After adjusting for CVD risk factors, 4 CpGs (cg05575921 (AHRR), cg09935388 (GFI1), cg21161138 (AHRR), and cg18168448 (LRRC52)) remained significantly associated with multi-site atherosclerosis. CpG cg05575921 was also associated with AAC and cg09935388 with ABI (FDR < 0.1). Here, GFI1 is linked to atherosclerosis.