Extended Data Fig. 4: Heat map of lipoprotein and lipid associations.

Lipoprotein and lipid associated loci with similar association patterns across the lipoprotein measures were grouped together in a dendrogram based on hierarchical clustering of the SNP effects. The apolipoprotein B associated loci (n = 134, p < 0.05) were included since apolipoprotein B represents a causal part of the lipoprotein metabolism for cardiovascular disease. The heat map illustrates the resemblances of the association landscapes; each row represents a single SNP, each column corresponds to a single metabolic measure, and the scaled effect estimates from inverse variance weighted GWAS meta-analysis for the SNP-metabolite associations are visualized with a colour range. Effect sizes were scaled relative to the absolute maximum effect size (beta) in each locus. Loci that were not identified in the previous large-scale NMR metabolomics GWAS are indicated by red. Traits with absolute maximum effects in each locus are indicated by asterisks. For clarity, two of the clusters (brown and purple) are highlighted in Extended Data Fig. 5.