Statistics
| Case | Control |
|---|---|
| 50309 | 409885 |
Phenotype Definition
A tumor (abnormal growth of tissue) of the head and neck region with origin in the lip, oral cavity, nasal cavity, paranasal sinuses, pharynx, or larynx. [HPO:probinson]
Top SNP Information
| Location | SNP | Gene | Ref>Alt | Alt in Case | Alt in Control | Chi-square | P-value | Odds ratio |
|---|---|---|---|---|---|---|---|---|
| chr15:48426484 | rs1426654 | SLC24A5 | A>G | 2360 | 25166 | 155.7 | 1.006e-35 | 0.7627 |
| chr15:48392165 | rs1834640 | - | A>G | 2842 | 28782 | 120.8 | 4.293e-28 | 0.8036 |
| chr16:7465748 | rs4786166 | RBFOX1 | C>T | 1526 | 16268 | 99.42 | 2.045e-23 | 0.7648 |
| chr13:72441665 | rs3759505 | - | C>T | 1438 | 15277 | 90.98 | 1.451e-21 | 0.7678 |
| chr8:145639681 | rs1871534 | SLC39A4 | G>C | 1586 | 16559 | 87.47 | 8.575e-21 | 0.781 |
| chr13:113979972 | Affx-80297025 | GRTP1 | A>ACACT | 1058 | 11649 | 86.69 | 1.27e-20 | 0.7413 |
| chr13:113979968 | rs200506581 | GRTP1 | C>CCACA | 1061 | 11665 | 86.11 | 1.699e-20 | 0.7423 |
| chr1:159174683 | rs2814778 | ACKR1 | T>C | 1714 | 17663 | 84.42 | 4.005e-20 | 0.7915 |
| chr5:147671850 | rs7724380 | - | G>A | 1795 | 18388 | 84.25 | 4.364e-20 | 0.7957 |
| chr2:211717706 | rs12995612 | - | C>G | 1430 | 15042 | 83.65 | 5.9e-20 | 0.7755 |
| chr4:134694407 | rs6845289 | - | G>A | 1001 | 11019 | 81.72 | 1.569e-19 | 0.7417 |
| chr12:3417813 | rs729914 | - | G>T | 1398 | 14689 | 80.83 | 2.459e-19 | 0.7767 |
| chr9:140957557 | rs11137360 | CACNA1B | A>G | 1886 | 19120 | 80.11 | 3.541e-19 | 0.8045 |
| chr17:58508582 | rs8071181 | C17orf64 | G>A | 1336 | 14081 | 79.39 | 5.11e-19 | 0.7741 |
| chr5:147863034 | rs9325101 | HTR4 | A>G | 1467 | 15273 | 78.6 | 7.617e-19 | 0.7839 |
| chr4:175428308 | rs2612657 | HPGD | T>C | 918 | 10130 | 76.26 | 2.482e-18 | 0.7399 |
| chr20:31914031 | rs4911320 | - | G>T | 4085 | 38497 | 76.07 | 2.734e-18 | 0.8639 |
| chr10:31495974 | rs1250307 | - | A>G | 2078 | 20694 | 74.04 | 7.64e-18 | 0.819 |
| chr1:207782889 | rs17047661 | CR1 | A>G | 1240 | 13079 | 73.96 | 7.965e-18 | 0.7738 |
| chr6:170242949 | rs9396958 | - | T>C | 1416 | 14698 | 73.95 | 7.995e-18 | 0.7863 |
| chr19:18724695 | rs117674834 | TMEM59L | G>A | 2518 | 18197 | 32.62 | 1.123e-08 | 1.131 |
| chr19:18726211 | rs57263982 | TMEM59L | C>G | 10333 | 79659 | 31.19 | 2.342e-08 | 1.064 |
| chr2:202044159 | rs72931097 | - | A>C | 2910 | 26384 | 31.09 | 2.464e-08 | 0.8954 |
| chr2:20878105 | rs9306894 | GDF7 | A>G | 36581 | 290741 | 30.94 | 2.665e-08 | 1.039 |
| chr17:11451874 | rs3095681 | SHISA6 | A>G | 32177 | 269310 | 30.82 | 2.828e-08 | 0.961 |
| chr17:50270268 | rs12939066 | - | C>T | 34114 | 270894 | 30.46 | 3.415e-08 | 1.04 |
| chr11:112881215 | rs17114673 | NCAM1 | G>A | 11968 | 92787 | 29.67 | 5.126e-08 | 1.058 |
| chr19:18651830 | rs61758308 | FKBP8 | C>T | 3861 | 28694 | 29.67 | 5.117e-08 | 1.1 |
| chr6:26158079 | rs7749823 | - | A>C | 14407 | 122577 | 28.3 | 1.04e-07 | 0.9506 |
| chr4:102341509 | rs12649313 | BANK1 | T>C | 29717 | 235713 | 27.7 | 1.418e-07 | 1.039 |
| chr15:99084760 | rs4641724 | - | C>A | 7350 | 63726 | 27.7 | 1.417e-07 | 0.9349 |
| chr11:113023716 | rs75794878 | NCAM1 | G>T | 10413 | 80589 | 27.39 | 1.664e-07 | 1.059 |
| chr6:26157762 | rs3857546 | - | C>T | 14494 | 123193 | 27.34 | 1.704e-07 | 0.9516 |
| chr11:113000567 | rs17509332 | NCAM1 | C>T | 10347 | 80049 | 27.18 | 1.858e-07 | 1.059 |
| chr7:114313199 | rs12705973 | FOXP2 | A>G | 48093 | 384520 | 26.96 | 2.076e-07 | 1.035 |
| chr12:54395054 | rs12313705 | AC012531.3 | G>A | 39715 | 330573 | 26.7 | 2.377e-07 | 0.9653 |
| chr3:50207227 | rs3774749 | SEMA3F | C>T | 45816 | 380248 | 26.58 | 2.529e-07 | 0.966 |
| chr19:18803172 | rs10419226 | CRTC1 | G>T | 46721 | 373754 | 26.47 | 2.681e-07 | 1.035 |
| chr4:102285035 | rs4699211 | - | C>T | 28911 | 229252 | 26.35 | 2.851e-07 | 1.039 |
| chr4:103188709 | rs13107325 | SLC39A8 | C>T | 7926 | 60938 | 25.63 | 4.141e-07 | 1.065 |
| Location | SNP | Gene | Ref>Alt | Alt in Case | Alt in Control | Chi-square | P-value | Odds ratio |
|---|---|---|---|---|---|---|---|---|
| chr3:50207227 | rs3774749 | SEMA3F | C>T | 45816 | 145078 | 29.23 | 6.442e-08 | 0.9614 |
| chr4:102341509 | rs12649313 | BANK1 | T>C | 29717 | 89511 | 27.27 | 1.771e-07 | 1.042 |
| chr17:11451874 | rs3095681 | SHISA6 | A>G | 32177 | 102518 | 26.81 | 2.249e-07 | 0.9606 |
| chr20:46383036 | rs7264351 | SULF2 | T>C | 5844 | 16788 | 26.64 | 2.454e-07 | 1.084 |
| chr2:202173812 | rs16837131 | FLACC1 | C>A | 8363 | 27558 | 26.5 | 2.632e-07 | 0.935 |
| chr3:50129399 | Affx-22412948 | RBM6 | C>T | 47189 | 149203 | 25.72 | 3.951e-07 | 0.9638 |
| chr3:50174848 | rs7642934 | - | G>A | 46943 | 148425 | 25.1 | 5.432e-07 | 0.9642 |
| chr4:102285035 | rs4699211 | - | C>T | 28911 | 87081 | 25.03 | 5.648e-07 | 1.041 |
| chr3:50070763 | rs7621352 | RBM6 | A>C | 46261 | 146255 | 24.79 | 6.401e-07 | 0.9644 |
| chr6:26158079 | rs7749823 | - | A>C | 14407 | 46674 | 24.79 | 6.382e-07 | 0.95 |
| chr16:53454077 | rs13334012 | - | A>G | 15568 | 46249 | 24.74 | 6.565e-07 | 1.051 |
| chr1:69287391 | rs9887767 | - | C>A | 9585 | 31380 | 24.33 | 8.098e-07 | 0.9412 |
| chr6:26157762 | rs3857546 | - | C>T | 14494 | 46912 | 23.85 | 1.044e-06 | 0.951 |
| chr3:49936102 | rs2230590 | MST1R | C>T | 47851 | 151041 | 23.72 | 1.111e-06 | 0.9652 |
| chr16:53522172 | rs28399019 | RBL2 | T>C | 16931 | 50491 | 23.32 | 1.372e-06 | 1.048 |
| chr19:18724695 | rs117674834 | TMEM59L | G>A | 2518 | 6993 | 23.08 | 1.554e-06 | 1.12 |
| chr3:49902544 | rs9821675 | CAMKV | A>G | 51330 | 156393 | 22.38 | 2.24e-06 | 1.035 |
| chr5:106533861 | rs1422203 | - | C>T | 46720 | 147482 | 22.37 | 2.25e-06 | 0.9662 |
| chr3:50242387 | rs1858828 | - | G>T | 44596 | 135655 | 22.36 | 2.256e-06 | 1.035 |
| chr15:99084760 | rs4641724 | - | C>A | 7350 | 24202 | 22.11 | 2.574e-06 | 0.937 |
Associated Diseases ⓘ
| ID | Name | Top Correlation |
|---|---|---|
| ICD: C159 | Oesophagus, unspecified | 2/20 |
| ICD: K20 | Oesophagitis | 11/20 |
| ICD: K21 | Gastro-oesophageal reflux disease | 13/20 |
| ICD: K221 | Ulcer of oesophagus | 8/20 |