Figure 3 illustrates associations between polygenic scores and various substance use phenotypes in the forms of ever use and SUD criterion counts. Neither the ALCP-total PGS nor the ALCP-specific PGS were associated with ever using alcohol in Add Health or COGA. For AUD criteria, the ALCP-total PGS explained 0.52% of the variance (Δ\documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document}$$R_{{\rm{ALCP}} {\mbox{-}} {\rm{total}}}^2$$\end{document}RALCP-total2) in Add Health and 1.72% of the variance in COGA, compared to the ALCP-specific PGS, which explained 0.28% of the variance in Add Health and 0.85% of the variance in COGA. Supplementary Table 3 presents a full comparison of the EXT, ALCP-specific, and ALCP-total PGS for AUD criterion counts. The ALCP-total PGS was associated with cannabis use and other substance use in Add Health (ORALCP-total = 1.15–1.20, ΔR2 = 0.56–0.90%) and all forms of use in COGA (ORALCP-total = 1.20–1.27, ΔR2 = 0.65–1.26%). Additionally, the ALCP-total PGS was associated with cannabis use disorder criteria in both COGA and Add Health (βALCP-total = 0.11–0.16, ΔR2 = 0.26–0.31%), and nicotine dependence criteria in COGA (βALCP-total = 0.20, ΔR2
