Table 2.

Index variants by study.

A. PGRN-AMPS GWAS Index Variants
Variant ID	SNV	Minor Allele	Nearest Gene	Distance to Nearest Gene	Location	eQTL	Minor Allele Frequency	Beta	Standard Error	T-Statistic	p-Value
1-90283515-A-G	rs7545243	G	LRRC8D	3056		RP5-943J3.1 (subcutaneous adipose, whole blood, lung), LRRC8B, LRRC8C, LRRC8D (whole blood)	0.29	−0.25	0.06	−4.54	7.16 × 10−6
2-71442773-G-C	rs59432780	C	PAIP2B	0	Intron	PAIP2B (skin)	0.12	−0.38	0.08	−4.81	2.01 × 10−6
2-71456834-T-C	rs56796378	C	PAIP2B	0	Intron	MPHOSPH10 (whole blood)	0.10	−0.40	0.09	−4.53	7.48 × 10−6
2-144491308-G-A	rs10928197	A	ARHGAP15	17,222			0.43	−0.23	0.05	−4.49	8.8 × 10−6
2-144477195-G-A	rs12465492	A	ARHGAP15	3681			0.38	−0.24	0.05	−4.48	9.43 × 10−6
3-36755107-G-A	rs35721771	A	DCLK3	610,866			0.35	0.28	0.06	5.09	5.16 × 10−7
3-1006912-A-G	rs10510204	A	CNTN6	613,027			0.40	0.24	0.05	4.55	6.75 × 10−6
4-150429619-G-A	rs6853045	G	DCLK2	569,805	Intron		0.46	−0.24	0.05	−4.56	6.67 × 10−6
6-5389403-C-A	rs73350538	A	FARS2	0	Intron		0.06	0.51	0.11	4.49	8.79 × 10−6
8-14827133-A-C	rs76522180	C	SGCZ	0	Intron		0.06	−0.57	0.11	−4.99	8.43 × 10−7
12-9058993-A-T	rs7299653	T	PHC1	8321		KLRG1 (subcutaneous and visceral omentum adipose, aorta and tibial artery, brain (cortex), mammary tissue, fibroblasts, esophagus, atrial appendage, tibial nerve, pancreas), PHC1 (esophagus), RP11-436I9.6 (lung), RP11-705C15.3 (skeletal muscle), LINC00987 (subcutaneous adipose, whole blood), RP11-118B22.4 (whole blood), M6PR (whole blood), A2MP1 (whole blood)	0.48	−0.24	0.05	−4.55	6.76 × 10−6
16-80882476-T-C	rs9926993	C	CDYL2	44,300			0.07	−0.51	0.10	−5.04	6.72 × 10−7
16-80842302-A-T	rs62052150	T	CDYL2	4126			0.08	−0.46	0.10	−4.48	9.57 × 10−6
B. CO-MED GWAS Index Variants
3-93956553-T-A	rs143801763	A	NSUN3	110,922			0.08	0.63	0.14	4.54	8.27 × 10−6
3-104317729-G-A	rs4450851	A	MIR548A3	371,623			0.44	−0.34	0.07	−4.55	8.10 × 10−6
4-187604429-T-C	rs162181	C	FAT1	0	Intron		0.20	−0.48	0.09	−5.25	2.96 × 10−7
4-187592223-T-A	rs11723473	A	FAT1	0	Intron		0.16	−0.45	0.09	−4.78	2.83 × 10−6
4-128523964-T-C	rs1399212	C	INTU	30,121			0.06	−0.71	0.15	−4.59	6.64 × 10−6
6-130472920-C-T	rs870816	T	SAMD3	0	Intron	L3MBTL3, SAMD3 (whole blood)	0.34	−0.40	0.07	−5.49	8.77 × 10−8
6-130474597-T-G	rs1932106	G	SAMD3	0	Intron	SAMD3 (whole blood)	0.45	0.38	0.07	5.08	6.94 × 10−7
6-166957334-T-C	rs6456092	C	RPS6KA2	0	Intron		0.37	0.37	0.07	4.95	1.32 × 10−6
6-5367273-G-A	rs797147	A	FARS2	0	Intron		0.11	−0.55	0.11	−4.83	2.21 × 10−6
6-21867547-A-G	rs6940645	G	FLJ22536	0	Intron		0.38	−0.36	0.08	−4.78	2.86 × 10−6
6-89987882-G-T	rs12213221	T	GABRR2	0	Intron		0.47	−0.34	0.07	−4.57	7.45 × 10−6
6-130499476-C-T	rs1034263	T	SAMD3	0	Intron	SAMD3 (whole blood)	0.07	−0.67	0.15	−4.55	7.82 × 10−6
7-132382054-C-T	rs10233511	T	PLXNA4	48,606	Intron		0.29	−0.40	0.08	−4.92	1.45 × 10−6
7-26421269-T-G	rs74409431	G	SNX10	7319		AC004540.4, SNX10 (subcutaneous adipose)	0.13	0.51	0.11	4.66	4.80 × 10−6
9-114014832-T-C	rs112014566	C	OR2K2	74,929			0.11	−0.59	0.12	−4.84	2.19 × 10−6
10-105498155-T-A	rs7085238	A	SH3PXD2A	0	Intron	SH3PXD2A (whole blood)	0.22	−0.44	0.09	−5.03	8.86 × 10−7
11-134403616-C-A	rs12287910	A	LOC283177	28,060		GLB1L2|B3GAT1 (whole blood)	0.42	0.36	0.07	4.92	1.48 × 10−6
12-13883111-C-T	rs11609779	T	GRIN2B	0	Intron		0.18	0.50	0.10	5.12	5.61 × 10−7
12-13880168-G-C	rs10845837	C	GRIN2B	0	Intron		0.30	0.39	0.08	4.83	2.24 × 10−6
13-100223130-G-A	rs4297561	A	TM9SF2	7853			0.33	0.39	0.08	4.90	1.61 × 10−6
13-100224460-G-A	rs2793779	A	TM9SF2	9183			0.33	0.38	0.08	4.77	2.97 × 10−6
18-55933912-C-T	rs62094545	T	NEDD4L	0	Intron		0.17	0.44	0.10	4.55	7.86 × 10−6
21-40135684-T-A	rs8127960	A	NCRNA00114	0	Intron	LINC00114 (tibial artery)	0.25	0.43	0.09	4.93	1.44 × 10−6