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Table 1.

Summary of highlighted associations

Variant ID	Mapped gene	Trait	LOCATER P (modified GCed)	LOCATER lead marker MAF	Variant ID of SMT lead marker	SMT P	SMT lead marker MAF	Known hit in GWAS catalog	SMT lead marker LD with GWAS catalog marker
Chr7-73,440,219-C-T	FZD9, BAZ1B	MUFA	1.57 × 10⁻⁹	0.096	Chr7-73,440,219-C-T^a	2.52 × 10⁻⁸	0.096	Yes	0.701
Chr7-73,482,065-A-C	BAZ1B	Triglycerides in VLDL	1.64 × 10⁻¹¹	0.12	Chr7-73,467,477-C-T	1.11 × 10⁻⁹	0.12	Yes	0.852
Chr7-73,643,687-A-G	VPS37D, MLXIPL	Concentration of large VLDL particles	2.82 × 10⁻⁹	0.12	Chr7-73,641,131-A-C	3.40 × 10⁻⁸	0.12	Yes, related trait	0.933
Chr11-61,843,278-G-A	FADS2	HDL2-C	6.58 × 10⁻⁹	0.43	Chr11-61,798,436-T-C	1.65 × 10⁻⁸	0.45	Yes, related trait	0.871
Chr11-105,327,888-G-C	CARD18	Triglycerides in medium VLDL	2.31 × 10⁻⁹	0.43	Chr11-105,331,384-A-T	1.05 × 10⁻⁵	0.43	No	NA
Chr18-49,653,146-G-A	ACAA2, SMUG1P1	Triglycerides in medium HDL	1.68 × 10⁻⁹	0.15	Chr18-49,642,278-G-A	4.71 × 10⁻⁷	0.16	Yes	0.864
Chr18-49,817,040-T-A	SNHG22	ApoA1	6.51 × 10⁻⁹	0.0041	Chr18-49,817,040-T-A^a	2.15 × 10⁻⁸	0.0041	Yes	1
Chr19-44,922,203-A-G	APOC1, APOC1P1	Remnant-C	7.53 × 10⁻¹¹	0.29	Chr19-44,922,203-A-G^a	1.40 × 10⁻⁹	0.29	Yes	0.0783
Chr20-45,906,012-G-A	PLTP	Triglycerides in small HDL	1.80 × 10⁻¹¹	0.23	Chr20-45,923,216-T-C	3.10 × 10⁻¹⁰	0.18	Yes	1
Chr21-16,318,536-C-T	MIR99AHG	HDL3-C	3.87 × 10⁻⁹	0.090	Chr21-16,318,536-C-T^a	1.77 × 10⁻⁸	0.090	No	NA

[i] Chromosome positions are based on GRCh38. For trait descriptors, see Supplemental Table S1, and for full results, see Supplemental Table S2. The genome-wide significance threshold is 7.17 × 10⁻⁹. To allow for a straightforward comparison, the LOCATER P-value was standardized to match the effective number of independent tests for single marker association.

[ii] ^aDenotes the associations that SMT lead marker is the same as LOCATER lead marker.