Fig. 3
Examples of dominance QTLs. a, b Body weight and hemoglobin in F2 pigs. c, d Mean corpuscular hemoglobin and absolute CD8 + T cells in HS rats. e, f Proportion of CD3 + cells expressing CD8 + and glucose slope in HS mice. Within each part (a–f), the upper and lower panels show Manhattan plots for Add vs Add-Dom model respectively. Manhattan plot SNPs with − log10(P) > 0.5 are colored based on their ratios \(\left|{t}_{Dom}/{t}_{Add}\right|\) to indicate their degree of dominance (Blue: additive, Sky blue: partial-dominant, Purple: complete-dominant, Red: over-dominant). Each panel includes insets representing the regional QTL plot and the phenotypic distribution of the peak SNP. Within each Manhattan plot, the QTL is marked by a red dotted rectangular frame, left column (a, c, e) for enhanced eQTLs and right column (b, d, f) for novel eQTLs. Color coding in regional Manhattan plots instead represents linkage disequilibrium (R2) with the top SNP