Identification of epigenome-wide DNA methylation differences between carriers of APOE ε4 and APOE ε2 alleles

Table 1 APOE ε4 vs. ε2-associated DMPs identified by meta-analysis of the discovery and replication EWASs

Probe ID	Gene symbol	Gene feature*	Chr.	BP^†	Effect^‡	SE	P value
cg13375295			19	45344725	− 0.1031	0.0049	2.80 × 10⁻¹⁰⁰
cg06750524	APOE	Body	19	45409955	0.1122	0.008	1.05 × 10⁻⁴⁴
cg16094954	BCL3	TSS1500	19	45251180	− 0.0994	0.0081	8.18 × 10⁻³⁵
cg10762466			19	45347693	− 0.0463	0.004	1.37 × 10⁻³⁰
cg16471933	APOE	Body	19	45411802	0.0606	0.0055	7.17 × 10⁻²⁸
cg10178308	PVRL2	TSS200	19	45349383	0.1075	0.0103	2.04 × 10⁻²⁵
cg27087650	BCL3	Body	19	45255796	0.0455	0.0044	3.77 × 10⁻²⁵
cg04488858			19	45242346	− 0.0514	0.0065	2.25 × 10⁻¹⁵
cg11643040	PVRL2	Body	19	45361327	− 0.0278	0.0038	1.46 × 10⁻¹³
cg26631131			19	45240591	0.0298	0.0042	2.45 × 10⁻¹²
cg17901584	DHCR24;RP11-67 L3.4	TSS1500	1	55353706	− 0.0403	0.0058	3.58 × 10⁻¹²
cg06198803	PVRL2	Body	19	45371896	− 0.041	0.006	1.04 × 10⁻¹¹
cg16740586	ABCG1	Body	21	43655919	0.0332	0.005	3.58 × 10⁻¹¹
cg03793277	APOC1	TSS1500	19	45416910	− 0.0304	0.0049	5.99 × 10⁻¹⁰
cg06500161	ABCG1	Body	21	43656587	0.0247	0.0042	2.67 × 10⁻⁹
cg09555818	APOC2;APOC4	5′ UTR; 1st exon	19	45449301	− 0.0531	0.0091	5.77 × 10⁻⁹
cg13119609	APOC2;APOC4	5′ UTR; 1st exon	19	45449297	− 0.0464	0.008	5.84 × 10⁻⁹
cg15233575			19	45221584	− 0.0223	0.0039	7.17 × 10⁻⁹
cg14645843			19	45454752	− 0.0346	0.0062	2.31 × 10⁻⁸
cg19751789	LDLR		19	11199944	− 0.0338	0.0061	2.43 × 10⁻⁸

Abbreviations: BP base position, Chr. chromosome, SE standard error, TSS transcription start site, UTR untranslated region
*Gene feature: 5′ UTR between the TSS and the ATG, Body between the ATG and the stop codon, TSS200 within 200 bases 5′ of the TSS, TSS1500 within 1500 bases 5′ of the TSS
^†Base position in genome assembly hg19/GRCh37
^‡Effect direction is relative to carriers of the ε2 allele

ISSN: 1756-994X