Single nucleotide polymorphisms and sporadic colorectal cancer susceptibility: a field synopsis and meta-analysis

Wen, Jing; Xu, Qian; Yuan, Yuan

doi:10.1186/s12935-018-0656-2

Cancer Cell International

Table 2 Genetic variants associated with NHCRC after meta-analyses of at least three independent datasets (subgroup meta-analyses)

From: Single nucleotide polymorphisms and sporadic colorectal cancer susceptibility: a field synopsis and meta-analysis

Gene	SNPs	Chr	Alleles^a	Datasets	Subgroups	Cases	Controls	OR	CI-U	CI-L	P	FDR	Venice criteria	Level of evidence
TGF-β1	rs1800469	19	C-T	16	Asian	14494	32550	0.911	0.885	0.938	2.43E−10	2.03E−09	AAA	High
LOC105376400	rs10795668	10	G-A	4	Asian	2479	2659	0.803	0.741	0.872	1.37E−07	7.41E−07	AAA	High
KRAS	rs712	12	G-T	3	Asian	1355	1219	1.405	1.226	1.610	9.99E−07	4.37E−06	AAA	High
ADIPOR1	rs1342387	1	G-A	3	Asian	1218	1724	0.779	0.697	0.870	9.22E−06	3.07E−05	AAA	High
ADIPOQ	rs2241766	3	T-G	5	Asian	2143	2666	1.215	1.111	1.328	6.03E−05	1.63E−04	AAA	High
miR-196a2	rs11614913	12	C-T	4	Asian	1397	2040	0.836	0.757	0.922	3.54E−04	8.79E−04	AAA	High
BMP2	rs961253	20	C-A	21	Caucasian	38172	38356	1.115	1.092	1.139	3.57E−24	1.64E−22	AAA	High
BMP4	rs4444235	14	T-C	22	Caucasian	34181	34254	1.086	1.063	1.110	5.22E−14	8.00E−13	AAA	High
SMAD7	rs12953717	18	C-T	8	Caucasian	10640	9845	1.161	1.116	1.208	1.16E−13	1.53E−12	AAA	High
GREM1-SCG5	rs4779584	15	C-T	12	Caucasian	21029	19867	1.16	1.092	1.232	1.45E−06	5.80E−06	AAA	High
LOC105376400	rs10795668	10	G-A	4	Caucasian	3265	2822	0.87	0.804	0.942	0.001	0.002	AAA	High
CCND1	rs9344	11	G-A	7	Rectum	775	2241	1.272	1.126	1.436	1.05E−04	2.77E−04	AAA	High
MTHFR	rs1801131	1	A-C	6	Rectum	1625	2987	0.858	0.775	0.949	0.003	0.006	AAA	High
LOC105376400	rs10795668	10	G-A	3	TNM12	766	2423	0.773	0.682	0.875	4.65E−05	1.38E−04	AAA	High
CCND1	rs9344	11	G-A	4	TNM12	343	740	1.366	1.134	1.646	0.001	0.002	AAA	High
ABCB1	rs1045642	7	C-T	5	Asian	1567	1857	0.866	0.786	0.955	0.004	0.007	ABA	Intermediate
CYP1A1	rs1048943	15	A-G	7	Caucasian	1779	1946	1.251	1.038	1.508	0.019	0.026	BAA	Intermediate
MDM2	rs2279744	12	T-G	4	Caucasian	1325	473	0.826	0.704	0.969	0.019	0.026	ABA	Intermediate
CCAT2	rs10090154	8	C-T	3	Caucasian	1084	1049	1.254	1.028	1.529	0.026	0.033	BAA	Intermediate
VDR	rs731236	12	T-C	3	Colon	677	578	1.291	1.06	1.573	0.011	0.017	BAA	Intermediate
PPARG	rs1801282	3	C-G	4	Colon	998	3368	0.772	0.619	0.963	0.022	0.029	BAA	Intermediate
TP53	rs1042522	17	G-C	5	TNM12	249	975	1.41	1.147	1.734	0.001	0.002	BAA	Intermediate
XRCC1	rs25487	19	G-A	3	TNM12	165	420	1.323	1.021	1.713	0.034	0.038	BBA	Intermediate
miR-196a2	rs11614913	12	C-T	3	TNM12	279	1249	0.823	0.682	0.994	0.043	0.045	ABA	Intermediate
MTHFR	rs1801133	1	C-T	4	TNM34	207	715	1.715	1.338	2.200	2.09E−05	6.39E−05	BAA	Intermediate
CCND1	rs9344	11	G-A	5	TNM34	340	860	1.254	1.046	1.503	0.014	0.021	ABA	Intermediate
CCAT2	rs6983267	8	G-T	8	Asian	11190	10699	0.846	0.791	0.906	1.43E−06	5.80E−06	ACA	Low
miR-27a	rs895819	19	T-C	3	Asian	1174	1212	1.237	1.096	1.395	0.001	0.002	AAC	Low
BMP4	rs4444235	14	T-C	4	Asian	4136	4765	1.089	1.026	1.156	0.005	0.009	ABC	Low
MMP9	rs3918242	20	C-T	4	Asian	702	888	0.754	0.605	0.939	0.012	0.018	BAC	Low
PTGS2	rs20417	1	G-C	3	Asian	1285	1740	1.422	1.08	1.872	0.012	0.018	BBC	Low
GREM1-SCG5	rs4779584	15	C-T	4	Asian	4122	4681	1.134	1.003	1.283	0.045	0.047	ACC	Low
C11orf92–C11orf93	rs3802842	11	A-C	11	Caucasian	12983	12139	1.139	1.095	1.184	6.32E−11	5.81E−10	ABC	Low
SMAD7	rs4464148	18	T-C	7	Caucasian	9020	7860	1.139	1.087	1.194	4.74E−08	3.11E−07	AAC	Low
CCAT2	rs6983267	8	G-T	17	Caucasian	21026	18580	0.85	0.798	0.904	2.97E−07	1.44E−06	ACA	Low
SMAD7	rs4939827	18	T-C	13	Caucasian	12657	11621	0.853	0.801	0.908	5.86E−07	2.69E−06	ACA	Low
CDH1	rs9929218	16	G-A	13	Caucasian	18291	19311	0.926	0.897	0.956	2.17E−06	7.67E−06	AAC	Low
RHPN2	rs10411210	19	C-T	12	Caucasian	19240	20177	0.859	0.799	0.925	5.25E−05	1.51E−04	ACA	Low
TERT	rs2736100	5	G-T	8	Caucasian	14486	15588	1.072	1.036	1.109	5.83E−05	1.62E−04	AAC	Low
NA	rs719725	9	A-C	12	Caucasian	10035	10281	0.935	0.898	0.973	0.001	0.002	AAC	Low
NQO1	rs1800566	16	C-T	9	Caucasian	4496	4794	1.119	1.039	1.206	0.003	0.006	AAC	Low
CDH1	rs16260	16	C-A	5	Caucasian	5603	6646	0.927	0.876	0.981	0.008	0.013	AAC	Low
TGF-β1	rs1800469	19	C-T	5	Caucasian	2910	3684	0.915	0.845	0.987	0.021	0.028	ABC	Low
MTR	rs1805087	1	A-G	10	Caucasian	6884	8873	0.936	0.884	0.991	0.023	0.029	ABC	Low
NA	rs11568820	12	G-A	4	Caucasian	2701	2721	1.107	1.011	1.213	0.028	0.035	AAC	Low
RFC/SLC19A1	rs1051266	21	A-G	5	Caucasian	1922	3142	0.915	0.843	0.992	0.032	0.037	AAC	Low
GREM1	rs16969681	15	C-T	5	Caucasian	6411	8146	1.175	1.003	1.378	0.046	0.047	ACA	Low
CCAT2	rs6983267	8	G-T	5	Colon	1593	2439	0.823	0.706	0.959	0.012	0.018	ACA	Low
CCND1	rs9344	11	G-A	8	Colon	877	2394	1.147	1.024	1.284	0.018	0.025	AAC	Low
MSH6	rs1042821	2	C-T	3	Colon	3448	5447	1.091	1.008	1.181	0.032	0.037	AAC	Low
SMAD7	rs4939827	18	T-C	4	colon	2259	2809	0.92	0.85	0.995	0.037	0.041	ABC	Low
ABCB1	rs1045642	7	C-T	5	Colon	469	635	1.198	1.009	1.423	0.039	0.042	AAC	Low
CCAT2	rs6983267	8	G-T	4	Rectum	652	1718	0.756	0.599	0.953	0.018	0.025	ACA	Low
CCAT2	rs6983267	8	G-T	4	TNM34	747	2185	0.834	0.739	0.941	0.003	0.006	AAC	Low

Chr chromosome, FDR false discovery rate
^aMajor alleles-minor alleles; Venice criteria: A (high), B (moderate), C (weak) credibility for three parameters (amount of evidence, heterogeneity and bias; see text and Additional file 1 for more details); level of evidence: overall level of summary evidence according to the Venice criteria

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