Associations of keratinocyte cancers with snp variants in the sonic hedgehog pathway

BMC Cancer

Table 1 SNP association analysis: The top 10 SNPs associated with participants who developed KC, and BCCs or SCCs exclusively

	Chr	SNP	Gene name	A1	A2	P	OR	L95	U95	Permuted P
KC	2	rs4848627	GLI2	G	A	0.0003	1.53	1.06	2.13	0.0004
	9	rs10869721	PRKACG	G	A	0.0028	1.43	1.13	1.81	0.0044
	12	rs3217882	CCND2	G	A	0.0141	1.29	1.05	1.58	0.0115
	2	rs41268683	LRP2	A	G	0.0151	1.72	1.10	2.67	0.0157
	7	rs7799478	SMURF1	A	G	0.0195	1.28	1.04	1.58	0.0209
	2	rs17050378	GLI2	A	G	0.0202	1.51	1.06	2.13	0.0171
	7	rs59136417	GLI3	A	G	0.0275	1.26	1.02	1.54	0.0302
	7	rs36113796	GLI3	A	C	0.0279	1.40	1.04	1.88	0.0215
	4	rs4689304	EVC	A	G	0.0308	1.25	1.02	1.54	0.0347
	9	rs4745514	PRKACG	A	G	0.0324	1.28	1.02	1.61	0.0260
BCC	12	rs3217882	CCND2	G	A	0.004	1.43	1.12	1.82	0.004
	1	rs970318	PRKACB	A	G	0.009	0.72	0.56	0.92	0.009
	9	rs10869721	PRKACG	G	A	0.013	1.43	1.07	1.89	0.017
	7	rs6954873	SHH	A	G	0.018	1.57	1.56	1.59	0.023
	2	rs4848627	GLI2	G	A	0.022	1.38	1.04	1.83	0.021
	1	rs7547892	PRKACB	G	A	0.025	0.76	0.59	0.96	0.029
	3	rs55814436	BOC	A	G	0.040	0.73	0.54	0.98	0.041
	4	rs2279247	EVC	G	A	0.043	0.75	0.57	0.99	0.076
	7	rs36113796	GLI3	A	C	0.044	1.43	1.00	2.02	0.035
	4	rs4689304	EVC	G	A	0.055	0.78	0.61	1.00	0.053
SCC	2	rs4848627	GLI2	G	A	0.0004	2.12	1.39	3.23	0.0003
	18	rs2849380	BCL2	A	G	0.0053	1.85	1.19	2.87	0.0075
	7	rs35280470	GLI3	A	G	0.0073	2.29	1.23	4.25	0.0064
	2	rs895485	GLI2	A	G	0.0143	0.60	0.40	0.91	0.0139
	2	rs17050378	GLI2	A	G	0.0269	1.94	107	3.51	0.0208
	4	rs735172	EVC	G	A	0.0274	1.58	1.05	2.37	0.0233
	7	rs114615136	GLI3	G	A	0.0294	1.85	1.05	3.25	0.0414
	3	rs13094203	BOC	A	G	0.0318	1.68	1.04	2.72	0.0284
	5	rs10058728	CSNK1A1	A	T	0.0440	1.50	1.01	2.23	0.0714
	3	rs73235151	BOC	A	C	0.0496	0.58	0.34	1.01	0.0743

Chr Chromosome, A1 effect Allele, A2 Non-effect Allele, P P value, L95 95% confidence interval (lower level), U95% 95% confidence interval (upper level)

ISSN: 1471-2407