Table 1 Genes significant in meta-analysis and identified in CNV-based association tests
Gene Name | CNV Type | Group 1 | Group 2 | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
CNVR(hg19) | TagSNP | P value | Cases # | Control # | CNV QC Pass/Fail | CNVR(hg19) | TagSNP | P value | Cases # | Control # | CNV QC Pass/Fail | ||
BBS5, KLHL41 | Deletion | chr2:170354790–170368798 | rs3769772 | 1.86E-11 | 30 | 11 | PASS | chr2:170343083–170840224 | rs2592804 | 0.217885025 | 1 | 0 | FAIL |
CDK19 | Deletion | chr6:110972494–111696091 | rs12198236 | 0.01327263 | 3 | 0 | FAIL | chr6:111061814–111381468 | rs9374202 | 0.010264833 | 3 | 0 | PASS |
SYNE1 | Deletion | chr6:152938025–152969462 | rs6940651 | 0.237247353 | 1 | 0 | FAIL | chr6:152511420–152516441 | rs7772542 | 2.04E-09 | 13 | 0 | FAIL |
TARPa | Deletion | chr7:38357194–38364605 | rs11765884 | 3.74E-05 | 18 | 13 | PASS | chr7:38341226–38341925 | rs2736973 | 2.56E-07 | 29 | 26 | PASS |
TONSL-AS1, TONSLa | Deletion | chr8:144992103–146235564 | rs11136344 | 0.027970085 | 7 | 7 | PASS | chr8:145660543–145666578 | rs2306384 | 5.04E-05 | 12 | 6 | PASS |
UPF2a | Deletion | chr10:12028228–12076043 | rs7899260 | 0.00313275 | 4 | 0 | PASS | chr10:12062959–12075960 | rs7072007 | 8.15E-06 | 9 | 1 | PASS |
TET1 | Deletion | chr10:70342775–70775081 | rs7071780 | 0.05619918 | 2 | 0 | FAIL | chr10:70410630–70432644 | rs10762236 | 9.01E-11 | 15 | 0 | PASS |
MICU1 | Deletion | chr10:74250792–74534174 | rs7912170 | 0.237133237 | 1 | 0 | FAIL | chr10:74304790–74433626 | rs7909573 | 4.56E-08 | 11 | 0 | PASS |
ADK | Deletion | chr10:76092179–76099557 | rs10824151 | 5.31E-06 | 14 | 5 | FAIL | chr10:76372037–77001459 | rs4746209 | 0.047420164 | 2 | 0 | FAIL |
NUCB2a | Deletion | chr11:17300844–17320797 | rs12419530 | 4.08E-05 | 7 | 0 | PASS | chr11:17332461–17339127 | rs10466382 | 0.034028702 | 3 | 1 | PASS |
LARP4 | Deletion | chr12:49846626–51537196 | rs10876136 | 0.237133237 | 1 | 0 | FAIL | chr12:50768339–50807570 | rs7296212 | 2.21E-05 | 7 | 0 | PASS |
AQR | Deletion | chr15:34261920–35227613 | rs16954263 | 0.237133237 | 1 | 0 | FAIL | chr15:35233730–35252767 | rs4513050 | 2.33E-09 | 17 | 3 | FAIL |
PIGL | Deletion | chr17:15043999–16221319 | rs7210224 | 0.237133237 | 1 | 0 | FAIL | chr17:16196056–16207526 | rs11868284 | 2.21E-05 | 7 | 0 | PASS |
PAFAH1B1 | Deletion | chr17:1811983–2578648 | rs9674799 | 0.056145117 | 2 | 0 | FAIL | chr17:2534710–2561169 | rs11078288 | 0.000478637 | 5 | 0 | PASS |
SLC19A1 | Deletion | chr21:46298869–47863025 | rs2330183 | 0.138704428 | 2 | 1 | FAIL | chr21:46945024–46953292 | rs4819128 | 9.13E-06 | 10 | 2 | PASS |
FOLH1B | Duplication | chr11:89123768–89405190 | rs7929532 | 0.237133237 | 1 | 0 | FAIL | chr11:89374850–89405190 | rs7112871 | 3.71E-35 | 54 | 2 | FAIL |