Table 2. Case – control association results in the region of interest harboring APOE gene.

Gene	SNP	Coordinate (Build 36.3)	Type	Consequence Type	Allele frequency [%] cases/controls	p-Value
TOMM40	rs8102977	50085313	imputed	5′UTR	2.3/1.3	0.3
TOMM40	rs157580	50087106	genotyped	intronic	73.8/62.7	1.10×10−3
TOMM40	rs2075650	50087459	genotyped	intronic	29.9/15.1	7.48×10−7
TOMM40	rs11556505	50087984	imputed	synonymous-coding	26.5/14.3	2.96×10−5
TOMM40	rs8106922	50093506	genotyped	intronic	70.6/64.8	0.08
TOMM40	rs1160985	50095252	imputed	intronic	58.7/52.0	0.07
APOE	rs405509	50100676	genotyped	5′UTR	57.6/49.3	0.02
APOE	rs769451	50102751	genotyped	intronic	98.8/97.6	0.21
APOE	rs429358	50103781	genotyped	non-synonymous-coding	41.3/14.9	2.30×10−16
APOE	rs7412	50103919	genotyped	non-synonymous-coding	97.7/91.9	5.00×10−4
LOC100129500	rs439401	50106291	genotyped	intronic	75.0/62.9	4.00×10−4
LOC100129500-APOC1	rs5114	50110286	imputed	intronic	1.00/99.5	0.19
LOC100129500-APOC1	rs389261	50112183	imputed	intronic	98.3/96.4	0.15
LOC100129500-APOC1	rs10424339	50112333	imputed	intronic	99.0/98.9	0.92
LOC100129500-APOC1	rs12721054	50114427	imputed	intronic	1.00/99.5	0.2

Case control association analysis in the APOE region with special focus on TOMM40, APOE and APOC1 genes. Gene name, SNP name (rs number), SNP base-pair position (build 36.3), genotype type (either obtained through actual genotyping or through in silico imputation), physical location or SNP function (consequence type), case-control allele frequencies and p-values ordered by base-pair position.