Epistatic interactions between thirteen loci such as ABCA1, APOC1, CETP, F2, GALNT2, LILRA3, LPA, NPC1L1, PLTP, ST3GAL4, ZNF648, SCARB1, and PPP1R3B contribute to the carotid intima-media thickness in coronary artery disease patients. Here, PLTP is linked to coronary artery disorder.