For the rheumatoid arthritis pathway, sCLC identifies 104 SNPs mapped to 11 genes that are enriched in this pathway, including HLA-DMA, HLA-DMB, ATP6V1G2, HLA-DRA, LTB, TNF, HLA-DOB, HLA-DQA2, HLA-DRB1, HLA-DQA1, and HLA-DQB1. Here, HLA-DQB1 is linked to rheumatoid arthritis.