Table 1.

Top 10 SNPs identified by SKAT among 23 Crohn's disease susceptibility genes. The total number of SNPs is 2046, and the Bonferroni‐corrected significance threshold is 2.4 × 10⁻⁵

Rank	Chr	Pos	SNP	P‐value	Gene	Description	MAF	Odds ratio	95% CI
1	Chr3	49723141	rs144982232	1.78E‐05	MST1	A>G	0.038	4.87	2.25, 10.54
2	Chr9	5078117	rs1159782	2.34E‐04	JAK2	T>C	0.053	3.72	2.03, 6.82
3	Chr16	50734033	rs2111234	7.59E‐04	NOD2	G>A	0.034	5.09	2.24, 11.58
4	Chr9	117569046	rs7848647	1.46E‐03	TNFSF15	T>C	0.448	0.69	0.55, 0.87
5	Chr10	64418656	rs7915131	1.34E‐03	ZNF365	C>T	0.343	0.68	0.54, 0.87
6	Chr1	114377148	rs1970559	3.29E‐03	PTPN22	T>C	0.041	0.39	0.21, 0.72
7	Chr1	114396955	rs2476602	4.09E‐03	PTPN22	G>A	0.039	0.38	0.20, 0.73
8	Chr10	64426056	rs4746516	2.03E‐03	ZNF365	G>T	0.200	0.63	0.47, 0.84
9	Chr9	5069837	rs7869668	3.29E‐03	JAK2	G>A	0.417	1.44	1.15, 1.82
10	Chr10	64418089	rs10822044	4.33E‐03	ZNF365	T>C	0.231	0.68	0.52, 0.89

MAF, minor allele frequencies; SKAT, sequence kernel association test; SNP, single nucleotide polymorphisms.