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Table 2 Gene-based SKAT-O results for genes in selected categories with p < 0.05

From: Targeted massively parallel sequencing of autism spectrum disorder-associated genes in a case control cohort reveals rare loss-of-function risk variants

Exonic (524 genes) Nonsynonymous (499 genes) Damaging (504 genes)
Gene p values Gene p values Gene p values
CACNA2D1 0.000478745 PLA2G6 0.00959325 ERMAP 0.00955634
GNPTAB 0.004651201 CDC42EP4 0.010211946 SLC17A9 0.011358674
BICD1 0.008804534 SLC17A9 0.010656919 KIAA1274 0.01243212
PPM1H 0.011408084 AMIGO2 0.016812058 ZNF519 0.017563864
DDO 0.0124426 GNPTAB 0.018063006 ANKRD22 0.020850511
DGKG 0.015419571 OSGIN2 0.019535871 PA238 0.021527527
PKP4 0.0213883 ANKRD22 0.020850511 CDC42EP4 0.023737296
PARVA 0.022742454 PAX8 0.021527527 PTPRK 0.023809113
BACH2 0.026375169 ERMAP 0.021748476 PDK4 0.02412783
LOC158381 0.026815002 PDK4 0.024493537 OSGIN2 0.02476071
SLC17A9 0.032466663 SPON1 0.026942389 FMN2 0.026304563
IL17RA 0.035317441 NTRK3 a 0.027348276 SPON1 0.026942389
QBRICK 0.035922397 DGKI 0.030212727 SLITRK5 0.028283659
NRXN1 a 0.040563396 FAM19A4 0.030428212 DGKI 0.028626935
KCNH7 0.043770294 THAP2 0.042761309 SLC16A12 0.030211966
TG 0.047652525 C18orf22 0.044978318 FAM19A4 0.030428212
   FGFR2 0.046420494 SLC24A2 0.031130372
   SPANXN3 0.047977446 DDO 0.032382611
   KCNH7 0.048279279 TG 0.035323522
     KIAA0914 0.036561743
     ZNF396 0.038298063
     THAP2 0.046033231
     C18orf22 0.046801921
     PDZD2 0.046866496
     LASS6 0.047604531
  1. Rare variants (MAF <0.01) within genes underwent gene-based association testing by SKAT-O. All genes with nominal SKAT-O p values <0.05 are represented
  2. aGene is a potential ASD candidate gene in the SFARI Gene Database (https://gene.sfari.org/autdb/)