Table 2.

Loci that Show Significant Local Genetic Covariance (Two-Tailed p < 0.05/1,703) and Local SNP Heritability (One-Tailed p < 0.05/1,703) for Both Traits

Trait1	Trait2	Locus	${\mathbf{h}}_{\mathbf{g},\mathbf{l}\mathbf{o}\mathbf{c}\mathbf{a}\mathbf{l},\mathbf{t}\mathbf{r}\mathbf{a}\mathbf{i}\mathbf{t}1}^2$	${\mathbf{h}}_{\mathbf{g},\mathbf{l}\mathbf{o}\mathbf{c}\mathbf{a}\mathbf{l},\mathbf{t}\mathbf{r}\mathbf{a}\mathbf{i}\mathbf{t}2}^2$	${\mathbf{r}}_{\mathbf{g},\mathbf{l}\mathbf{o}\mathbf{c}\mathbf{a}\mathbf{l}}$
AM	HEIGHT	chr9: 107M–109M	0.15 (0.02)	0.05 (0.01)	0.61 ([0.34,0.87])
BMI	HIP	chr16: 53M–55M	0.22 (0.02)	0.19 (0.03)	0.99 ([0.76,1.00])
BMI	HIP	chr18: 57M–59M	0.14 (0.02)	0.13 (0.02)	0.99 ([0.71,1.00])
BMI	WC	chr16: 53M–55M	0.22 (0.02)	0.21 (0.03)	1.00 ([0.78,1.00])
BMI	WC	chr18: 57M–59M	0.14 (0.02)	0.13 (0.02)	1.00 ([0.72,1.00])
BW	HEIGHT	chr12: 65M–67M	0.14 (0.02)	0.23 (0.02)	0.93 ([0.70,1.00])
HDL	TG	chr2: 21M–23M	0.16 (0.03)	0.22 (0.03)	−0.94 ([−1.00, −0.65])
HDL	TG	chr8: 19M–20M	0.65 (0.04)	0.82 (0.04)	−1.00 ([−1.00, −0.91])
HDL	TG	chr11: 116M–117M	0.40 (0.04)	1.27 (0.06)	−0.82 ([−0.95,-0.69])
HDL	TG	chr15: 58M–59M	1.18 (0.06)	0.18 (0.03)	0.89 ([0.68,1.00])
HEIGHT	HIP	chr16: 4M–5M	0.06 (0.01)	0.10 (0.02)	0.73 ([0.41,1.00])
HIP	WC	chr16: 53M–55M	0.19 (0.03)	0.21 (0.03)	0.99 ([0.73,1.00])
HIP	WC	chr18: 57M–59M	0.13 (0.02)	0.13 (0.02)	1.00 ([0.69,1.00])
LDL	TG	chr1: 61M–63M	0.14 (0.03)	0.28 (0.03)	0.98 ([0.67,1.00])
LDL	TG	chr2: 21M–23M	0.84 (0.05)	0.22 (0.03)	0.62 ([0.46,0.78])
LDL	TG	chr8: 126M–128M	0.16 (0.03)	0.32 (0.04)	0.94 ([0.63,1.00])
LDL	TG	chr19: 18M–19M	0.18 (0.03)	0.21 (0.03)	0.99 ([0.72,1.00])
PLT	RBC	chr6: 134M–136M	0.26 (0.05)	0.66 (0.09)	−0.99 ([−1.00, −0.69])
HDL	HEIGHT	chr11: 47M–49M	0.17 (0.02)	0.07 (0.01)	0.61 ([0.42,0.80])
HDL	LDL	chr2: 21M–23M	0.16 (0.03)	0.84 (0.05)	−0.56 ([−0.74, −0.39])
HDL	LDL	chr8: 9M–9M	0.14 (0.02)	0.12 (0.02)	0.99 ([0.70,1.00])
MCH	MCV	chr6: 24M–25M	0.49 (0.07)	0.37 (0.06)	0.97 ([0.67,1.00])
MCH	MCV	chr6: 134M–136M	0.86 (0.09)	0.70 (0.08)	0.98 ([0.76,1.00])
MCH	PLT	chr6: 134M–136M	0.86 (0.09)	0.26 (0.05)	1.00 ([0.72,1.00])
MCH	RBC	chr6: 134M–136M	0.86 (0.09)	0.66 (0.09)	−0.98 ([−1.00, −0.75])
MCV	PLT	chr6: 134M–136M	0.70 (0.08)	0.26 (0.05)	1.00 ([0.72,1.00])
MCV	RBC	chr6: 134M–136M	0.70 (0.08)	0.66 (0.09)	−0.98 ([−1.00, −0.74])
MP	HEIGHT	chr5: 175M–177M	0.31 (0.04)	0.10 (0.01)	−0.63 ([−0.82, −0.45])
URATE	MCH	chr6: 24M–25M	0.13 (0.02)	0.53 (0.07)	0.56 ([0.33,0.79])
URATE	MCV	chr6: 24M–25M	0.13 (0.02)	0.41 (0.06)	0.66 ([0.39,0.92])

We list pairs of traits for which the genome-wide genetic correlation is significant (two-tailed p < 0.05/630) and negligible in top and bottom half of this table, respectively. Here, we focus only on the pairs of traits excluding TC (see Table S1 for pairs of traits involving TC). Numbers in parentheses represent standard errors for local SNP heritability estimates and 95% confidence intervals for local genetic correlation estimates.