Table 4.

Loci where East Asian and GLGC samples identified the same putatively functional protein-altering variant

Gene	rsID	Position	Variant	Alleles	Trait	Study	BETA	S.E.	P	AAF	Variance Explained	Note*
GCKR	rs1260326	2:27730940	p.Leu446Pro	C/T	TG	GLGC	−0.121	0.003	0.00	0.628	0.64%	Protein-altering is top
					TG	Asian	−0.114	0.007	1.26×10−62	0.496	0.64%	Protein-altering is top
MLXIPL	rs35332062	7:73012042	p.Ala358Val	A/G	TG	GLGC	−0.124	0.004	5.22×10−205	0.117	0.30%	Protein-altering is top
					TG	Asian	−0.109	0.011	2.03×10−23	0.109	0.23%	Explaining index
LPL	rs328	8:19819724	p.Ser474*	G/C	TG	GLGC	−0.184	0.004	0.00	0.098	0.58%	Explaining index
					TG	Asian	−0.169	0.012	1.93×10−45	0.095	0.46%	Explaining index
GPAM	rs2792751	10:113940329	p.Ile43Val	C/T	TC	GLGC	−0.028	0.003	7.14×10−22	0.728	0.03%	Explaining index
					TC	Asian	−0.043	0.007	5.67×10−9	0.706	0.07%	Protein-altering is top
HNF1A	rs1169288	12:121416650	p.Ile27Leu	C/A	TC	GLGC	0.037	0.003	9.99×10−40	0.333	0.06%	Protein-altering is top
					TC	Asian	0.038	0.007	4.86×10−8	0.404	0.07%	Protein-altering is top
TM6SF2	rs58542926	19:19379549	p.Glu167Lys	T/C	TC	GLGC	−0.129	0.005	7.03×10−155	0.074	0.22%	Protein-altering is top
					TC	Asian	−0.066	0.013	4.25×10−7	0.070	0.06%	Protein-altering is top
APOE	rs7412	19:45412079	p.Arg176Cys	T/C	LDL-C	GLGC	−0.539	0.006	0.00	0.075	3.80%	Independent of index
					LDL-C	Asian	−0.472	0.016	4.87×10−197	0.088	3.49%	Protein-altering is top

AAF, alternative allele frequency.

Position is reported in human genome build hg19.

Alleles are listed as alternative / reference allele on the forward strand of the reference genome.

^*Protein-altering is top: protein-altering variants are the most significant variants in the known loci.

Explaining index: Conditional on the coding variants, the adjusted P for index variants >0.01.

Independent of index: Conditional on the index variants, the adjusted P for coding variants with exome-wide significance.