Supplementary Table 1.
Risk locus candidates for screening among CD patients.
| Gene | SNP | Chr | G-position | Allele | Functional consequence |
|---|---|---|---|---|---|
| 4p14 | rs1487630 | 4 | 38335823 | C>T | Intron variant |
| ATG16L1 | rs2241880 | 2 | 234183368 | A>G | Missense |
| ATG16L2 | rs11235604 | 11 | 72533536 | C>T | Missense |
| ATG16L2-FCHSD2 | rs11235667 | 11 | 72863697 | A>G | |
| BTNL2 | rs28362680 | 6 | 32370816 | G>A | Intron variant |
| CARD9 | rs200735402 | 9 | 139265120 | C>T | Missense |
| CDKAL1 | rs6908425 | 6 | 20728731 | T>C | Intron variant |
| DEFB1 | rs2978880 | 8 | 6724306 | G>A | Upstream variant 2KB |
| DNAH12 | rs4462937 | 3 | 57414434 | A>G | Missense |
| DR4 | rs13278062 | 8 | 23082971 | G>T | Upstream variant 2KB |
| DR4 | rs20575 | 8 | 23059324 | C>G | Missense |
| DR5 | rs1047266 | 8 | 22900701 | G>A | Intron variant |
| DLG1 | rs527829647 | 3 | 197194534 | A>G | Missense |
| DLG1 | rs1134986 | 3 | 197138371 | C>T | Missense |
| FUT3 | rs28362459 | 19 | 5844781 | A>C | Missense |
| FUT3 | rs3745635 | 19 | 5844332 | C>T | Missense |
| FUT3 | rs3894326 | 19 | 5843773 | A>T | Missense |
| GPR35 | rs3749172 | 2 | 241570249 | A>C | Missense |
| HLA-DQA2 | rs3208181 | 6 | 32713030 | T>C | Synonymous codon |
| IL-23R | rs11209026 | 1 | 67705958 | G>A | Missense |
| IL-23R | rs6588248 | 1 | 67652984 | T>G | Intron variant |
| IL-23R | rs7517847 | 1 | 67681669 | T>G | Intron variant |
| IL-23R | rs1004819 | 1 | 67670213 | G>A | Intron variant |
| IL-23R | rs76418789 | 1 | 67648596 | G>A | Missense |
| IL-23R | rs11209032 | 1 | 67740092 | G>A | |
| IL-27 | rs153109 | 16 | 28507775 | T>C | Intron variant |
| IRF5 | rs2004640 | 7 | 128578301 | G>T | Intron variant |
| IRF5 | rs3807306 | 7 | 128580680 | G>T | Intron variant |
| IRGM | rs10065172 | 5 | 150848436 | C>T | Synonymous codon |
| IRGM | rs11741861 | 5 | 150898347 | A>G | Intron variant |
| IRGM | rs12654043 | 5 | 150846533 | A>G | Utr variant 5 prime |
| IRGM | rs13361189 | 5 | 150843825 | T>C | |
| IRGM | rs4958847 | 5 | 150860025 | G>A | Intron variant |
| IRGM | rs72553867 | 5 | 150848404 | C>A | Missense |
| IRGM | rs9637870 | 5 | 150848053 | G>A | Utr variant 5 prime |
| IRGM | rs9637876 | 5 | 150847863 | C>T | Utr variant 5 prime |
| MHC | rs7765379 | 6 | 32680928 | T>G | |
| MHC | rs9271366 | 6 | 32619077 | G>A | |
| BTNL2 | rs10947261 | 6 | 32405455 | G>T | Intron variant |
| NFKBIA | rs2273650 | 14 | 35870798 | C>T | Utr variant 3 prime |
| NKX2–3 | rs10883365 | 10 | 101287764 | G>A | Nc transcript variant |
| NKX2–3 | rs4409764 | 10 | 101284237 | T>G | |
| NKX2–3 | rs888208 | 10 | 101284237 | T>G | |
| NOTCH4 | rs422951 | 6 | 32188383 | T>C | Missense |
| PPP5C | rs4802307 | 19 | 46346549 | G>T | Upstream variant 2KB |
| PTPN2 | rs514000 | 18 | 12854073 | C>T | Intron variant |
| PUS10 | rs13003464 | 2 | 61186829 | A>G | Intron variant |
| PUS10 | rs7608910 | 2 | 60977721 | A>G | Intron variant |
| RNASET2 | rs2149085 | 6 | 167371110 | T>C | Upstream variant 2KB |
| SLC22A4 | rs1050152 | 5 | 132340627 | C>T | Intron variant |
| SLC25A15-ELF1-WBP4 | rs7329174 | 13 | 41558110 | A>G | Intron variant |
| SMNDC1-DUSP5 | rs11195128 | 10 | 112186148 | C>T | |
| SOX11 | rs11894081 | 2 | 5664008 | G>T | |
| STAT3 | rs1053004 | 17 | 40466092 | G>A | Utr variant 3 prime |
| STAT3 | rs9891119 | 17 | 40507980 | A>C | Intron variant |
| STAT4 | rs7574865 | 2 | 191964633 | T>G | Intron variant |
| TBC1D1-KLF3 | rs6856616 | 4 | 38325036 | T>C | |
| TNF-α | rs1799964 | 6 | 31542308 | T>C | Downstream variant 500B |
| TNF-α | rs1800630 | 6 | 31542476 | C>A | Downstream variant 500B |
| TUBD1 | rs1292053 | 17 | 59886176 | A>G | Intron variant |
| TNFSF15 | rs10114470 | 9 | 117547772 | T>C | Utr variant 3 prime |
| TNFSF15 | rs3810936 | 9 | 117552885 | T>C | Synonymous codon |
| TNFSF15 | rs4263839 | 9 | 117566440 | A>G | Intron variant |
| TNFSF15 | rs4574921 | 9 | 117538334 | C>T | |
| TNFSF15 | rs6478106 | 9 | 117545666 | C>T | |
| TNFSF15 | rs6478108 | 9 | 117558703 | C>T | Intron variant |
| TNFSF15 | rs6478109 | 9 | 117568766 | A>G | Upstream variant 2KB |
| TNFSF15 | rs7848647 | 9 | 117569046 | T>C | Upstream variant 2KB |
| TNFSF15 | rs7865494 | 9 | 117576479 | C>T | |
| TNFSF15 | rs4246905 | 9 | 114790969 | T>C | Intron variant |
| TNFSF8 | rs3181374 | 9 | 117665187 | A>G | Intron variant |
| USP25 | rs2823256 | 21 | 16784706 | G>A | Intron variant |
| ZMIZ1 | rs1250569 | 10 | 81045207 | T>C | Intron variant |
| ZMIZ1 | rs1250546 | 10 | 79272775 | A>G | Intron variant |
| ZNF365 | rs224143 | 10 | 64477836 | G>A | |
| rs1145816 | 6 | 91663151 | C>T | ||
| LOC105370520 | rs1495465 | 14 | 58016414 | C>A | Upstream variant 2KB |
| rs10761659 | 10 | 64445564 | A>G | ||
| LOC105379031 | rs7702331 | 5 | 73255307 | A>G | Intron variant |
| rs1819333 | 6 | 166960059 | T>G | ||
| LOC105377139 | rs7282490 | 21 | 44195858 | G>A | Upstream variant 2KB |
| NDUT15 | rs186364861 | 13 | 48611934 | G>A | Missense |
| ABCC4 | rs3765534 | 13 | 95815415 | C>T | Missense |
| AOX1 | rs3731772 | 2 | 12739259 | T>C | |
| ITPA | rs1127354 | 20 | 3193842 | C>A | Intron variant, missense |
| MTHFR | rs1801133 | 1 | 11856378 | G>A | Missense |
| GSTP1 | rs1695 | 11 | 67585218 | A>G | Missense |
| RANTES/CCL5 | rs2107538 | 17 | 34207780 | C>T | Intron variant |
| CCR5 | rs1799987 | 3 | 46411935 | A>G | Intron variant |
| CCR5 | rs3181036 | 3 | 46412559 | C>T | Intron variant |