Table 2.
Full gene list by category
| ID with highly comorbid autism (HCA) N = 71 | ID with variable autism (VarAut) N = 124 | ID with highly comorbid epilepsy (HCE) N = 86 | ID with variable epilepsy (VarEp) N = 78 | ID without autism or epilepsy (ID only) N = 75 |
|---|---|---|---|---|
| ADNP | ACSL4 | AASS | ADAR | AAAS |
| ADSL | ACY1 | ACTB | ADCK3 | ADAT3 |
| ANKRD11 | ADGRG1 | ACTG1 | ALDH3A2 | AHDC1 |
| ARID1B | AFF2 | ADK | AP4B1 | AIFM1 |
| ARX | AHI1 | AGA | AP4E1 | ALX4 |
| ATRX | ALDH5A1 | ALDH18A1 | AP4S1 | AP1S1 |
| AUTS2 | ALDH7A1 | ALDH4A1 | ARID1A | AP4M1 |
| BCKDK | AP1S2 | ALG13 | ATIC | ARSE |
| BRAF | ARHGEF6 | ALG6 | BSCL2 | B4GALT1 |
| C12orf57 | ASL | ARG1 | CACNG2 | B4GALT7 |
| CC2D1A | BBS10 | ARHGEF9 | CDK5RAP2 | BBS7 |
| CHD2 | BCKDHA | ASPM | CENPJ | BRWD3 |
| CHD7 | BCKDHB | ASXL1 | CHMP1A | C12orf65 |
| DEAF1 | BTD | ATP1A2 | COG8 | C5orf42 |
| DHCR7 | CACNA1D | ATP1A3 | COL4A2 | CA8 |
| DMPK | CAMTA1 | ATP6V0A2 | CSPP1 | CASC5 |
| EHMT1 | CASK | ATR | CYP27A1 | CDH15 |
| FMR1 | CBS | CCDC88C | DCAF17 | CEP152 |
| FOLR1 | CC2D2A | CLN5 | DHTKD1 | CLCNKB |
| FOXG1 | CDKL5 | CLN8 | DIP2B | COG1 |
| FOXP1 | CDON | CLP1 | DNMT3A | COG6 |
| GAMT | CEP290 | CTSA | EIF2AK3 | CRADD |
| GATM | CEP41 | CUL4B | ESCO2 | CRBN |
| GRIA3 | CHKB | D2HGDH | FAT4 | CTDP1 |
| HCN1 | CNTNAP2 | DHCR24 | FGF14 | DDHD2 |
| HDAC8 | COG5 | DHFR | FGFR1 | DDX59 |
| HERC2 | CREBBP | DPM1 | GALE | DLAT |
| HOXA1 | CTCF | EFTUD2 | GALT | EMD |
| IQSEC2 | CTNNB1 | ELOVL4 | GATAD2B | ENTPD1 |
| KIAA2022 | DAG1 | EPG5 | GJC2 | FGFR3 |
| KRAS | DBT | ERLIN2 | GRIN1 | FTCD |
| MAGEL2 | DCHS1 | FAM126A | HFE | GIF |
| MAOA | DCX | FBXL4 | IGF1 | GMPPA |
| MAP2K1 | DDC | GABRA1 | KAT6B | GNPTAB |
| MBD5 | DEPDC5 | GMPPB | KIAA1279 | HPRT1 |
| MECP2 | DLG3 | GRM1 | KRAS | IDUA |
| MED12 | DMD | KANSL1 | LBR | IGBP1 |
| MLL | DOCK8 | KCNQ2 | LINS1 | INPP5E |
| MPLKIP | DPYD | KCNT1 | MANBA | IRX5 |
| NDP | DPYS | KCTD7 | MTRR | KCNK9 |
| NFIX | DYM | KIF5C | MYCN | KIF5A |
| NIPBL | DYNC1H1 | KPTN | NIN | LARGE |
| NRXN1 | DYRK1A | MGAT2 | NTRK1 | LARP7 |
| OCRL | EP300 | MLYCD | OFD1 | MAN2B1 |
| PCDH19 | FGFR2 | MTR | PEPD | MED23 |
| POMGNT1 | FH | NAGA | PEX1 | MIR17HG |
| PQBP1 | FTSJ1 | NDE1 | PIGO | NRAS |
| RAB39B | GABRB3 | NSDHL | PORCN | PACS1 |
| RAD21 | GDI1 | OCLN | PPOX | PDE4D |
| RAI1 | GLYCTK | PAK3 | PTCH1 | PEX11B |
| SATB2 | GNS | PDHA1 | PVRL1 | PEX6 |
| SCN1A | GRIK2 | PDX1 | PYCR1 | POLR3B |
| SETD5 | GRIN2A | PGAP2 | RAB23 | POMT2 |
| SGSH | GRIN2B | PGAP3 | RAB3GAP1 | PRKAR1A |
| SHANK3 | GSS | PHGDH | RAB3GAP2 | PTDSS1 |
| SLC6A8 | HCFC1 | PIGA | RBBP8 | RIT1 |
| SLC9A6 | HDAC4 | PIGL | SAMHD1 | SKI |
| SMAD4 | HEPACAM | PIK3R2 | SERAC1 | SLC4A4 |
| SMARCA2 | HGSNAT | PLP1 | SIL1 | SOS1 |
| SMC1A | HPD | PNKP | SIX3 | SPTBN2 |
| SMC3 | HRAS | PPT1 | SLC12A6 | TAF2 |
| STXBP1 | HUWE1 | QARS | SMARCA4 | TBX1 |
| SYNGAP1 | IL1RAPL1 | RAB18 | SMARCB1 | TECR |
| TBC1D20 | KANK1 | RANBP2 | SOBP | THOC6 |
| TCF4 | KCNH1 | RNASET2 | SOX3 | TMCO1 |
| TSC2 | KCNJ10 | RTTN | SRD5A3 | TMEM237 |
| UBE3A | KDM5C | SEPSECS | ST3GAL3 | TMEM67 |
| UPF3B | KDM6A | SLC19A3 | STIL | TTI2 |
| VPS13B | KIAA0196 | SLC2A1 | SYP | UMPS |
| ZEB2 | KIF7 | SMS | TAT | UQCRQ |
| ZMYND11 | KIRREL3 | SNIP1 | TBC1D7 | WDR81 |
| KMT2D | SPTAN1 | TMEM216 | XYLT1 | |
| L1CAM | ST3GAL5 | TRAPPC9 | YAP1 | |
| L2HGDH | SZT2 | UBE3B | ZBTB16 | |
| LAMB1 | TBCE | UBR1 | ZBTB24 | |
| MAN1B1 | TECPR2 | VLDLR | ||
| MCPH1 | TRMT10A | ZDHHC9 | ||
| MEF2C | TUBA8 | ZIC2 | ||
| METTL23 | TUBB2A | |||
| MKKS | TUBB3 | |||
| MTHFR | UBE2A | |||
| NAGLU | VPS53 | |||
| NDN | WDR45 | |||
| NR2F1 | WDR62 | |||
| NSD1 | WWOX | |||
| NSUN2 | ZSWIM6 | |||
| OPHN1 | ||||
| PAH | ||||
| PAX6 | ||||
| PGM3 | ||||
| PHF6 | ||||
| PHF8 | ||||
| PIGV | ||||
| POMT1 | ||||
| PRSS12 | ||||
| PTEN | ||||
| PTPN11 | ||||
| RELN | ||||
| ROGDI | ||||
| RPGRIP1L | ||||
| RPS6KA3 | ||||
| SCN2A | ||||
| SCN8A | ||||
| SETBP1 | ||||
| SHH | ||||
| SLC16A2 | ||||
| SLC17A5 | ||||
| SLC35C1 | ||||
| SOX10 | ||||
| SOX11 | ||||
| SRCAP | ||||
| STAMBP | ||||
| TCN2 | ||||
| TCTN3 | ||||
| TSC1 | ||||
| TSPAN7 | ||||
| TUBA1A | ||||
| TUBG1 | ||||
| TUSC3 | ||||
| UPB1 | ||||
| USP9X | ||||
| ZBTB20 | ||||
| ZNF711 | ||||
| ZNF81 |