Table 1.
Gene | SNP | Position | Chr | MAF | Alleles | Chi Square | p-value | Model |
---|---|---|---|---|---|---|---|---|
IFNG1 | rs2069728 | 66834051 | 12 | .079 | G>A | 2.12 | .347 | A |
IFNG1 | rs2069727 | 66834490 | 12 | .411 | A>G | 1.72 | .422 | A |
IFNG1 | rs2069718 | 66836429 | 12 | .442 | C>T | 2.83 | .242 | A |
IFNG1 | rs1861493 | 66837463 | 12 | .264 | A>G | 2.39 | .303 | A |
IFNG1 | rs1861494 | 66837676 | 12 | .279 | T>C | 2.50 | .287 | A |
IFNG1 | rs2069709 | 66839970 | 12 | .008 | G>T | 0.39 | .534 | A |
IFNGR1 | rs9376268 | 137574444 | 6 | .246 | G>A | 4.28 | .118 | A |
IL1B | rs1071676 | 106042060 | 2 | .189 | G>C | 0.30 | .863 | A |
IL1B | rs1143643 | 106042929 | 2 | .383 | G>A | 1.51 | .469 | A |
IL1B | rs1143642 | 106043180 | 2 | .082 | C>T | 2.87 | .238 | A |
IL1B | rs1143634 | 106045017 | 2 | .187 | C>T | 0.51 | .774 | A |
IL1B | rs1143633 | 106045094 | 2 | .392 | G>A | 2.85 | .241 | A |
IL1B | rs1143630 | 106046282 | 2 | .115 | C>A | 0.64 | .728 | A |
IL1B | rs3917356 | 106046990 | 2 | .450 | A>G | 0.29 | .864 | A |
IL1B | rs1143629 | 106048145 | 2 | .389 | T>C | 1.03 | .599 | A |
IL1B | rs1143627 | 106049014 | 2 | .397 | T>C | 1.15 | .562 | A |
IL1B | rs16944 | 106049494 | 2 | .386 | G>A | 0.64 | .726 | A |
IL1B | rs1143623 | 106050452 | 2 | .277 | G>C | 2.10 | .350 | A |
IL1B | rs13032029 | 106055022 | 2 | .448 | C>T | 0.09 | .958 | A |
IL1R1 | rs949963 | 96533648 | 2 | .223 | G>A | 1.94 | .379 | A |
IL1R1 | rs2228139 | 96545511 | 2 | .053 | C>G | 1.66 | .436 | A |
IL1R1 | rs3917320 | 96556738 | 2 | .047 | A>C | 0.90 | .637 | A |
IL1R1 | rs2110726 | 96558145 | 2 | .317 | C>T | FE | .007 | D |
IL1R1 | rs3917332 | 96560387 | 2 | .187 | T>A | 2.25 | .324 | A |
IL1R2 | rs4141134 | 96370336 | 2 | .362 | T>C | 0.77 | .680 | A |
IL1R2 | rs11674595 | 96374804 | 2 | .247 | T>C | 1.36 | .507 | A |
IL1R2 | rs7570441 | 96380807 | 2 | .408 | G>A | 1.70 | .428 | A |
IL2 | rs1479923 | 119096993 | 4 | .308 | C>T | 1.89 | .388 | A |
IL2 | rs2069776 | 119098582 | 4 | .184 | T>C | n/a | n/a | n/a |
IL2 | rs2069772 | 119099739 | 4 | .241 | A>G | 0.19 | .911 | A |
IL2 | rs2069777 | 119103043 | 4 | .047 | C>T | 5.21 | .074 | A |
IL2 | rs2069763 | 119104088 | 4 | .277 | T>G | 0.85 | .653 | A |
IL4 | rs2243248 | 127200946 | 5 | .086 | T>G | 1.06 | .588 | A |
IL4 | rs2243250 | 127201455 | 5 | .269 | C>T | n/a | n/a | n/a |
IL4 | rs2070874 | 127202011 | 5 | .245 | C>T | n/a | n/a | n/a |
IL4 | rs2227284 | 127205027 | 5 | .387 | C>A | n/a | n/a | n/a |
IL4 | rs2227282 | 127205481 | 5 | .390 | C>G | n/a | n/a | n/a |
IL4 | rs2243263 | 127205601 | 5 | .124 | G>C | 1.90 | .386 | A |
IL4 | rs2243266 | 127206091 | 5 | .237 | G>A | n/a | n/a | n/a |
IL4 | rs2243267 | 127206188 | 5 | .237 | G>C | n/a | n/a | n/a |
IL4 | rs2243274 | 127207134 | 5 | .261 | G>A | n/a | n/a | n/a |
IL6 | rs4719714 | 22643793 | 7 | .255 | A>T | 1.59 | .452 | A |
IL6 | rs2069827 | 22648536 | 7 | .069 | G>T | 0.84 | .658 | A |
IL6 | rs1800796 | 22649326 | 7 | .134 | G>C | n/a | n/a | n/a |
IL6 | rs1800795 | 22649725 | 7 | .285 | C>G | 3.35 | .187 | A |
IL6 | rs2069835 | 22650951 | 7 | .130 | T>C | n/a | n/a | n/a |
IL6 | rs2066992 | 22651329 | 7 | .091 | G>T | 2.37 | .306 | A |
IL6 | rs2069840 | 22651652 | 7 | .333 | C>G | 3.19 | .203 | A |
IL6 | rs1554606 | 22651787 | 7 | .319 | T>G | 1.36 | .507 | A |
IL6 | rs2069845 | 22653229 | 7 | .319 | G>A | 1.36 | .507 | A |
IL6 | rs2069849 | 22654236 | 7 | .024 | C>T | 2.65 | .266 | A |
IL6 | rs2069861 | 22654734 | 7 | .056 | C>T | 2.06 | .357 | A |
IL6 | rs35610689 | 22656903 | 7 | .259 | A>G | 2.03 | .363 | A |
IL8 | rs4073 | 70417508 | 4 | .455 | T>A | 0.35 | .838 | A |
IL8 | rs2227306 | 70418539 | 4 | .366 | C>T | 1.06 | .588 | A |
IL8 | rs2227543 | 70419394 | 4 | .368 | C>T | 0.61 | .738 | A |
IL10 | rs3024505 | 177638230 | 1 | .129 | C>T | 2.85 | .241 | A |
IL10 | rs3024498 | 177639855 | 1 | .204 | A>G | 0.86 | .650 | A |
IL10 | rs3024496 | 177640190 | 1 | .421 | T>C | 0.79 | .674 | A |
IL10 | rs1878672 | 177642039 | 1 | .416 | G>C | 0.08 | .960 | A |
IL10 | rs3024492 | 177642438 | 1 | .161 | A>T | n/a | n/a | n/a |
IL10 | rs1518111 | 177642971 | 1 | .303 | G>A | 2.04 | .361 | A |
IL10 | rs1518110 | 177643187 | 1 | .301 | G>T | 1.82 | .402 | A |
IL10 | rs3024491 | 177643372 | 1 | .408 | T>G | 0.08 | .961 | A |
IL13 | rs1881457 | 127184713 | 5 | .210 | A>C | 2.20 | .332 | A |
IL13 | rs1800925 | 127185113 | 5 | .233 | C>T | 5.14 | .077 | A |
IL13 | rs2069743 | 127185579 | 5 | .019 | A>G | 2.62 | .270 | A |
IL13 | rs1295686 | 127188147 | 5 | .265 | G>A | 7.89 | .019 | A |
IL13 | rs20541 | 127188268 | 5 | .212 | C>T | 2.18 | .337 | A |
IL17A | rs4711998 | 51881422 | 6 | .346 | G>A | 5.02 | .081 | A |
IL17A | rs8193036 | 51881562 | 6 | .327 | T>C | 1.77 | .412 | A |
IL17A | rs3819024 | 51881855 | 6 | .372 | A>G | 0.52 | .772 | A |
IL17A | rs2275913 | 51882102 | 6 | .361 | G>A | 1.29 | .525 | A |
IL17A | rs3804513 | 51884266 | 6 | .023 | A>T | FE | .544 | A |
IL17A | rs7747909 | 51885318 | 6 | .217 | G>A | 2.70 | .259 | A |
NFKB1 | rs3774933 | 103645369 | 4 | .409 | T>C | 1.139 | .566 | A |
NFKB1 | rs170731 | 103667933 | 4 | .397 | T>A | 2.89 | .576 | A |
NFKB1 | rs17032779 | 103685279 | 4 | .023 | T>C | 0.00 | .968 | A |
NFKB1 | rs230510 | 103695201 | 4 | .366 | T>A | 1.37 | .504 | A |
NFKB1 | rs230494 | 103706005 | 4 | .477 | A>G | 1.01 | .604 | A |
NFKB1 | rs4648016 | 103708706 | 4 | .017 | C>T | 0.09 | .765 | A |
NFKB1 | rs4648018 | 103709236 | 4 | .025 | G>C | 0.02 | .881 | A |
NFKB1 | rs3774956 | 103727564 | 4 | .479 | C>T | 1.05 | .591 | A |
NFKB1 | rs10489114 | 103730426 | 4 | .025 | A>G | 0.02 | .881 | A |
NFKB1 | rs4648068 | 103737343 | 4 | .366 | A>G | 2.42 | .299 | A |
NFKB1 | rs4648095 | 103746914 | 4 | .052 | T>C | 0.00 | .977 | A |
NFKB1 | rs4648110 | 103752867 | 4 | .205 | T>A | 1.50 | .472 | A |
NFKB1 | rs4648135 | 103755716 | 4 | .060 | A>G | 0.07 | .792 | A |
NFKB1 | rs4648141 | 103755947 | 4 | .188 | G>A | 3.02 | .221 | A |
NFKB1 | rs1609798 | 103756488 | 4 | .337 | C>T | 1.02 | .600 | A |
NFKB2 | rs12772374 | 104146901 | 10 | .157 | A>G | 0.10 | .949 | A |
NFKB2 | rs7897947 | 104147701 | 10 | .229 | T>G | 0.67 | .717 | A |
NFKB2 | rs11574849 | 104149686 | 10 | .085 | G>A | 0.47 | .792 | A |
NFKB2 | rs1056890 | 104152760 | 10 | .317 | C>T | 2.47 | .291 | A |
TNFA | rs2857602 | 31533378 | 6 | .341 | T>C | 0.69 | .708 | A |
TNFA | rs1800683 | 31540071 | 6 | .390 | G>A | 1.85 | .397 | A |
TNFA | rs2239704 | 31540141 | 6 | .335 | G>T | 0.42 | .810 | A |
TNFA | rs2229094 | 31540556 | 6 | .278 | T>C | 1.71 | .426 | A |
TNFA | rs1041981 | 31540784 | 6 | .386 | C>A | 1.68 | .433 | A |
TNFA | rs1799964 | 31542308 | 6 | .224 | T>C | 2.34 | .311 | A |
TNFA | rs1800750 | 31542963 | 6 | .016 | G>A | FE | .712 | A |
TNFA | rs1800629 | 31543031 | 6 | .149 | G>A | 3.29 | .193 | A |
TNFA | rs1800610 | 31543827 | 6 | .100 | C>T | 0.71 | .702 | A |
TNFA | rs3093662 | 31544189 | 6 | .074 | A>G | 0.68 | .712 | A |
A = additive model, Chr = chromosome, D = dominant model, IFNG = interferon gamma, IL = interleukin, MAF = minor allele frequency, n/a = not assayed because SNP violated Hardy-Weinberg expectations (p<0.001), NFKB = nuclear factor kappa beta, R = recessive model, SNP= single nucleotide polymorphism, TNFA = tumor necrosis factor alpha
Single nucleotide polymorphisms (SNPs) that violated Hardy-Weinberg expectations are denoted in italics in the MAF column.