Table 1 Comparison of mean R2 and mean number of significant SNPs across 100 cross-validation runs, calculated for two models and four traits

From: Estimating parent-specific QTL effects through cumulating linked identity-by-state SNP effects in multiparental populations

Trait

R 2 val

R 2 train

Number of significant SNPs

 

'IBS-M'

'IBD-M × F'

'IBS-M'

'IBD-M × F'

'IBS-M'

'IBD-M × F'

HEA

0.62

0.63

0.85

0.76

80

6

TGW

0.52

0.31

0.77

0.40

74

2

THR

0.78

0.82

0.89

0.86

54

3

GrCol

0.71

0.85

0.93

0.95

80

5

Mean

0.66

0.65

0.86

0.74

72

4

  1. Abbreviations: GrCol, grain colour; HEA, heading; IBD, identical by descent; IBS, identical by state; R2train, model fit of the training set; R2val, prediction ability; SNP, single-nucleotide polymorphism; TGW, thousand grain weight; THR, threshability.
  2. Traits studied: HEA, TGW, THR and GrCo; Models applied: only marker main effects based on IBS (‘IBS-M’) and only marker-by-family effects based on IBD genotypes (‘IBD-M × F’). The last row indicates the mean across traits.
Back to article page