Supplementary Figure 4: Association testing with imputed sequence variants in the region of the DGAT1 gene. | Nature Genetics

Supplementary Figure 4: Association testing with imputed sequence variants in the region of the DGAT1 gene.

From: Meta-analysis of genome-wide association studies for cattle stature identifies common genes that regulate body size in mammals

Supplementary Figure 4

a,b, Sequence variant genotypes were imputed in 6,777 Fleckvieh and 5,204 Holstein animals using the 1000 Bull Genomes Run4 multi-breed reference population with Minimac44. Association tests were performed between imputed sequence variant genotypes on chromosome 14 and daughter-derived values for fat percentage. Association testing was carried out with EMMAX5 using the -Z flag to consider predicted allele dosages for the imputed sequence variants. The association testing revealed the causal mutation (p.A232K) in the DGAT1 gene56 to be the most significantly associated variant in Fleckvieh (a) and Holstein (b) cattle, as has been demonstrated in an earlier run of the 1000 Bull Genomes project4. The frequency of the minor allele was 0.31, 0.07 and 0.12 in Holstein and Fleckvieh cattle, respectively. Data were used from Pausch et al10.

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