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Table 4 Predictive abilities of the models on the mouse data. Comparison of the predictive abilities as Pearson’s correlation of the measured phenotypes and the predictions for the individuals of the test set (130 test set genotypes). Here, the already for fixed effects pre-corrected residuals of the phenotypes, which are also provided by the publicly available data, were used

From: Genomic prediction with epistasis models: on the marker-coding-dependent performance of the extended GBLUP and properties of the categorical epistasis model (CE)

 

GBLUP

EGBLUP 0,1,2

EGBLUP -2,-1,0

EGBLUP -1,0,1

EGBLUP VR

CM

CE

Gaussian kernel

W6W

0.493ab

0.540c

0.505ad

0.545c

0.553ce

0.486b

0.514d

0 . 5 6 5 e

W10W

0.466a

0.491bc

0.474ab

0.495bc

0.461a

0.466a

0.479ab

0 . 5 0 3 c

GrowthSlope

0.347a

0.363ab

0.350a

0.364ab

0 . 3 7 5 b

0.355ab

0.363ab

0.371b

BMI

0.195a

0.204a

0.200a

0 . 2 1 0 a

0.194a

0.153b

0.166b

0 . 2 1 0 a

BodyLength

0.271a

0.282a

0.276a

0 . 2 8 5 a

0.275a

0.226b

0.240b

0.284a

%B220

0.549ab

0.573cde

0.556abc

0.576de

0.540a

0.547ab

0.561bcd

0 . 5 7 9 e

%CD3

0.522a

0.535a

0.527a

0 . 5 3 6 a

0.485b

0.521a

0.528a

0.535a

%CD4

0.495a

0.506a

0.499a

0 . 5 0 8 a

0.458b

0.495a

0.502a

0.506a

%CD8

0.694a

0.703ab

0.699ab

0.706ab

0.656c

0.706ab

0 . 7 1 1 b

0.702ab

%CD4/CD3

0.643a

0.655abc

0.647ab

0.656abc

0.618d

0.660bc

0 . 6 6 4 c

0.653abc

%CD8/CD3

0.683a

0.689ab

0.687a

0.690ab

0.638c

0.701b

0 . 7 0 2 b

0.686a

CD4Intensity

0.581a

0.601b

0.587ab

0 . 6 0 3 b

0.561c

0.578ac

0.586ab

\(\mathbf {0.603}^{^{b}}\)

CD8Intensity

0.388a

0.442b

0.401a

0.450b

0 . 4 8 1 c

0.406a

0.434b

0.475c

  1. Letters indicate groups that were not distinguishable at a 5% significance level in a Tukey’s ‘Honest Significant Difference’ test For a description of the traits see the corresponding UCL website which is at the moment http://mtweb.cs.ucl.ac.uk/mus/www/mouse/HS/index.shtml