Table V.

Association analysis for BMI-increasing GWAS risk alleles with the diagnosis of PCOS.

Chr	Position	SNP	Nearest gene(s)	Risk increasing allele	Risk allele frequency	OR	95%_CI	P value
-	-	Genetic risk score	-	-	-	1.043	1.01–1.08	0.012
1	47457264	rs977747	TAL1	T	0.392	0.96	0.73–1.28	0.80
1	49210592	rs3127553a	AGBL4	G	0.372	0.96	0.73–1.26	0.77
1	50332407	rs11583200	ELAVL4	C	0.386	1.00	0.76–1.32	0.98
1	72523773	rs3101336	NEGR1	C	0.642	1.14	0.87–1.51	0.34
1	74764232	rs1514175a	FPGT, TNNI3K	T	0.435	1.00	0.75–1.32	0.97
1	78219349	rs12401738	FUBP1	A	0.327	0.85	0.64–1.13	0.26
1	96696685	rs11165643	PTBP2	T	0.573	0.93	0.71–1.23	0.62
1	109956211	rs17024393	GNAT2	C	0.028	1.18	0.53–2.76	0.70
1	176156103	rs543874	SEC16B	G	0.192	1.23	0.88–1.73	0.22
1	200050910	rs2820292	NAV1	C	0.539	1.14	0.86–1.49	0.36
2	622348	rs13021737	TMEM18	G	0.804	0.96	0.66–1.38	0.81
2	25003800	rs10182181	ADCY3	G	0.478	1.19	0.91–1.56	0.20
2	26782315	rs11126666	KCNK3	A	0.261	0.87	0.63–1.20	0.39
2	59159129	rs1016287	LINC01122	T	0.289	1.02	0.75–1.40	0.88
2	62906552	rs11688816	EHBP1	G	0.511	1.03	0.79–1.37	0.78
2	142759755	rs2121279	LRP1B	T	0.121	1.37	0.90–2.11	0.14
2	164275935	rs1460676	FIGN	C	0.167	1.29	0.90–1.87	0.17
2	181259207	rs1528435	UBE2E3	T	0.623	1.20	0.90–1.60	0.22
2	207963763	rs17203016	CREB1	G	0.178	0.71	0.50–1.01	0.057
2	213121476	rs7599312	ERBB4	G	0.736	0.83	0.61–1.13	0.26
2	219057996	rs492400	USP37	C	0.427	1.03	0.78–1.37	0.83
2	226824609	rs2972143a	LOC646736	A	0.35	1.31	0.98–1.76	0.069
3	25081441	rs6804842	RARB	G	0.583	0.94	0.71–1.24	0.64
3	61211502	rs2365389	FHIT	C	0.598	1.05	0.79–1.39	0.75
3	85912107	rs7622475a	CADM2	C	0.224	1.04	0.74–1.46	0.81
3	142788703	rs2035935a	RASA2	C	0.066	0.84	0.49–1.48	0.56
3	187301576	rs4234589a	ETV5	A	0.863	1.05	0.71–1.58	0.78
4	44877284	rs10938397	GNPDA2	G	0.424	0.99	0.75–1.33	0.97
4	77315142	rs17001561a	SCARB2	A	0.166	0.90	0.62–1.32	0.60
4	103407732	rs13107325	SLC39A8	T	0.083	1.52	0.93–2.50	0.093
4	145878514	rs11727676	HHIP	T	0.902	0.73	0.45–1.19	0.21
5	75050998	rs2112347	POC5	T	0.632	1.14	0.85–1.53	0.39
5	153518086	rs7715256	GALNT10	G	0.431	0.94	0.70–1.27	0.69
6	34671142	rs205262	C6orf106	G	0.291	0.93	0.69–1.26	0.65
6	50944238	rs734597a	TFAP2B	A	0.168	1.21	0.84–1.75	0.30
6	109084356	rs9400239	FOXO3	C	0.713	1.37	1.00–1.86	0.048
6	120227364	rs9374842	LOC285762	T	0.758	0.83	0.60–1.15	0.26
6	137717234	rs13201877	IFNGR1	G	0.128	0.92	0.62–1.36	0.67
6	162953340	rs13191362	PARK2	A	0.889	0.90	0.60–1.36	0.62
7	75001105	rs1167827	HIP1	G	0.572	1.07	0.81–1.43	0.60
7	95007450	rs6465468	ASB4	T	0.296	0.94	0.70–1.27	0.69
8	76969139	rs17405819	HNF4G	T	0.7	1.31	0.98–1.76	0.070
8	81538012	rs16907751	ZBTB10	C	0.888	0.88	0.57–1.33	0.54
8	85242264	rs2033732	RALYL	C	0.749	1.10	0.80–1.50	0.56
9	15624326	rs4740619	C9orf93	T	0.544	1.77	1.03–3.04	0.036
9	28404339	rs10968576	LINGO2	G	0.31	0.84	0.62–1.13	0.26
9	110972163	rs6477694	EPB41L4B	C	0.341	1.06	0.80–1.40	0.71
9	119418304	rs1928295	TLR4	T	0.548	1.02	0.77–1.35	0.91
9	128500735	rs10733682	LMX1B	A	0.49	1.00	0.76–1.33	0.99
10	87400884	rs7899106	GRID1	G	0.052	2.09	1.11–3.99	0.022
10	102385430	rs17094222	HIF1AN	C	0.216	0.90	0.65–1.26	0.55
10	104859028	rs11191560	NT5C2	C	0.091	1.10	0.68–1.81	0.70
10	114748339	rs7903146	TCF7L2	C	0.704	1.01	0.75–1.37	0.93
11	8644592	rs7113874a	TRIM66	C	0.638	1.03	0.77–1.37	0.84
11	27656701	rs7103411a	BDNF	T	0.782	0.95	0.67–1.35	0.79
11	43820854	rs2176598	HSD17B12	T	0.264	0.98	0.71–1.35	0.91
11	47607569	rs3817334	MTCH2	T	0.409	1.08	0.82–1.42	0.59
11	114527614	rs12286929	CADM1	G	0.54	0.89	0.68–1.18	0.43
12	48533735	rs7138803	BCDIN3D	A	0.388	1.32	1.00–1.76	0.054
12	121347850	rs11057405	CLIP1	G	0.921	0.91	0.55–1.47	0.69
13	26908262	rs1885988a	MTIF3	G	0.17	0.86	0.59–1.26	0.44
13	53000207	rs12429545	OLFM4	A	0.132	1.05	0.72–1.54	0.80
13	65103705	rs9540493	MIR548X2	A	0.424	1.15	0.87–1.51	0.32
13	78478920	rs1441264	MIR548A2	A	0.625	0.91	0.69–1.20	0.52
14	24998019	rs10132280	STXBP6	C	0.687	0.99	0.74–1.33	0.96
14	28806589	rs12885454	PRKD1	C	0.666	0.75	0.56–1.00	0.049
14	78969207	rs7141420	NRXN3	T	0.519	0.97	0.73–1.29	0.83
15	49535902	rs3736485	DMXL2	A	0.467	1.24	0.94–1.64	0.13
15	65869870	rs2241420a	MAP2K5	G	0.754	0.91	0.66–1.25	0.57
15	70881044	rs7164727	LOC100287559	T	0.684	1.27	0.94–1.71	0.12
16	3567359	rs758747	NLRC3	T	0.288	0.96	0.71–1.30	0.79
16	19842890	rs12446632	GPRC5B	G	0.855	1.64	1.10–2.43	0.014
16	28240912	rs2650492	SBK1	A	0.293	1.09	0.82–1.45	0.57
16	28796987	rs3888190	ATP2A1	A	0.377	1.21	0.92–1.60	0.17
16	29922838	rs4787491	INO80E	G	0.541	0.99	0.75–1.30	0.93
16	31037396	rs9925964	KAT8	A	0.619	1.03	0.78–1.37	0.81
16	47620091	rs2080454	CBLN1	C	0.356	1.07	0.80–1.42	0.65
16	52358455	rs1421085a	FTO	C	0.43	1.05	0.79–1.39	0.74
17	1951886	rs9914578	SMG6	G	0.196	0.95	0.68–1.34	0.78
17	5223976	rs1000940	RABEP1	G	0.305	1.38	1.02–1.88	0.037
17	76230166	rs12940622	RPTOR	G	0.582	0.98	0.74–1.30	0.88
18	19358886	rs1808579	C18orf8	C	0.545	1.20	0.92–1.57	0.19
18	38401669	rs7239883	LOC284260	G	0.385	1.22	0.92–1.63	0.16
18	55034299	rs7243357	GRP	T	0.818	1.02	0.71–1.45	0.92
18	55980115	rs6567160	MC4R	C	0.235	1.04	0.76–1.43	0.79
19	18315825	rs17724992	PGPEP1	A	0.736	1.04	0.76–1.42	0.79
19	39001372	rs29941	KCTD15	G	0.701	0.93	0.69–1.26	0.65
19	50087459	rs2075650	TOMM40	A	0.861	1.06	0.72–1.57	0.76
19	50894012	rs2287019	QPCTL	C	0.805	1.42	0.99–2.03	0.059
19	52281735	rs2303108a	ZC3H4	G	0.695	0.95	0.70–1.30	0.77
20	50521269	rs6091540	ZFP64	C	0.723	0.84	0.62–1.14	0.28
21	39213610	rs2836754	ETS2	C	0.621	1.32	1.00–1.75	0.051

^aSNPs rs3127553, rs1514175, rs2972143, rs7622475, rs2035935, rs4234589, rs17001561, rs734597, rs7113874, rs7103411, rs1885988, rs2241420, rs1421085, rs2303108 are in linkage disequilibrium (r2 > 0.8) with published (Locke et al., 2015) SNPs, rs657452, rs12566985, rs2176040, rs13078960, rs16851483, rs1516725, rs17001654, rs2207139, rs4256980, rs11030104, rs12016871, rs16951275, rs1558902, rs3810291, respectively. Gene names are those given in the publication that identified these SNPs (Locke et al., 2015). Association analyses are adjusted for age.