Table 2:

Genome-wide significant associations (p-value < 5*10⁻⁸) from the trans-ancestry metal-analysis of lipid traits in pregnant women.

			TransMeta		GWAMA
Lipid Traits	SNP ID	chr: position hg19	Optimal rho	P-value	Effect allele	EAF	beta	[95% CI]	se	p.value	n studies	n samples	effects*	Reference allele	Alternate allele	gene
Total cholesterol	rs1160983	19:45397229	0.09	1.70E-09	G	0.945	15.42	[11.17, 19.66]	2.17	1.18E-12	4	2018	++++	G	A	TOMM40
	rs61679753	19:45400747	0.25	2.69E-13	T	0.936	17.44	[13.49, 21.39]	2.01	5.10E-18	4	2018	++++	T	A	TOMM40
	rs111784051	19:45402262	0.25	2.90E-13	T	0.933	17.16	[13.29, 21.04]	1.98	4.28E-18	4	2018	++++	T	G	TOMM40
	rs429358	19:45411941	0.25	7.86E-13	T	0.841	−11.66	[−14.31, −9.01]	1.35	7.03E-18	4	2018	−−−−	T	C	APOE
	rs7412	19:45412079	0.09	6.86E-17	C	0.927	17.89	[14.33, 21.45]	1.82	7.72E-23	4	2018	++++	C	T	APOE
	rs1065853	19:45413233	0.09	1.12E-16	G	0.927	17.69	[14.14, 21.25]	1.81	1.65E-22	4	2018	++++	G	C,T	intergenic
	rs72654473	19:45414399	0.25	8.39E-11	C	0.895	12.23	[9.16, 15.31]	1.57	6.93E-15	4	2018	++++	C	A	intergenic
	rs814573	19:45424351	0.09	3.28E-08	A	0.707	−6.72	[−9, −4.44]	1.16	7.81E-09	4	2018	−−−−	T	A	APOE
	rs190712692	19:45425178	0.09	9.66E-16	G	0.942	19.29	[15.28, 23.3]	2.05	4.49E-21	4	2018	++++	G	A	intergenic
	rs141622900	19:45426792	0.09	1.15E-15	G	0.942	19.18	[15.18, 23.18]	2.04	5.85E-21	4	2018	++++	G	A	intergenic
Calculated LDL	rs7528419	1:109817192	0.09	2.79E-13	A	0.777	8.49	[6.55, 10.43]	0.99	9.72E-18	4	2015	++++	A	G	CELSR2
	rs12740374	1:109817590	0.09	5.09E-13	G	0.783	8.55	[6.59, 10.51]	1.00	1.22E-17	4	2015	++++	G	T	CELSR2
	rs660240	1:109817838	0.09	1.42E-10	T	0.250	−7.37	[−9.27, −5.47]	0.97	3.17E-14	4	2015	−−−−	T	C	CELSR2
	rs629301	1:109818306	0.09	4.92E-12	G	0.259	−7.76	[−9.63, −5.89]	0.95	4.22E-16	4	2015	−−−−	G	T	CELSR2
	rs646776	1:109818530	0.09	4.62E-12	C	0.258	−7.84	[−9.72, −5.96]	0.96	3.23E-16	4	2015	−−−−	C	T	CELSR2
	rs7254892	19:45389596	1	1.30E-10	G	0.933	12.88	[9.65, 16.12]	1.65	6.50E-15	4	2015	++++	G	A	NECTIN2
	rs1160983	19:45397229	0.09	4.11E-15	G	0.945	17.16	[13.5, 20.82]	1.87	3.91E-20	4	2015	++++	G	A	TOMM40
	rs61679753	19:45400747	0.09	1.31E-20	T	0.936	19.07	[15.67, 22.46]	1.73	4.11E-28	4	2015	++++	T	A	TOMM40
	rs111784051	19:45402262	0.25	7.93E-21	T	0.933	18.92	[15.58, 22.26]	1.70	1.11E-28	4	2015	++++	T	G	TOMM40
	rs769446	19:45408628	1	2.61E-09	T	0.932	13.04	[9.5, 16.57]	1.80	5.20E-13	4	2015	++++	T	C	APOE
	rs769449	19:45410002	1	2.39E-08	G	0.930	−11.02	[−14.22, −7.83]	1.63	1.31E-11	4	2015	−−−−	G	A	APOE
	rs429358	19:45411941	0.25	1.50E-18	T	0.841	−12.28	[−14.56, −10]	1.16	4.66E-26	4	2015	−−−−	T	C	APOE
	rs7412	19:45412079	0.09	9.83E-30	C	0.927	20.86	[17.79, 23.94]	1.57	2.53E-40	4	2015	++++	C	T	APOE
	rs1065853	19:45413233	0.09	1.68E-29	G	0.927	20.67	[17.6, 23.73]	1.56	8.28E-40	4	2015	++++	G	C,T	intergenic
	rs72654473	19:45414399	0.09	1.08E-16	C	0.895	13.46	[10.8, 16.12]	1.36	3.57E-23	4	2015	++++	C	A	intergenic
	rs12721051	19:45422160	0.09	2.63E-09	C	0.883	−9.14	[−11.7, −6.58]	1.31	2.58E-12	4	2015	−−−−	C	G	APOC1
	rs814573	19:45424351	1	1.45E-09	A	0.707	−7.32	[−9.27, −5.36]	1.00	2.21E-13	4	2015	−−−−	A	T	APOE
	rs190712692	19:45425178	0.09	2.70E-25	G	0.942	21.28	[17.83, 24.74]	1.76	1.46E-33	4	2015	++++	G	A	intergenic
	rs141622900	19:45426792	0.09	4.08E-25	G	0.942	21.13	[17.69, 24.58]	1.76	2.70E-33	4	2015	++++	G	A	intergenic

	GWAS
	European American				African American				Hispanic American				East Asian American
Nearest gene	EAF	beta	se	p-values	EAF	beta	se	p-values	EAF	beta	se	p-values	EAF	beta	se	p-values
	0.96	24.03	4.81	5.76E-07	0.91	11.83	3.15	1.75E-04	0.97	19.07	5.52	5.51E-04	0.94	11.78	5.26	2.51E-02
	0.96	23.90	4.77	5.43E-07	0.89	15.92	2.93	5.40E-08	0.96	18.87	4.98	1.54E-04	0.92	13.84	4.69	3.15E-03
	0.96	23.86	4.77	5.56E-07	0.88	15.40	2.83	5.25E-08	0.96	18.98	4.97	1.35E-04	0.92	13.96	4.65	2.66E-03
	0.86	−11.13	2.59	1.66E-05	0.77	−12.59	2.15	4.92E-09	0.87	−9.81	2.84	5.39E-04	0.89	−13.51	4.18	1.24E-03
	0.92	19.16	3.19	1.95E-09	0.91	18.22	3.03	1.80E-09	0.96	18.05	4.46	5.25E-05	0.92	14.18	4.69	2.48E-03
APOE (583 bases downstream)	0.92	19.14	3.19	2.06E-09	0.90	18.00	2.99	1.76E-09	0.96	17.43	4.50	1.08E-04	0.92	14.12	4.69	2.60E-03
APOE (1749 bases downstream)	0.90	14.86	2.89	2.84E-07	0.85	12.02	2.43	7.20E-07	0.94	7.60	3.75	4.30E-02	0.92	13.38	4.70	4.42E-03
	0.82	−11.21	2.47	5.50E-06	0.55	−6.20	1.87	9.10E-04	0.71	−3.27	2.15	1.29E-01	0.82	−8.94	3.74	1.68E-02
APOC1 (2572 bases downstream)	0.94	22.81	3.88	3.94E-09	0.93	20.29	3.43	3.33E-09	0.97	17.16	5.22	1.01E-03	0.91	14.51	4.45	1.10E-03
APOC1P1 (3268 bases upstream)	0.94	22.76	3.88	4.35E-09	0.93	20.34	3.44	3.19E-09	0.97	17.16	5.21	9.97E-04	0.91	14.14	4.38	1.25E-03
	0.76	6.86	1.79	1.29E-04	0.72	7.75	1.66	3.05E-06	0.78	11.73	1.83	1.61E-10	0.94	4.82	4.47	2.81E-01
	0.76	6.86	1.79	1.29E-04	0.74	8.15	1.70	1.58E-06	0.79	11.35	1.84	7.01E-10	0.94	5.18	4.53	2.53E-01
	0.23	−6.64	1.84	2.94E-04	0.36	−6.91	1.57	1.09E-05	0.23	−9.01	1.79	5.04E-07	0.06	−5.18	4.53	2.53E-01
	0.24	−6.80	1.79	1.48E-04	0.37	−7.14	1.58	5.98E-06	0.24	−9.93	1.74	1.04E-08	0.06	−4.61	4.32	2.86E-01
	0.24	−6.80	1.79	1.49E-04	0.37	−7.26	1.59	4.72E-06	0.24	−9.92	1.74	1.30E-08	0.06	−5.18	4.53	2.53E-01
	0.96	22.67	4.04	2.05E-08	0.88	9.70	2.30	2.36E-05	0.96	10.91	3.93	5.54E-03	0.94	15.47	4.43	4.83E-04
	0.96	25.30	4.24	2.45E-09	0.91	12.02	2.74	1.19E-05	0.97	21.06	4.53	3.26E-06	0.94	17.98	4.48	5.95E-05
	0.96	25.10	4.21	2.46E-09	0.89	16.56	2.55	8.24E-11	0.96	20.01	4.09	9.81E-07	0.92	18.87	3.99	2.25E-06
	0.96	25.06	4.21	2.53E-09	0.88	16.32	2.46	3.46E-11	0.96	20.15	4.08	7.85E-07	0.92	19.03	3.96	1.51E-06
	0.90	10.62	2.76	1.17E-04	0.96	16.38	4.25	1.17E-04	0.95	10.84	4.04	7.29E-03	0.91	17.56	4.11	1.97E-05
	0.89	−12.98	2.47	1.40E-07	0.97	−8.51	4.97	8.65E-02	0.94	−7.83	3.18	1.37E-02	0.91	−12.37	3.70	8.29E-04
	0.86	−12.02	2.28	1.38E-07	0.77	−12.66	1.88	1.44E-11	0.87	−10.64	2.33	5.02E-06	0.89	−15.40	3.56	1.51E-05
	0.92	22.67	2.83	1.08E-15	0.91	20.00	2.64	3.42E-14	0.96	20.95	3.66	1.04E-08	0.92	19.16	3.99	1.55E-06
APOE (583 bases downstream)	0.92	22.66	2.83	1.13E-15	0.90	19.46	2.60	7.77E-14	0.96	21.01	3.69	1.27E-08	0.92	19.13	3.99	1.63E-06
APOE (1749 bases downstream)	0.90	17.20	2.56	1.84E-11	0.85	11.63	2.11	3.63E-08	0.94	8.80	3.10	4.48E-03	0.92	18.66	4.00	3.09E-06
	0.82	−11.17	2.08	8.13E-08	0.91	−5.04	2.71	6.24E-02	0.92	−8.52	2.83	2.58E-03	0.87	−10.95	3.25	7.58E-04
	0.82	−11.62	2.18	9.17E-08	0.55	−6.27	1.63	1.14E-04	0.71	−4.36	1.77	1.39E-02	0.82	−11.62	3.18	2.58E-04
APOC1 (2572 bases downstream)	0.94	25.47	3.42	9.38E-14	0.93	20.79	2.99	3.33E-12	0.97	21.58	4.28	4.55E-07	0.91	16.71	3.78	1.01E-05
APOC1P1 (3268 bases upstream)	0.94	25.40	3.42	1.11E-13	0.93	20.81	2.99	3.43E-12	0.97	21.61	4.28	4.34E-07	0.91	16.21	3.73	1.38E-05

^*effect order is: European American, African American, Hispanic American, East Asian American

Lead SNPs are highlighted in bold

LDL: Low-density lipoprotein cholesterol

EAF: effect allele frequency

se: standrard error