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Table 1 Description of the scenarios used to mimic different types of genotype errors and parameters set

From: Level-biases in estimated breeding values due to the use of different SNP panels over time in ssGBLUP

Scenario

Diaga

Further description

1

0

1000 missing random SNPs for each Affyb animal

2

0

1000 common random missing SNPs for Affy animals

3

0

1000 common random SNP genotypes randomly changed for Affy animals, equal probability for all genotypes

4

0

1000 common random SNP genotypes randomly changed for Affy animals, probability based on Hardy–Weinberg genotype frequency

BaseLine

0

 

D-2

10−2

 

D-3

10−3

 

D-4

10−4

 
  1. aParameter added to the diagonal of the genomic relationship matrix to make it invertible
  2. bAnimal genotyped on the customized Affymetrix 55 k SNP chip
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Genetics Selection Evolution

ISSN: 1297-9686