Table 1. Association of NADPH oxidase genes NCF4 and RAC2 with CD in the discovery cohort.

Chromosome	SNP	Gene	Position	A1	A2	MAF	FA	FU	p Value	OR	L95	U95
22	rs6000448	NCF4	35 580 717	1	3	0.108045	0.1176	0.1007	0.1839	1.184	0.9228	1.52
22	rs10854693	NCF4	35 581 956	3	1	0.405648	0.378	0.427	0.003823	0.7925	0.6769	0.9278
22	rs1883113	NCF4	35 582 630	3	2	0.0677741	0.07546	0.06184	0.01325	1.472	1.084	2
22	rs4821542	NCF4	35 582 864	1	3	0.165449	0.1776	0.1561	0.1857	1.149	0.9354	1.411
22	rs7287350	NCF4	35 583 185	1	3	0.0548537	0.06031	0.05065	0.02581	1.47	1.048	2.063
22	rs1883112	NCF4	35 586 792	1	3	0.422821	0.3941	0.4451	0.001388	0.7732	0.6605	0.9053
22	rs4821544	NCF4	35 588 449	3	1	0.344518	0.3735	0.3221	0.005118	1.257	1.071	1.475
22	rs741997	NCF4	35 588 759	3	1	0.0843854	0.09299	0.07774	0.121	1.243	0.9442	1.636
22	rs746713	NCF4	35 589 305	3	1	0.306977	0.3011	0.3115	0.7173	0.9696	0.8202	1.146
22	rs909484	NCF4	35 590 547	1	3	0.171761	0.17	0.1731	0.8553	0.9808	0.7968	1.207
22	rs729749	NCF4	35 593 792	1	3	0.217158	0.2184	0.2162	0.7703	1.028	0.853	1.239
22	rs2075938	NCF4	35 596 268	1	3	0.279255	0.2679	0.288	0.3198	0.915	0.7682	1.09
22	rs8137456	NCF4	35 604 389	2	3	0.0687708	0.07774	0.06184	0.1693	1.24	0.9125	1.685
22	rs8137602	NCF4	35 604 595	3	2	0.0916944	0.08155	0.09953	0.07419	0.7759	0.5872	1.025
22	rs3959633	NCF4	35 605 501	1	3	0.0249169	0.03125	0.02002	0.07318	1.56	0.9591	2.537
22	rs5756379	NCF4	35 605 850	3	1	0.334551	0.3285	0.3392	0.5302	0.9483	0.8033	1.119
22	rs4821554	NCF4	35 606 030	1	3	0.257475	0.2424	0.2691	0.1157	0.8646	0.7213	1.036
22	rs5750326	NCF4	35 606 231	1	2	0.496678	0.5023	0.4923	0.9018	1.01	0.8663	1.177
22	rs5756564	RAC2	35 942 049	3	1	0.397674	0.3598	0.427	0.0006546	0.7562	0.6439	0.888
22	rs4820272	RAC2	35 945 560	1	3	0.162791	0.189	0.1425	0.001566	1.401	1.137	1.727
22	rs933222	RAC2	35 948 583	1	3	0.281395	0.295	0.2709	0.2225	1.117	0.9348	1.336
22	rs12166968	RAC2	35 951 304	2	3	0.0671096	0.0686	0.06596	0.9971	1.001	0.7332	1.365
22	rs6572	RAC2	35 951 391	3	2	0.453488	0.4947	0.4217	0.00038	1.337	1.139	1.57
22	rs739041	RAC2	35 954 945	3	1	0.434492	0.4331	0.4356	0.8488	1.015	0.8678	1.188
22	rs9607431	RAC2	35 959 884	2	1	0.135548	0.1677	0.1107	0.00008594	1.577	1.256	1.98
22	rs1476002	RAC2	35 960 734	1	3	0.12766	0.1321	0.1243	0.6058	1.065	0.8383	1.353
22	rs13058338	RAC2	35 962 716	4	1	0.256981	0.2294	0.2783	0.006391	0.7773	0.6486	0.9316
22	rs5756573	RAC2	35 963 721	1	3	0.145376	0.1437	0.1466	0.7453	1.037	0.8329	1.291
22	rs2284038	RAC2	35 965 001	3	1	0.398007	0.404	0.3934	0.6625	1.037	0.8821	1.218
22	rs2239774	RAC2	35 967 599	2	3	0.164452	0.1974	0.139	0.0001514	1.495	1.214	1.84
22	rs2239775	RAC2	35 967 787	1	2	0.134884	0.1319	0.1372	0.4163	0.9086	0.7212	1.145
22	rs2239773	RAC2	35 968 235	1	3	0.277002	0.247	0.2996	0.004515	0.7696	0.6424	0.9221
22	rs2213430	RAC2	35 968 906	1	3	0.434219	0.436	0.4329	0.6503	1.038	0.8845	1.217
22	rs6000632	RAC2	35 974 061	1	3	0.245183	0.237	0.2515	0.4481	0.9314	0.7751	1.119
22	rs4821615	RAC2	35 976 077	2	3	0.447841	0.4512	0.4452	0.8961	1.01	0.8644	1.181
22	rs12484031	RAC2	35 979 216	3	1	0.100664	0.09299	0.1066	0.2213	0.8521	0.6593	1.101
22	rs7288979	RAC2	35 979 440	3	1	0.176412	0.1608	0.1885	0.06473	0.8266	0.6754	1.012

The discovery cohort consisted of 2049 subjects (656 with Crohn's disease, 544 with ulcerative colitis and 849 controls).

p Values are presented as uncorrected. Bonferroni correction threshold for 62 SNPs and IBD/UC/CD, α=2.0×10⁻⁴.

A1/A2, allele 1/2; CD, Crohn's disease; MAF, minor allelic frequency; FA, frequency affected; FU, frequency unaffected; IBD, inflammatory bowel disease; L95 and U95, lower and upper 95th confidence interval; SNP, single nucleotide polymorphism.; UC, ulcerative colitis.