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Table 3 Comparison of ChIP-seq data with genome-wide association studies for identification of functional SNPs

From: Differential binding and co-binding pattern of FOXA1 and FOXA3 and their relation to H3K4me3 in HepG2 cells revealed by ChIP-seq

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