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Fig. 4 | Canine Genetics and Epidemiology

Fig. 4

From: Evaluation of whole-genome sequencing of four Chinese crested dogs for variant detection using the ion proton system

Fig. 4

Concordance with Illumina HD canine SNP array. a Left pie-chart: Concordance between genotypes from two individual dogs detected by the 170 k Illumina HD canine SNP array (CanineHD BeadChip) and called variants from NGS data using UnifiedGenotyper. 90.58 % of the genotypes were concordant, 7.30 % were discordant, 0.69 % were only called by UnifiedGenotyper, 1.30 % were called only by the SNP array and 0.12 % failed with both UnifiedGenotyper and SNP array. b Right pie-chart: Distribution of discordant genotypes based on the type of discordance. The reference allele is coded with 0 and alternative allele with 1. Thus 60 % of discordant genotypes were called homozygous for reference allele with UnifiedGenotyper and heterozygous with the SNP array (0/0:0/1); 17 % (0/1:1/1 or 0/0); 13 % (0/0:1/1); and 10 % (1/1:0/1)

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Canine Medicine and Genetics

ISSN: 2662-9380