Table 2.

Top-ranked SNPs for BMI from random effects fine-mapping (AnnoRE) and GWAS analysis in each of the loci with AnnoRE results attaining locus-wide significance

SNP	Chr: position	Nearest gene	LD and	MAF	GWAS	GWA.pval	AnnoRE	Wald scores	AnnoRE pval	GWA rank	AnnoRE rank
rs1477196	16:53808258	FTO	1.0	0.28	−0.058	3.22E−72	−0.147	348.049	1.13E−77	50	1
rs1558902	16:53803574		0.41	0.45	0.082	7.51E−153	0.014	2.930	0.087	1	31
rs34358	5:74965122	ANKDD1B	0.96	0.35	0.023	2.31E−12	0.037	37.200	1.07E−09	11	1
rs2112347	5:75015242		0.87	0.38	−0.026	6.19E−17	−0.001	0.368	0.544	1	56
rs988748	11:27724745	BDNF	0.99	0.22	−0.041	5.90E−23	−0.027	33.935	5.70E−09	16	1
rs11030104	11:27684517		0.89	0.20	0.041	5.56E−28	0.003	0.729	0.393	1	43
rs11676272	2:25141538	ADCY3	1.0	0.48	0.032	1.12E−21	0.031	28.952	7.42E−08	3	1
rs10182181	2:25150296		0.99	0.50	−0.031	8.78E−24	−0.009	5.028	0.025	1	4
rs1048932	11:115044850	CADM1	0.90	0.50	−0.019	9.43E−10	−0.019	17.367	3.08E−05	2	1
rs12286929	11:115022404		0.57	0.43	0.022	1.31E−12	0.002	1.884	0.170	1	7
rs1800437	19:46181392	QPCTL	0.99	0.18	0.035	1.73E−17	0.022	12.912	3.27E−04	3	1
rs2287019	19:46202172		0.89	0.15	0.036	4.59E−18	0.002	1.159	0.282	1	10

LD measures D′ and quantify association between the top SNPs identified by the two methods.