Table 3

Comparison of ChIP-seq data with genome-wide association studies for identification of functional SNPs

Chr.

Position

SNP

Nearest/affected gene

Factor

Trait

Study


1

109,619,113

rs12740374

CELSR2, PSRC1, SORT1

FOXA1

LDL*/Dyslipidemia

Kathiresan et al.

10

101,851,425

rs11597390

CPN1

FOXA1, FOXA3

Plasma levels of liver enzymes (ALT)

Yuan et al.

1

109,620,053

rs646776

CELSR2-PSRC1-SORT1

H3K4me3

TC/LDL

Aulchenko et al., Sabatti et al.

2

43,918,594

rs6756629

ABCG5

H3K4me3

TC/LDL

Aulchenko et al.

11

47,226,831

rs2167079

NR1H3

H3K4me3

HDL§

Sabatti et al.

11

61,353,788

rs174570

FADS2/3

H3K4me3

TC/LDL

Aulchenko et al.

19

11,063,306

rs6511720

LDLR

H3K4me3

LDL/Dyslipidemia

Kathiresan et al.

19

50,087,106

rs157580

TOMM40-APOE, APO cluster

H3K4me3

TC/TG/LDL

Aulchenko et al., Sabatti et al.

19

50,087,459

rs2075650

TOMM40-APOE

H3K4me3

TC/LDL

Aulchenko et al.

22

23,320,213

rs4820599

GGT1

H3K4me3

Plasma levels of liver enzymes (GGT¥)

Yuan et al


*LDL, low density lipoproteins. ALT, alanine-aminotransferase. TC, total cholestrol. §HDL, high density lipoproteins. TG, triglycerides. ¥GGT, gamma-glutamyl transferase.

Motallebipour et al. Genome Biology 2009 10:R129   doi:10.1186/gb-2009-10-11-r129

Open Data