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Table 1 Association between homozygosity and susceptibility to TC for individual SNPs

From: Runs of homozygosity and inbreeding in thyroid cancer

SNP CHR BPa Cases AA/BB Cases AB Controls AA/BB Controls AB chi2 P b q *c Genes
rs4698482 4 16020011 519 116 274 157 44.43 2.62 × 10−11 1.40 × 10−5 LDB2
rs11688848 2 204624451 512 119 275 156 40.10 2.40 × 10−10 5.38 × 10−5 ICOS
rs9578483 13 22068754 543 97 296 135 39.66 3.01 × 10−10 5.38 × 10−5 FGF9, FTHL7
rs839509 2 212530542 497 126 270 160 37.09 1.12 × 10−9 0.0001 ERBB4, CPS1, hCG_1645016
rs2414003 15 48105489 514 122 280 151 33.90 5.77 × 10−9 0.0006 ATP8B4, SLC27A2
rs3096381 16 69875502 525 116 289 141 30.46 3.39 × 10−8 0.0028 FLJ11171, HYDIN, CALB2
rs630695 6 117359452 526 103 299 132 30.10 4.09 × 10−8 0.0028 RFXDC1, GPRC6A, VGLL2
rs938845 18 63860975 512 122 284 147 30.02 4.26 × 10−8 0.0028 NA
rs17797954 5 174303096 516 122 287 144 28.09 1.15 × 10−7 0.0068 DRD1
rs10961997 9 15361675 509 134 279 152 27.48 1.58 × 10−7 0.0083 SNAPC3
rs12126497 1 166939482 586 56 346 85 27.33 1.71 × 10−7 0.0083 DPT, XCL1
rs509716 6 131475408 532 113 297 134 26.90 2.13 × 10−7 0.0095 EPB41L2, AKAP7
rs6715968 2 229884476 484 141 272 159 25.75 3.86 × 10−7 0.0159 PID1, DNER
rs712082 1 222792683 545 98 311 120 25.32 4.83 × 10−7 0.0173 WDR26, AKR1B1P1
rs6440553 3 149713261 545 84 321 110 25.32 4.84 × 10−7 0.0173 RPL38P1
rs8043171 15 90065471 529 105 304 127 25.07 5.50 × 10−7 0.0184 SLCO3A1
rs12902263 15 69429108 556 87 321 110 24.77 6.44 × 10−7 0.0197 THSD4, hCG_2004593, NR2E3
rs10254361 7 119351441 522 116 296 135 24.72 6.62 × 10−7 0.0197 KCND2
rs11563992 7 27347461 507 115 294 136 24.16 8.86 × 10−7 0.0242 NA
rs7018634 9 20249528 538 100 310 121 24.11 9.05 × 10−7 0.0242 SLC24A2, SMNP
rs11169076 12 48261675 571 72 335 96 23.99 9.68 × 10−7 0.0247 MCRS1, FAM186B
rs1943939 18 69856260 556 62 342 89 23.22 1.43 × 10−6 0.0332 FBXO15,
rs12660310 6 167051901 503 120 292 139 23.18 1.46 × 10−6 0.0332 RPS6KA2, RNASET2
rs11204947 1 150484881 489 135 280 151 23.16 1.48 × 10−6 0.0332 HRNR, FLG,
rs3821310 2 74923771 581 61 345 85 23.06 1.56 × 10−6 0.0335 HK2, SEMA4F, POLE4
rs9407406 9 8229748 532 95 314 117 22.93 1.67 × 10−6 0.0345 C9orf123, PTPRD
rs2830028 21 26349119 493 133 282 148 22.64 1.94 × 10−6 0.0386 APP, GABPA, CYYR1
rs11151652 18 67133203 554 91 319 110 22.52 2.07 × 10−6 0.0397 CBLN2
rs10779770 1 12529312 537 97 314 117 22.42 2.18 × 10−6 0.0403 VPS13D, DHRS3
rs1508833 5 38050010 519 108 303 127 22.35 2.26 × 10−6 0.0404 GDNF, EGFLAM
rs554232 8 102533760 540 98 314 117 22.23 2.40 × 10−6 0.0408 NACAP1, GRHL2
rs2102727 8 53063166 502 133 285 146 22.21 2.43 × 10−6 0.0408 PCMTD1, ST18,
rs9379246 6 8777273 571 67 341 90 22.11 2.56 × 10−6 0.0416 HULC
rs7481683 11 8157762 454 174 252 179 21.98 2.75 × 10−6 0.0434 RIC3, LMO1
  1. aGenome build hg18
  2. b P was calculated using a simple 2x2 chi2 test based on the number of homozygotes and heterozygotes at each SNP in cases and controls
  3. c q *values representing the false discovery rate (FDR)