Table 2 Genetic associations with EGPA

						Total EGPA N = 534			MPO+ EGPA N = 159		ANCA −ve EGPA N = 352		cFDR asthma analysis N = 10,365		cFDR EC analysis N = 175,000
Chr	Variant rsid	Gene/ Region	Cont maf	Case maf	OR	LMM P	Meta OR	Meta P	MPO OR	MPO P	OR	P	P asthma	cFDR^ (EGPA\| asthma)	P EC	cFDR^‡ (EGPA\| EC)
2	rs72946301	BCL2L11	0.1	0.17	1.66	1.9 × 10⁻¹⁰	1.81	9.0 × 10⁻¹¹	1.89	7.7 × 10⁻⁵	1.76	3.6 × 10⁻⁷
5	rs1837253	TSLP	0.26	0.17	1.42	1.5 × 10⁻¹⁰	1.52	5.2 × 10⁻¹¹	1.46	0.0008	1.53	1.2 × 10⁻⁸
6	rs9274704	HLA-DQ	0.17	0.27	1.98	8.2 × 10⁻¹⁶	2.01	1.2 × 10⁻²⁰	5.68	1.1 × 10⁻²⁸	1.32	0.004
10	rs34574566	10p14	0.31	0.24	0.73	8.0 × 10⁻⁸	0.7	2.9 × 10⁻⁸	0.66	0.0004	0.7	9.9 × 10⁻⁶
7	rs42041	CDK6	0.24	0.31	1.32	1.9 × 10⁻⁶			1.34	0.014	1.36	9.7 × 10⁻⁵			4.5 × 10⁻⁸	0.0003
5	rs11745587^†	IRF1/IL5	0.35	0.4	1.31	2.1 × 10⁻⁷			1.16	0.17	1.47	1.8 × 10⁻⁸	0.002	1.9 × 10⁻⁵	1.6 × 10⁻²⁹	3.6 × 10⁻⁵
6	rs6454802	BACH2	0.4	0.31	0.8	2.2 × 10⁻⁶			0.81	0.024	0.74	3.8 × 10⁻⁶	0.002	0.0002	1.0 × 10⁻¹⁸	0.0002
3	rs9290877	LPP	0.3	0.38	1.27	4.7 × 10⁻⁶			1.48	0.0007	1.24	0.0006			9.0 × 10⁻¹⁴	0.0002
1	rs72689399	GPA33	0.01	0.03	2.7	6.7 × 10⁻⁷			0.89	0.96	5.34	1.1 × 10⁻⁹
6	rs6931740	HLA	0.39	0.25	0.62	1.7 × 10⁻¹⁰			0.55	1.6 × 10⁻⁵	0.61	4.2 × 10⁻⁸
12	rs78478398	12q21	0.03	0.05	0.59	0.0017			0.17	1.7 × 10⁻⁸	0.81	0.37

EC eosinophil count. Genome wide significant associations highlighted in bold. P asthma, p value from the GWAS by Moffatt et al.¹² P EC, p value from the GWAS by Astle et al.¹³
^Reached genome wide significance in EGPA by cFDR. Significance threshold cFDR < 3.9 × 10⁻⁴, FDR (excl MHC) < 4.3 × 10⁻³ (equivalent to P 5 × 10⁻⁸)
^‡Reached genome wide significance in EGPA by cFDR. Significance threshold cFDR < 3.1 × 10⁻⁴, FDR (excl MHC) < 3.5 × 10⁻³ (equivalent to P 5 × 10⁻⁸)
^†SNP most associated with EGPA that was directly genotyped in asthma. Stronger EGPA associations exist at this locus

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