Statistics
| Case | Control |
|---|---|
| 4254 | 455940 |
Phenotype Definition
An abnormally low count of T cells. [HPO:probinson]
Top SNP Information
| Location | SNP | Gene | Ref>Alt | Alt in Case | Alt in Control | Chi-square | P-value | Odds ratio |
|---|---|---|---|---|---|---|---|---|
| chr7:50889062 | rs6953726 | - | A>C | 281 | 20577 | 39.01 | 4.215e-10 | 1.46 |
| chr12:53817956 | rs784894 | AMHR2 | C>A | 165 | 10939 | 36.7 | 1.377e-09 | 1.608 |
| chr18:9536315 | rs14336 | RALBP1 | A>C | 183 | 12684 | 33.48 | 7.21e-09 | 1.54 |
| chr16:17200759 | rs8044934 | XYLT1 | G>A | 259 | 19236 | 33.2 | 8.333e-09 | 1.439 |
| chr1:25589335 | rs28670433 | RSRP1 | A>G | 203 | 14430 | 32.74 | 1.054e-08 | 1.501 |
| chr23:109167576 | rs2475827 | - | A>T | 251 | 18948 | 31.99 | 1.55e-08 | 1.439 |
| chr16:17200685 | rs8046024 | XYLT1 | C>T | 260 | 19517 | 31.42 | 2.076e-08 | 1.424 |
| chr4:75160824 | rs16850864 | MTHFD2L | C>T | 259 | 19438 | 31.35 | 2.159e-08 | 1.424 |
| chr17:29338545 | rs7211961 | - | G>C | 290 | 22229 | 30.93 | 2.673e-08 | 1.394 |
| chr10:49451051 | rs1623017 | FRMPD2 | C>A | 228 | 16772 | 30.76 | 2.915e-08 | 1.451 |
| chr8:31815829 | rs327399 | NRG1 | T>C | 245 | 18377 | 29.82 | 4.729e-08 | 1.425 |
| chr23:148045160 | rs6655003 | AFF2 | A>G | 557 | 47884 | 29.38 | 5.941e-08 | 1.272 |
| chr17:29350769 | rs8073072 | - | T>G | 323 | 25383 | 29.36 | 5.995e-08 | 1.36 |
| chr17:29375177 | rs6505228 | - | A>G | 293 | 22701 | 29.2 | 6.52e-08 | 1.379 |
| chr23:30901455 | rs5972257 | TAB3 | C>T | 168 | 11960 | 29.18 | 6.605e-08 | 1.525 |
| chr9:129562274 | rs78594581 | - | C>T | 190 | 13689 | 28.81 | 8.004e-08 | 1.482 |
| chr11:126479796 | rs1788958 | KIRREL3 | A>C | 263 | 20096 | 28.56 | 9.079e-08 | 1.398 |
| chr17:29290106 | rs55861543 | - | C>T | 267 | 20492 | 28.38 | 9.977e-08 | 1.393 |
| chr6:137344363 | rs1744080 | IL20RA | G>A | 221 | 16389 | 28.31 | 1.036e-07 | 1.437 |
| chr23:64367019 | rs7064929 | - | G>A | 228 | 17338 | 27.99 | 1.221e-07 | 1.429 |
| chr1:160994613 | rs115081253 | AL591806.4 | C>T | 165 | 12486 | 20.35 | 6.439e-06 | 1.426 |
| chr1:181983018 | rs3908799 | - | T>C | 1007 | 94642 | 19.04 | 1.282e-05 | 1.158 |
| chr2:68153556 | rs2221337 | - | C>T | 3383 | 384342 | 18.57 | 1.634e-05 | 0.9084 |
| chr20:19648173 | rs62200292 | SLC24A3 | C>A | 137 | 10195 | 18.49 | 1.708e-05 | 1.449 |
| chr5:104049069 | rs117907767 | - | C>T | 126 | 9222 | 18.48 | 1.717e-05 | 1.471 |
| chr5:141987884 | rs17287329 | FGF1 | C>T | 142 | 10632 | 18.45 | 1.744e-05 | 1.439 |
| chr11:79293794 | rs12272156 | - | T>C | 2434 | 242147 | 18.18 | 2.009e-05 | 1.108 |
| chr22:19773308 | rs5993830 | GNB1L | T>C | 2698 | 309230 | 17.94 | 2.278e-05 | 0.9056 |
| chr10:90793960 | rs11202941 | - | C>A | 297 | 40475 | 17.82 | 2.424e-05 | 0.7791 |
| chr3:18848880 | rs73039321 | - | G>T | 624 | 78644 | 17.7 | 2.591e-05 | 0.8391 |
| chr12:117988186 | rs4767562 | KSR2 | T>C | 1935 | 190324 | 17.59 | 2.735e-05 | 1.115 |
| chr4:5719909 | rs34580319 | EVC | A>G | 1218 | 116591 | 17.52 | 2.85e-05 | 1.139 |
| chr7:54176608 | rs79944901 | - | G>A | 177 | 13907 | 17.29 | 3.211e-05 | 1.372 |
| chr11:79294066 | rs11237918 | - | T>C | 3601 | 365415 | 17.2 | 3.356e-05 | 1.096 |
| chr22:19769668 | rs12484920 | TBX1 | G>C | 1308 | 155522 | 17.14 | 3.479e-05 | 0.8826 |
| chr8:72528849 | rs74677734 | - | G>A | 496 | 44325 | 17.1 | 3.539e-05 | 1.212 |
| chr23:123392515 | rs1279818 | STAG2 | G>T | 1084 | 105328 | 16.93 | 3.882e-05 | 1.148 |
| chr22:17443370 | rs80020649 | GAB4 | G>A | 292 | 24655 | 16.91 | 3.911e-05 | 1.279 |
| chr3:185857594 | rs115722798 | DGKG | C>T | 198 | 15882 | 16.84 | 4.066e-05 | 1.344 |
| chr19:16088702 | rs28567690 | - | G>T | 1049 | 99780 | 16.82 | 4.104e-05 | 1.146 |
| Location | SNP | Gene | Ref>Alt | Alt in Case | Alt in Control | Chi-square | P-value | Odds ratio |
|---|---|---|---|---|---|---|---|---|
| chr2:211383576 | rs115412697 | CPS1 | C>T | 184 | 58 | 25.26 | 5.001e-07 | 0.4699 |
| chr3:81062830 | rs13072929 | - | G>A | 290 | 79 | 23.08 | 1.55e-06 | 0.5388 |
| chr15:71816321 | rs74589282 | THSD4 | C>T | 172 | 53 | 21.77 | 3.077e-06 | 0.4814 |
| chr6:109133000 | rs492826 | - | T>G | 201 | 59 | 21.38 | 3.772e-06 | 0.5034 |
| chr3:188586923 | rs79325358 | LPP | G>A | 481 | 114 | 20.26 | 6.755e-06 | 0.6155 |
| chr7:13859749 | rs16878006 | - | T>A | 1594 | 310 | 20.22 | 6.897e-06 | 0.7277 |
| chr6:92196724 | rs72927799 | - | G>A | 155 | 48 | 20.0 | 7.753e-06 | 0.4794 |
| chr14:39716808 | rs3825549 | MIA2 | T>C | 612 | 140 | 20.0 | 7.746e-06 | 0.6443 |
| chr2:211485471 | rs150971421 | CPS1 | G>T | 169 | 51 | 19.83 | 8.479e-06 | 0.4917 |
| chr19:12793858 | rs75410819 | - | C>T | 273 | 73 | 19.8 | 8.593e-06 | 0.5522 |
| chr7:49213642 | rs4606010 | - | T>C | 723 | 158 | 19.7 | 9.078e-06 | 0.6622 |
| chr3:155542475 | rs358702 | AC104472.3 | G>A | 2225 | 413 | 19.52 | 9.934e-06 | 0.7522 |
| chr3:38045202 | rs13092789 | VILL | G>A | 463 | 110 | 19.37 | 1.076e-05 | 0.6173 |
| chr10:548362 | rs72774532 | DIP2C | A>C | 306 | 79 | 19.27 | 1.132e-05 | 0.5692 |
| chr3:155843745 | rs13073556 | KCNAB1 | C>T | 3400 | 598 | 18.72 | 1.51e-05 | 0.7712 |
| chr7:49264527 | rs4529408 | - | G>A | 761 | 164 | 18.69 | 1.535e-05 | 0.6738 |
| chr5:147377662 | rs79486838 | - | G>C | 174 | 51 | 18.23 | 1.957e-05 | 0.5068 |
| chr13:32454539 | rs354 | FRY | A>C | 425 | 101 | 17.85 | 2.396e-05 | 0.6175 |
| chr7:8950148 | rs62446544 | - | A>G | 338 | 84 | 17.74 | 2.533e-05 | 0.592 |
| chr10:97183789 | rs76374361 | SORBS1 | G>A | 101 | 34 | 17.42 | 3e-05 | 0.4426 |
Associated Diseases ⓘ
| ID | Name | Top Correlation |
|---|---|---|
| ICD: B24 | Unspecified human immunodeficiency virus [HIV] disease | 4/20 |
| ICD: D472 | Monoclonal gammopathy | 3/20 |