2; GBLUP: genome-enabled best linear unbiased prediction; RRPCA: ridge regression principal component analysis; MTGBLUP: multi-trait GBLUP; Poly: polynomial kernel based linear models; RBF: radial basis function kernel based linear models; RR/Poly/RBF-PCA: the model with the features reduced by PCA.
  2. Approximated SE across the genomic prediction models and training data sets ranged from 0.059-0.065.
  3. 1Results are presented by Calus et al. [22].