MOESM9 of Evaluation of the accuracy of imputed sequence variant genotypes and their utility for causal variant detection in cattle

Additional file 9: Figure S8. Detailed view of a milk fat percentage QTL on bovine chromosome 27. Different colours represent the linkage disequilibrium between the top variant (violet) and all other variants. Blue arrows indicate the direction of the gene transcription. The top variant (36,211,258 bp) was associated with fat percentage (P = 1.9 × 10−8) albeit not at the genome-scale. Twenty-two variants in high LD (r2 > 0.68) with the top variant were located between 36,200,888 and 36,253,406 bp and had P values less than 7.7 × 10−7. Among those were three candidate causal variants (36,211,252 bp with P = 2.4 × 10−8, 36,211,708 bp with P = 2.8 × 10−8, 36,209,319 bp with P = 3.3 × 10−8) for fat content in the early lactation that were reported in Daetwyler et al. [2]