Considering only SLE, we observed 68 hQTLs mapping to SLE risk haplotypes in BLK, FAM167A, HCG27, HLA-DQA1, HLA-DRB1, PXK, and SLC15A4 (ppermutation = 1.9E−4; N = 45 hQTLs expected by chance). This evidence concerns the gene SLC15A4 and systemic lupus erythematosus.