Table 1.
List of top 140 SNPs (p <0.00001) from GWAS analysis that were predictive of triptolide cytotoxicity in HapMap LCLs
| SNP | Position | Minor Allele | MAF | r.ic50 | p value | Chr | Gene_function_list |
|---|---|---|---|---|---|---|---|
| rs6759004 | 202004676 | C | 0.15 | −0.63 | 2.51E-07 | 2 | CFLAR/intron |
| rs10931931 | 201994540 | C | 0.15 | −0.62 | 3.66E-07 | 2 | CFLAR/UTR-5 |
| rs13413479 | 202012578 | G | 0.15 | −0.62 | 3.66E-07 | 2 | CFLAR/intron |
| rs73045343 | 202017408 | G | 0.15 | −0.62 | 3.66E-07 | 2 | CFLAR/intron |
| rs6712963 | 201982693 | G | 0.15 | −0.62 | 3.78E-07 | 2 | CFLAR/intron |
| rs10469755 | 201917938 | T | 0.17 | −0.62 | 4.43E-07 | 2 | FAM126B/intron |
| rs13059218 | 26910495 | A | 0.24 | 0.62 | 5.11E-07 | 3 | |
| rs73045306 | 202000395 | C | 0.17 | −0.61 | 6.01E-07 | 2 | CFLAR/intron |
| rs6759216 | 202004710 | G | 0.17 | −0.61 | 6.01E-07 | 2 | CFLAR/intron |
| rs10203550 | 202009586 | G | 0.17 | −0.61 | 6.01E-07 | 2 | CFLAR/intron |
| rs13426823 | 202015677 | G | 0.17 | −0.61 | 6.01E-07 | 2 | CFLAR/intron |
| rs12105811 | 202016245 | A | 0.17 | −0.61 | 6.01E-07 | 2 | CFLAR/intron |
| rs73045341 | 202016550 | G | 0.17 | −0.61 | 6.01E-07 | 2 | CFLAR/intron |
| rs111315781 | 201738724 | T | 0.14 | −0.61 | 6.27E-07 | 2 | PPIL3/intron |
| rs73439953 | 56602702 | T | 0.33 | −0.61 | 7.51E-07 | 18 | ZNF532/intron |
| c2.201734921.b37p0 | 201734921 | G | 0.14 | −0.61 | 9.19E-07 | 2 | |
| rs55953858 | 201997292 | G | 0.21 | −0.60 | 1.66E-06 | 2 | CFLAR/intron |
| rs4035022 | 201744352 | A | 0.15 | −0.59 | 1.76E-06 | 2 | PPIL3/intron |
| rs3851973 | 201732878 | G | 0.14 | −0.59 | 1.79E-06 | 2 | PPIL3/UTR-5 and CLK1/UTR-3 |
| rs111976464 | 201735042 | C | 0.14 | −0.59 | 1.79E-06 | 2 | PPIL3/UTR-5 and CLK1/UTR-3 |
| rs11892119 | 201736112 | C | 0.14 | −0.59 | 1.79E-06 | 2 | PPIL3/UTR-3 |
| rs7562391 | 201736166 | C | 0.14 | −0.59 | 1.79E-06 | 2 | PPIL3/missense |
| rs7560613 | 202003010 | C | 0.21 | −0.60 | 1.83E-06 | 2 | CFLAR/intron |
| rs6747253 | 201748415 | A | 0.15 | −0.59 | 2.17E-06 | 2 | PPIL3/intron |
| rs73043383 | 201968246 | C | 0.17 | −0.59 | 2.19E-06 | 2 | CFLAR/UTR-5 |
| rs7591472 | 201889751 | C | 0.17 | −0.59 | 2.20E-06 | 2 | FAM126B/intron |
| rs10194347 | 201942480 | A | 0.17 | −0.59 | 2.42E-06 | 2 | NDUFB3/intron |
| rs28405687 | 201906661 | T | 0.23 | −0.59 | 2.52E-06 | 2 | FAM126B/intron |
| rs915650 | 37657526 | A | 0.38 | −0.59 | 2.54E-06 | 8 | |
| rs7583529 | 201988238 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs6728771 | 201992407 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs6706980 | 201993688 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs58886660 | 201999283 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs28636431 | 201999550 | C | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs7573256 | 202003170 | G | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs113350756 | 202003767 | G | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs10190751 | 202006096 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs56160734 | 202006860 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs4487072 | 202008298 | T | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs1981726 | 202008700 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs7573529 | 202010626 | T | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs13387186 | 202012068 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs13413075 | 202012363 | C | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs12104442 | 202013956 | C | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs12721505 | 202014238 | G | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs7571899 | 202015028 | G | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs7585993 | 202015114 | T | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs61289882 | 202015250 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs68044560 | 202017080 | T | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs56863085 | 202017647 | C | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs719125 | 202017860 | T | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs56009967 | 202019094 | C | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs56161269 | 202019210 | A | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs2041766 | 202021495 | T | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs4482462 | 202021747 | C | 0.21 | −0.59 | 2.57E-06 | 2 | CFLAR/intron |
| rs75518195 | 65067404 | G | 0.36 | 0.58 | 2.80E-06 | 4 | nearest gene (~150 kb down TECRL) |
| rs13384245 | 201760937 | G | 0.17 | −0.58 | 2.89E-06 | 2 | NIF3L1/intron |
| rs10204787 | 201762147 | A | 0.17 | −0.58 | 2.89E-06 | 2 | NIF3L1/intron |
| rs113388793 | 201771341 | G | 0.17 | −0.58 | 2.89E-06 | 2 | NIF3L1/UTR-3 and ORC2/UTR-3 |
| rs2307358 | 201785657 | T | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/Intron |
| rs2307362 | 201785837 | A | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/cds-synon |
| rs4622700 | 201793113 | T | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/Intron |
| rs9288314 | 201794173 | T | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/Intron |
| rs10185727 | 201803711 | G | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/intron |
| rs13408964 | 201804972 | T | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/intron |
| rs16836160 | 201813830 | G | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/Intron |
| rs13429609 | 201816257 | T | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/Intron |
| rs13392371 | 201816421 | A | 0.17 | −0.58 | 2.89E-06 | 2 | ORC2/Intron |
| rs16836477 | 201853457 | G | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs6719992 | 201871978 | G | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs13405753 | 201881677 | G | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs10197103 | 201885293 | T | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs13384791 | 201911164 | G | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs13417843 | 201913429 | G | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs10207746 | 201916418 | C | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs73043345 | 201920060 | G | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs13389349 | 201920618 | C | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs6737556 | 201924078 | T | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs7590522 | 201924788 | T | 0.17 | −0.58 | 2.89E-06 | 2 | FAM126B/intron |
| rs10194168 | 201942437 | T | 0.17 | −0.58 | 2.89E-06 | 2 | NDUFB3/intron |
| rs10205971 | 201958201 | G | 0.17 | −0.58 | 2.89E-06 | 2 | NDUFB3/UTR-5 and CFLAR/UTR-5 |
| rs2110728 | 201965678 | A | 0.17 | −0.58 | 2.89E-06 | 2 | CFLAR/UTR-5 |
| rs13421776 | 201760902 | G | 0.19 | −0.58 | 3.33E-06 | 2 | NIF3L1/intron |
| rs4381763 | 201776988 | G | 0.19 | −0.58 | 3.33E-06 | 2 | ORC2/intron |
| rs10183261 | 201797676 | A | 0.19 | −0.58 | 3.33E-06 | 2 | ORC2/intron |
| rs10205561 | 201809704 | T | 0.19 | −0.58 | 3.33E-06 | 2 | ORC2/Intron |
| rs2307357 | 201824092 | A | 0.19 | −0.58 | 3.33E-06 | 2 | ORC2/Intron |
| rs3087357 | 201828365 | G | 0.19 | −0.58 | 3.33E-06 | 2 | ORC2/UTR-5 |
| rs874358 | 201829602 | G | 0.19 | −0.58 | 3.33E-06 | 2 | ORC2/UTR-5 |
| rs3900738 | 201863803 | A | 0.19 | −0.58 | 3.33E-06 | 2 | FAM126B/intron |
| rs16836568 | 201879948 | G | 0.19 | −0.58 | 3.33E-06 | 2 | FAM126B/intron |
| rs13416500 | 201771798 | A | 0.18 | −0.58 | 3.63E-06 | 2 | NIF3L1/UTR-3 and ORC2/UTR-3 |
| rs13404596 | 201771801 | T | 0.19 | −0.58 | 3.63E-06 | 2 | NIF3L1/UTR-3 and ORC2/UTR-3 |
| rs6757272 | 201728141 | A | 0.35 | −0.58 | 4.14E-06 | 2 | CLK1/intron |
| rs10184098 | 202004190 | G | 0.21 | −0.57 | 4.45E-06 | 2 | CFLAR/intron |
| rs28447044 | 64903606 | T | 0.46 | 0.57 | 4.69E-06 | 4 | nearest gene (250 kb down TECRL) |
| rs11660954 | 56603803 | G | 0.26 | −0.57 | 5.27E-06 | 18 | ZNF532/intron |
| rs34044649 | 155655693 | T | 0.42 | −0.57 | 5.59E-06 | 7 | |
| c14.20107162.b37p0 | 20107162 | C | 0.24 | 0.73 | 5.84E-06 | 14 | |
| rs2950160 | 4420188 | G | 0.31 | −0.57 | 5.96E-06 | 8 | CSMD1/intron |
| c18.56609415.b37p0 | 56609415 | T | 0.24 | −0.57 | 6.60E-06 | 18 | |
| rs9854411 | 171921569 | C | 0.16 | −0.57 | 6.70E-06 | 3 | FNDC3B/intron |
| rs13412214 | 201774182 | T | 0.23 | −0.56 | 7.21E-06 | 2 | NIF3L1/UTR-3 and ORC2/UTR-3 |
| rs13412430 | 201774355 | T | 0.23 | −0.56 | 7.21E-06 | 2 | NIF3L1/UTR-3 and ORC2/UTR-3 |
| rs10172647 | 201778950 | A | 0.23 | −0.56 | 7.29E-06 | 2 | ORC2/intron |
| rs3125719 | 29990966 | T | 0.18 | −0.56 | 7.30E-06 | 13 | MTUS2/intron |
| c2.201899549.b37p0 | 201899549 | C | 0.17 | −0.56 | 7.35E-06 | 2 | |
| rs6445044 | 171920569 | G | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs6414541 | 171920637 | C | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs3923825 | 171922127 | T | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs3924140 | 171926314 | C | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs4610256 | 171928021 | C | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs6445045 | 171928400 | C | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs9867872 | 171928985 | C | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs9868872 | 171929530 | G | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs4380442 | 171930381 | A | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs6763764 | 171931389 | C | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs6803181 | 171932256 | C | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs6780871 | 171932606 | G | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs6806070 | 171932935 | C | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs7619745 | 171933571 | A | 0.16 | −0.56 | 7.48E-06 | 3 | FNDC3B/intron |
| rs2016325 | 66323500 | T | 0.35 | 0.56 | 7.68E-06 | 7 | |
| rs6435066 | 201766023 | G | 0.23 | −0.56 | 8.00E-06 | 2 | NIF3L1/intron |
| rs7917 | 201768238 | T | 0.23 | −0.56 | 8.00E-06 | 2 | NIF3L1/missense |
| rs11894842 | 201773545 | C | 0.23 | −0.56 | 8.00E-06 | 2 | NIF3L1/UTR-3 and ORC2/UTR-3 |
| rs10167387 | 201808618 | C | 0.23 | −0.56 | 8.00E-06 | 2 | ORC2/Intron |
| rs68133847 | 201812251 | G | 0.23 | −0.56 | 8.00E-06 | 2 | ORC2/Intron |
| rs11892372 | 201819483 | A | 0.23 | −0.56 | 8.00E-06 | 2 | ORC2/Intron |
| rs3901120 | 201863530 | C | 0.23 | −0.56 | 8.00E-06 | 2 | FAM126B/intron |
| rs16836591 | 201894943 | T | 0.23 | −0.56 | 8.00E-06 | 2 | FAM126B/intron |
| rs10185136 | 201904301 | T | 0.23 | −0.56 | 8.00E-06 | 2 | FAM126B/intron |
| rs10197833 | 201904466 | C | 0.23 | −0.56 | 8.00E-06 | 2 | FAM126B/intron |
| rs16842071 | 201931730 | C | 0.23 | −0.56 | 8.00E-06 | 2 | FAM126B/intron |
| rs13410282 | 201971024 | A | 0.23 | −0.56 | 8.00E-06 | 2 | CFLAR/UTR-5 |
| rs16836710 | 201999845 | T | 0.19 | −0.57 | 8.39E-06 | 2 | CFLAR/intron |
| rs61457372 | 70359774 | C | 0.35 | 0.56 | 8.73E-06 | 17 | |
| rs6841405 | 65067406 | G | 0.4 | 0.56 | 8.86E-06 | 4 | nearest gene (~150 kb down TECRL) |
| rs7597409 | 201893188 | T | 0.23 | −0.56 | 8.97E-06 | 2 | FAM126B/intron |
| rs12723025 | 223977519 | T | 0.073 | 0.56 | 9.06E-06 | 1 | TP53BP2/intron |
| rs6754564 | 201779932 | C | 0.16 | −0.56 | 9.69E-06 | 2 | ORC2/Intron |