Fig. 2: Effect-size comparison across ancestry groups of lead variants identified in stroke GWASs and cross-ancestry fine-mapping.
From: Stroke genetics informs drug discovery and risk prediction across ancestries
a, Plots showing the Pearson’s correlation coefficient (r) between the effect sizes (β) of the 60 stroke-risk alleles on AS significant after multiple-testing correction (P < 0.017) in Europeans and East Asians (left; r (95% CI) = 0.66 (0.47–0.79), P = 1 × 10−7); Europeans and African Americans (middle; r (95% CI) = 0.55 (0.33–0.71), P = 2 × 10−5); and East Asians and African Americans (right; r (95% CI) = 0.74 (0.58–0.85), P = 8 × 10−10). n = 60 independent stroke-risk variants from the IVW meta-analyses were used to compute Pearson’s correlation coefficients (r) of the effect sizes between ancestries. The nearest gene is reported for SNPs showing a difference in effect size (β, absolute value) of >0.05 between a pair of ancestries. The dots represent the effect-size (β) estimates and the bars represent the 95% CI of the estimates. Two-sided P values of the deviation of Pearson’s correlation coefficient from zero are reported. Colour corresponds to genome-wide significant association (P < 5 × 10−8) in individual ancestries: purple, European only (±cross-ancestry); green, East Asian only (±cross-ancestry); yellow, African American only (±cross-ancestry); blue, both ancestries (±cross-ancestry); red, cross-ancestry only; grey, not genome-wide significant in two plotted ancestries and in cross-ancestry. b, Locus plots of variants at SH3PXD2A in five ancestries. Fine-mapped variants are shown only in European and East Asian individuals (insufficient power for other ancestries). Variants are coloured on the basis of their linkage disequilibrium with the cross-ancestry lead variant (rs4918058), shown by the purple diamonds. In the fine-mapping plots, variants in the SuSiE 95% credible sets (CS) are shown. Shared variants between credible sets of European and East Asian participants are indicated by black circles. The red vertical lines represent the position of the lead variants in European (rs55983834) and East Asian (rs4918058) participants. The grey dashed horizontal lines represent P = 5 × 10−8. The linkage disequilibrium of each ancestry was derived from the 1000 Genomes Project.
