Leveraging pleiotropy identifies common-variant associations with selective IgA deficiency.

The SNP rs9632837 was near significance in our SIgAD meta-analysis (p = 7.9e-8) and became significant in the cFDR analysis.

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Another SNP, rs12955302, was close to significance in the SIgAD meta-analysis (p = 2.3e-7) before reaching it in the cFDR analysis. rs12955302 is located in an intron of PTPN2 , an immunologically salient gene, and is associated with a range of IMDs including Crohn's disease, ulcerative colitis [ 121 ], T1D [ 62 ], and coeliac disease [ 152 ].

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We chose asthma nonetheless for its status as the most prevalent atopy in SIgAD patients (19.1%) [ 18 ], its highly significant GPS test statistic (p = 0.0008), and our access to a highly-powered asthma GWAS for use as an auxiliary data set ( Supplementary Table 1 ).

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