Exploring the causal role of the immune response to varicella-zoster virus on multiple traits: a phenome-wide Mendelian randomization study

Yu, Xinzhu; Lophatananon, Artitaya; Mekli, Krisztina; Muir, Kenneth R.; Guo, Hui

doi:10.1186/s12916-023-02843-5

Table 1 Instrumental variables identified from the genome-wide association scan

From: Exploring the causal role of the immune response to varicella-zoster virus on multiple traits: a phenome-wide Mendelian randomization study

SNP	CHR	Position	Minor allele	Beta	SE	MAF	P value	F-statistic	R²	MHC region
rs749003	1	118,531,980	C	0.053	0.013	0.142	4.98E − 05	16.479	0.003	No
rs843971	1	153,277,423	T	− 0.037	0.009	0.367	7.71E − 05	15.647	0.002	No
rs114925113	1	170,714,714	A	− 0.139	0.033	0.017	2.63E − 05	17.679	0.003	No
rs2642449	1	220,985,677	C	− 0.060	0.013	0.139	3.06E − 06	21.819	0.003	No
rs708108	1	228,189,855	T	− 0.037	0.009	0.402	8.41E − 05	15.482	0.002	No
rs74482711	2	127,357,322	G	− 0.067	0.016	0.092	3.74E − 05	17.013	0.003	No
rs34499171	2	129,591,736	T	0.045	0.011	0.192	7.62E − 05	15.667	0.002	No
rs61731470	2	211,085,491	A	0.112	0.028	0.028	5.96E − 05	16.132	0.003	No
rs12471761	2	241,310,093	G	− 0.110	0.028	0.028	7.47E − 05	15.702	0.002	No
rs17495909	3	1,323,130	C	− 0.097	0.022	0.042	1.22E − 05	19.169	0.003	No
rs809764	3	61,958,023	G	− 0.039	0.010	0.327	5.27E − 05	16.372	0.003	No
rs116664692	3	62,271,345	G	0.180	0.046	0.010	8.90E − 05	15.380	0.002	No
rs11706859	3	100,713,091	C	− 0.137	0.034	0.019	7.03E − 05	15.819	0.002	No
rs35573656	3	126,612,552	C	− 0.073	0.018	0.072	3.00E − 05	17.442	0.003	No
rs73112967	4	27,778,474	C	− 0.083	0.020	0.055	5.44E − 05	16.302	0.003	No
rs156572	4	155,739,138	T	− 0.109	0.025	0.036	1.23E − 05	19.141	0.003	No
rs72696744	4	163,745,634	T	0.117	0.029	0.025	4.75E − 05	16.577	0.003	No
rs1395479	4	178,318,191	A	− 0.043	0.010	0.264	2.68E − 05	17.650	0.003	No
rs78827810	4	186,683,778	G	− 0.115	0.029	0.026	8.06E − 05	15.553	0.002	No
rs56244403	6	24,017,867	T	− 0.038	0.010	0.383	8.13E − 05	15.546	0.002	No
rs12193110	6	29,937,104	T	− 0.065	0.010	0.299	8.83E − 11	42.179	0.007	Yes
rs17200698	6	31,483,700	T	− 0.087	0.022	0.049	5.14E − 05	16.425	0.003	Yes
rs116462901	6	31,488,532	C	− 0.138	0.032	0.020	2.17E − 05	18.059	0.003	Yes
rs3129888	6	32,411,726	G	− 0.058	0.011	0.194	2.66E − 07	26.544	0.004	Yes
rs1048381	6	32,610,445	A	0.116	0.012	0.171	9.28E − 23	97.288	0.015	Yes
rs80018618	6	37,337,516	A	0.161	0.039	0.013	4.04E − 05	16.864	0.003	No
rs41265357	6	71,238,178	G	− 0.186	0.047	0.010	7.06E − 05	15.816	0.002	No
rs2180346	6	168,944,598	C	0.072	0.015	0.106	9.25E − 07	24.110	0.004	No
rs72695580	9	6,632,950	G	0.170	0.042	0.014	6.02E − 05	16.118	0.003	No
rs11139344	9	84,239,037	C	0.042	0.010	0.268	3.49E − 05	17.164	0.003	No
rs116919233	9	119,991,655	T	− 0.123	0.031	0.021	8.77E − 05	15.398	0.002	No
rs1072523	10	28,819,406	A	0.036	0.009	0.492	8.63E − 05	15.436	0.002	No
rs3759012	11	118,901,262	T	0.036	0.009	0.386	8.99E − 05	15.356	0.002	No
rs11609865	12	105,952,417	C	− 0.073	0.018	0.068	5.83E − 05	16.173	0.003	No
rs116950913	12	132,889,076	A	− 0.101	0.025	0.038	4.66E − 05	16.605	0.003	No
rs75782087	13	38,822,878	T	− 0.096	0.023	0.037	3.94E − 05	16.932	0.003	No
rs111259346	13	39,377,730	G	− 0.092	0.024	0.034	9.86E − 05	15.181	0.002	No
rs73241676	13	82,454,247	G	0.055	0.014	0.131	5.36E − 05	16.332	0.003	No
rs72740509	15	56,533,519	T	− 0.055	0.014	0.123	6.59E − 05	15.954	0.002	No
rs9747501	17	2,739,061	A	0.043	0.010	0.260	3.62E − 05	17.085	0.003	No
rs12948236	17	65,633,567	C	0.037	0.009	0.426	6.97E − 05	15.841	0.002	No
rs6507201	18	35,016,217	A	0.038	0.009	0.359	6.26E − 05	16.042	0.002	No
rs319445	18	55,360,524	A	0.055	0.014	0.122	8.86E − 05	15.390	0.002	No
rs622989	19	7,574,308	C	0.127	0.032	0.020	6.79E − 05	15.875	0.002	No
rs34335847	19	14,705,499	A	− 0.061	0.015	0.102	4.25E − 05	16.780	0.003	No
rs45465702	20	33,320,571	C	− 0.050	0.012	0.184	2.04E − 05	18.189	0.003	No
rs78492969	20	49,248,213	T	− 0.101	0.024	0.037	2.39E − 05	17.868	0.003	No
rs62222450	21	40,471,448	T	0.073	0.018	0.063	6.07E − 05	16.110	0.003	No
rs117884976	22	28,107,887	T	− 0.112	0.029	0.024	9.00E − 05	15.359	0.002	No

F-statistic, F-statistic of the SNP-exposure association test, R², the proportion of variance in the anti-VZV IgG level explained by a given SNP, MAF minor allele frequency

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