Table 2. SNP association results for ORMDL3, PDE4D, DENND1B and IL1RL1.

					Allele frequency
Region	Gene	Literature SNP, allelea	Reported OR	Power, %b	Cases	Controls	OR	95% CI OR	P-value
(a) Most-associated variant reported in the original studies
17q12-21	ORMDL3	rs7216389, T	1.45	100	0.53	0.47	1.25	1.12–1.40	6.0 × 10−5
5q12	PDE4D	rs1588265, G	0.85	78	0.31	0.30	1.05	0.93–1.18	0.4334
1q31	DENND1B	rs1775456, G	0.75	93	0.21	0.20	1.02	0.89–1.17	0.7862
2q12	IL1RL1	rs1420101, T	1.16	77	0.39	0.38	1.04	0.93–1.17	0.4649
					Allele frequency			P-value
Region	Gene	Best SNP, allelea	N SNPs testedc	LD with literature SNP, rb	Cases	Controls	OR	Uncorrected	Correctedd
(b) Most-associated variant in this study
17q12-21	ORMDL3	rs6503525,C	232	0.61	0.50	0.43	1.33	4.8 × 10−7	0.0002
5q12	PDE4D	rs17725522,C	1503	0.00	0.06	0.08	0.68	0.0007	0.1948
1q31	DENND1B	rs12094462,G	171	0.03	0.10	0.12	0.81	0.0229	0.3238
2q12	IL1RL1	rs10197862,G	182	0.09	0.12	0.16	0.75	0.0004	0.0122

^aAll four SNPs in (a) were present in the Illumina chips used and passed QC filters. The top SNPs listed in (b) were imputed with high confidence with MACH, with nearby genotyped SNPs providing comparable evidence for association (cf. Figure 1).

^bPower to detect the initial association at α=0.05 in this study.

^cNumber of SNPs located in or within 50 kb of each gene. For ORMDL3, we considered all SNPs located between 50 kb downstream of GSDMB and 50 kb upstream of GSDMA.

^dSignificance of the best SNP after accounting for the number of and LD between all SNPs tested in the respective gene, estimated from 10 000 permutations.