Table 1.

Results from discovery, discovery + replication and conditional analyses. For each SNP and phenotype, results are given for the Discovery cohorts only (D, N = 23,986) and for the combined Discovery and Replication cohorts (D+R, N = 48,972). p-values are from meta-analysis of covariate-adjusted standardized regression coefficients of phenotypic values on the allele count for A1.

CHR	SNP	BP (Build 37)	Nearest Gene(s)†	A1 ††	A2	Freq A1	Phenotype		Beta	SE	p
2	rs744653	190,378,750	WDR75 – SLC40A1	T	C	0.854	Iron	D	−0.002	0.014	0.902
								D+R	0.004	0.010	0.702
							Transferrin	D	0.092	0.014	2.00 × 10−10
								D+R	0.068	0.010	1.35 × 10−11
							Saturation	D	−0.037	0.014	0.0087
								D+R	−0.028	0.011	0.0084
							Ferritin (log)	D	−0.098	0.013	1.20 × 10−13
								D+R	−0.089	0.010	8.37 × 10−19
3	rs8177240	133,477,701	TF	T	G	0.669	Iron	D	−0.073	0.011	2.37 × 10−12
								D+R	−0.066	0.007	6.65 × 10−20
							Transferrin	D	−0.423	0.011	3.82 × 10−340
								D+R	−0.380	0.007	3.29 × 10−615
							Saturation	D	0.097	0.011	5.85 × 10−20
								D+R	0.100	0.008	7.24 × 10−38
							Ferritin (log)	D	0.028	0.010	0.0050
								D+R	0.021	0.007	0.0039
3	rs9990333	195,827,205	TFRC	T	C	0.460	Iron	D	0.021	0.010	0.030
								D+R	0.017	0.007	0.014
							Transferrin	D	−0.067	0.010	3.01 × 10−11
								D+R	−0.051	0.007	1.95 × 10−13
							Saturation	D	0.049	0.010	7.37 × 10−7
								D+R	0.039	0.007	7.28 × 10−8
							Ferritin (log)	D	0.002	0.009	0.829
								D+R	0.001	0.007	0.878
6	rs1800562	26,093,141	HFE	A	G	0.067	Iron	D	0.372	0.020	3.96 × 10−77
			(C282Y)					D+R	0.328	0.016	2.72 × 10−97
							Transferrin	D	−0.550	0.021	1.26 × 10−153
								D+R	−0.479	0.016	8.90 × 10−196
							Saturation	D	0.577	0.020	1.52 × 10−178
								D+R	0.577	0.016	2.19 × 10−270
							Ferritin (log)	D	0.211	0.019	1.43 × 10−29
								D+R	0.204	0.016	1.54 × 10−38
6	rs1799945	26,091,179	HFE (H63D)	C	G	0.850	Iron	D	−0.190	0.014	1.65 × 10−42
								D+R	−0.189	0.010	1.10 × 10−81
							Transferrin	D	0.119	0.014	5.59 × 10−17
								D+R	0.114	0.010	9.36 × 10−30
							Saturation	D	−0.228	0.014	2.98 × 10−60
								D+R	−0.231	0.010	5.13 × 10−109
							Ferritin (log)	D	−0.059	0.013	7.38 × 10−6
								D+R	−0.065	0.010	1.71 × 10−10
7	rs7385804	100,235,970	TFR2	A	C	0.621	Iron	D	0.055	0.010	7.19 × 10−8
								D+R	0.064	0.007	1.36 × 10−18
							Transferrin	D	−0.009	0.011	0.396
								D+R	−0.003	0.007	0.728
							Saturation	D	0.054	0.010	1.79 × 10−7
								D+R	0.054	0.008	6.07 × 10−12
							Ferritin (log)	D	0.022	0.010	0.0255
								D+R	0.015	0.007	0.039
8	rs4921915	18,272,466	NAT2	A	G	0.782	Iron	D	−0.009	0.012	0.477
								D+R	0.004	0.009	0.633
							Transferrin	D	0.082	0.012	1.74 × 10−11
								D+R	0.079	0.009	7.05 × 10−19
							Saturation	D	−0.034	0.012	0.0041
								D+R	−0.026	0.009	0.0036
							Ferritin (log)	D	−0.006	0.011	0.603
								D+R	0.001	0.009	0.886
9	rs651007	136,153,875	ABO	T	C	0.202	Iron	D	−0.012	0.013	0.358
								D+R	−0.004	0.009	0.611
							Transferrin	D	0.017	0.013	0.188
								D+R	−0.001	0.009	0.916
							Saturation	D	−0.020	0.013	0.110
								D+R	−0.006	0.009	0.498
							Ferritin (log)	D	−0.060	0.012	2.54 × 10−7
								D+R	−0.050	0.009	1.31 × 10−8
11	rs6486121	13,355,770	ARNTL	T	C	0.631	Iron	D	0.001	0.010	0.898
								D+R	−0.009	0.007	0.202
							Transferrin	D	−0.056	0.011	1.04 × 10−7
								D+R	−0.046	0.007	3.89 × 10−10
							Saturation	D	0.026	0.010	0.0132
								D+R	0.015	0.008	0.048
							Ferritin (log)	D	0.012	0.010	0.2298
								D+R	0.006	0.007	0.424
11	rs174577	61,604,814	FADS2	A	C	0.330	Iron	D	0.003	0.011	0.785
								D+R	0.001	0.007	0.878
							Transferrin	D	0.068	0.011	1.90 × 10−10
								D+R	0.062	0.007	2.28 × 10−17
							Saturation	D	−0.023	0.011	0.029
								D+R	−0.025	0.008	0.0016
							Ferritin (log)	D	−0.020	0.010	0.040
								D+R	−0.012	0.007	0.098
17	rs411988	56,709,034	TEX14	A	G	0.564	Iron	D	−0.007	0.010	0.4673
								D+R	−0.002	0.007	0.770
							Transferrin	D	0.033	0.010	0.0012
								D+R	0.014	0.007	0.052
							Saturation	D	−0.021	0.010	0.036
								D+R	−0.012	0.007	0.115
							Ferritin (log)	D	−0.049	0.009	1.28 × 10−7
								D+R	−0.044	0.007	1.59 × 10−10
22	rs855791	37,462,936	TMPRSS6	A	G	0.446	Iron	D	−0.187	0.010	4.31 × 10−77
			(V736A)					D+R	−0.181	0.007	1.32 × 10−139
							Transferrin	D	0.040	0.010	0.00013
								D+R	0.044	0.007	1.98 × 10−9
							Saturation	D	−0.192	0.010	3.50 × 10−80
								D+R	−0.190	0.008	6.41 × 10−137
							Ferritin (log)	D	−0.051	0.010	5.81 × 10−8
								D+R	−0.055	0.007	1.38 × 10−14
Conditional analysis
3	rs8177179	133,463,457	TF	A	G	0.521	Transferrin	D	−0.154	0.010	2.74 × 10−49
3	rs1799852	133,475,722	TF ((L247L)	T	C	0.098	Saturation	D	0.110	0.019	7.13 × 10−9
22	rs228916	37,505,552	TMPRSS6	T	C	0.875	Iron	D	−0.086	0.016	2.94 × 10−8

^†Where the SNP is a coding variant, the amino acid change is also shown.

^††A1 is the effect allele for each SNP in the association analysis.