Table 1 Summary of 25 loci with significant interactions between SNP and CpG site at the 1 × 10−4significance levela
Chr | Region that includes SNPs (bp) | # of significant interactions | Smallest interaction p value (rs#: cg#) | Nearest genesb | Prior GWAS evidencec |
|---|---|---|---|---|---|
1 | 118,384,931 | 1 | 8.87 × 10− 5 (rs10923477: cg04904531) | SPAG17 | Cardiometabolic (CM) [10] |
1 | 176,244,329 | 1 | 9.17 × 10− 5 (rs12078421: cg00529480) | LOC730102, SEC16B | CM [11] |
1 | 241,422,395 | 1 | 7.97 × 10− 5 (rs10926962: cg20140940) | CEP170 | |
1 | 243,623,480–243,632,536 | 3 | 5.45 × 10−6 (rs12141949: cg23956499) | KIF26B, LOC105373266 | CM [12] |
2 | 169,660,479 | 1 | 6.32 × 10−5 (rs1059261: cg09479286) | DHRS9, LRP2 | CM [13] |
2 | 228,572,906 | 1 | 1.52 × 10− 5 (rs11680053: cg13774987) | SPHKAP, LOC105373918 | |
3 | 62,027,949 | 1 | 7.47 × 10−5 (rs13094307: cg02315619) | PTPRG | CM [14] |
3 | 65,613,288–65,616,308 | 2 | 6.31 × 10−6 (rs1156024: cg21573947) | MAGI1, ILF2P1 | CM [15] |
3 | 120,418,689–120,430,978 | 4 | 3.03 × 10−5 (rs6438504: cg13640423) | B4GALT4, UPK1B, B4GALT4-AS1 | |
5 | 174,537,630–174,544,483 | 4 | 2.17 × 10−5 (rs4868496: cg16698913) | ||
6 | 71,439,742 | 1 | 9.10 × 10−5 (rs13196394: cg21039196) | SMAP1, SLC25A6P6, LOC100419975 | CM [16] |
6 | 127,678,516–127,680,041 | 2 | 4.94 × 10−5 (rs3798853: cg21774964) | ECHDC1, RNF146, RPL5P18, LOC105377994, LOC107986641, YWHAZP4 | |
10 | 25,274,245 | 1 | 8.54 × 10−5 (rs2035888: cg05845435) | PRTFDC1, THNSL1, ENKUR | CM [17] |
12 | 70,654,838 | 1 | 8.80 × 10−5 (rs7300641: cg04586418) | TPH2, TBC1D15 | |
12 | 90,830,205–90,838,946 | 5 | 2.59 × 10−5 (rs12318079: cg04373948) | LOC105369901, LOC105369900 | CM [18] |
13 | 93,851,561 | 1 | 6.27 × 10−5 (rs9561551: cg21762236) | GPC6, DCT | CM [10] |
14 | 31,886,488–32,181,048 | 5 | 5.79 × 10−6 (rs10141122: cg01642415) | AKAP6 | CM [11] |
14 | 38,728,932 | 1 | 6.17 × 10− 5 (rs10140832: cg09400985) | MIA2, YTHDF2P1, LOC100313942, CTAGE5 | |
14 | 63,424,087 | 1 | 3.30 × 10−5 (rs4902250: cg04285935) | SYNE2 | CM [19] |
15 | 22,717,850 | 1 | 3.60 × 10−5 (rs17785279: cg02476674) | SNRPN, RPL5P1 | CM [10] |
15 | 74,146,110 | 1 | 2.30 × 10− 5 (rs7183492: cg19385388) | TMEM266, NRG4 | CM [20] |
16 | 86,596,651 | 1 | 7.26 × 10− 5(rs7500034: cg04279689) | BANP | |
18 | 25,713,049–25,713,439 | 2 | 4.05 × 10−5 (rs4799651: cg11963233) | ||
21 | 29,961,249 | 1 | 5.02 × 10−5 (rs2268206: cg06212876) | GRIK1, GRIK1-AS2 | CM [21] |
22 | 35,532,777 | 1 | 7.29 × 10−6 (rs736720: cg11855664) | PVALB, IFT27, LOC105373021, LOC107958578 | CM [21] |