We were able to replicate leprosy associations at 2 loci (Fig 5A); a missense SNP in LACC1, rs3764147 (p = 0.004, OR = 1.36 95% CI 1.10 − 1.67), and a missense SNP in SLC29A3, rs780668 (p = 0.034, OR = 1.28 95% CI 1.02 − 1.60). This evidence concerns the gene SLC29A3 and leprosy.