Gene Names Given for Individuals with Available DNA Sample § Represent Schizophrenia Affected Individuals

Supplementary Figure 1 : Pedigree of families used for whole exome sequencing Showing prioritized variants encompassing genes and their transmission

§ Gene names given for individuals with available DNA sample § represent schizophrenia affected individuals

§ Un affected individuals § Circles and rectangles filled with other colors represent other forms of psychiatric disorders § Representing samples used for WES § # Representing the samples used for target capture sequencing Figure 1a : Family1 I I.1 I.2 I.3 I.4

II.1 II.2 II.3 II.4 II.5 II.6 # II.7 # II.8 II.9 II.10 II.11 II ADAMTS3 SETDB1 LRRTM2 LRP2 TIAM2 TTC21B UNC13B GRIN3A SHANK2 AKAP5 PRODH FLNA

III

III.1 III.2 III.3 III.4 III.5 ADAMTS3 ADAMTS3 ADAMTS3 LRRTM2 LRRTM2 LRRTM2 TIAM2 TIAM2 TIAM2 UNC13B UNC13B UNC13B SHANK2 SHANK2 SHANK2 Dissociative disorder PRODH PRODH PRODH SETDB1 SETDB1 SETDB1 Psychosis LRP2 LRP2 LRP2 TTC21B TTC21B TTC21B GRIN3A GRIN3A GRIN3A AKAP5 AKAP5 AKAP5 FLNA FLNA FLNA Figure 1b : Family 2

I.1 I.2 I.3 I.4 I

II II.1 # II.2 # II.3 II.4 II.5 II.6 II.7 CASR GABRR3 MAGI2 DOCK3 GLI3 PDE8B CALHM1 VPS13B INA CACNG7 PLAUR

III III.1 III.2 III.3 III.4 # III.5 # III.6 # III.7# III.8 # DOCK3 GABRR3 CALHM1 GABRR3 GABRR3 PDE8B DOCK3 INA DOCK3 DOCK3 VPS13B PDE8B PLAUR PDE8B PDE8B CACNG7 VPS13B VPS13B VPS13B CACNG7 CACNG7 CACNG7 CASR CASR CASR MAGI2 MAGI2 MAGI2 Psychosis GLI3 GLI3 GLI3 Dissociative disorder CALHM1 CALHM1 CALHM1 INA INA INA PLAUR PLAUR PLAUR Figure 1c: Family 3

I.3 I.4 I.1 I.2 II

II.1 II.2 II.3 # II.4 II.5 II.6 KIRREL SCN11A UBA6

III III.1 III.2 III.3 III.4 # III.5 # III.6 III.7 III.8 GBX2 GBX2 GBX2 GBX2 CELSR3 MINK1 CELSR3 CELSR3 CDCA7L SCN11A CDCA7L CDCA7L MINK1 UBA6 MINK1 MINK1 NTN1 NTN1 NTN1 KIRREL KIRREL KIRREL SCN11A SCN11A SCN11A UBA6 UBA6 UBA6

IV IV.1 # IV.2 IV.3 IV.4 GBX2 MINK1 SCN11A UBA6 Figure 1d: Family 4

I I.1 I.2 I.3 I.4

II II.8 # II.9 II.10 II.11 II.12 II.13 II.1 II.2 II.3 II.4 II.5 II.6 II.7 # LRRC7 KIF1A KIF1A SCN10A CCKAR FZD9 SYT12 SMARCC2 GNB1L PQBP1

III III.1 III.2 III.3 III.4 III.5 III.6 III.7 LRRC7 LRRC7 LRRC7 KIF1A KIF1A KIF1A KIF1A KIF1A KIF1A SCN10A SCN10A SCN10A CCKAR CCKAR CCKAR FZD9 FZD9 FZD9 SYT12 SYT12 SYT12 SMARCC2 SMARCC2 SMARCC2 GNB1L GNB1L GNB1L PQBP1 PQBP1 PQBP1 Figure 1e: Family 5 I I.1 I.2 I.3 I.4

II II.5 # II.9 II.1 II.2 II.3 II.4 # II.6 II.7 II.8 KDM4A DLG1 NOTCH2 ABHD6 TRPA1 WASF1 PLCB3 HTR3A RIC8A PLCB3 ARPC3 TSC2 ACTN1 CACNG4

III

III.1 III.2 III.3 III.4 III.5 KDM4A KDM4A KDM4A NOTCH2 NOTCH2 NOTCH2 PLCB3 TRPA1 TRPA1 ACTN1 PLCB3 PLCB3 ABHD6 RIC8A RIC8A Psychiatric illness ARPC3 ARPC3 PLCB3 Bipolar disorder CACNG4 ACTN1 ACTN1 DLG1 DLG1 ABHD6 ABHD6 WASF1 WASF1 HTR3A HTR3A PLCB3 PLCB3 TSC2 TSC2 CACNG4 CACNG4 Figure 1f: Family 6 I I.1 I.2

II II.1 # II.2 # II.3 II.4 II.5 II.6 IQSEC1 INPP4A LIN7C KIF5C CHRM4 NSUN2 PRRT2 SFRP1 RAI1 TNC ABL1 PAX6 LRP4

III III.1 III.1 III.1 III.4 III.5 III.6 III.7 III.8 ASCL1 ASCL1 ASCL1 INPP4A INPP4A INPP4A KIF5C KIF5C KIF5C NSUN2 NSUN2 NSUN2 SFRP1 SFRP1 SFRP1 TNC TNC TNC ABL1 ABL1 ABL1 PAX6 PAX6 PAX6 LRP4 LRP4 LRP4 IQSEC1 IQSEC1 IQSEC1 LIN7C LIN7C LIN7C CHRM4 CHRM4 CHRM4 PRRT2 PRRT2 PRRT2 RAI1 RAI1 RAI1 Figure 1g: Family 7 I I.1 I.2 I.3 I.4

II II.1 II.2 II.3 # II.4 # II.5 II.6 II.7 II.8 AGRN DISC1 SLC25A12 PTPRN WNT2 PTPRD PCDH9 PLCB3 TRPV3 DYNC1H1 BSG PNPO

III III.1 # III.2 III.3 III.4 III.5 III.6 III.7 AGRN AGRN AGRN SLC25A12 SLC25A12 SLC25A12 WNT2 WNT2 WNT2 PCDH9 PCDH9 PCDH9 TRPV3 TRPV3 TRPV3 BSG BSG BSG DISC1 DISC1 DISC1 PTPRN PTPRN PTPRN PTPRD PTPRD PTPRD PLCB3 PLCB3 PLCB3 DYNC1H1 DYNC1H1 DYNC1H1 PNPO PNPO PNPO Figure 1h: Family 8

I I.1 I.2 I.3 I.4

II II.8 II.9 II.1 II.2 II.3 II.4 II.5 II.6 # II.7 # II.10 II.11 II.12 PTPN4 EIF2AK3 KIF20B INPP4A ANK3 TRAK1 GRIN3B EGF TBX1 MPDZ PRRT2

III III.1 III.2 III.3 III.4 III.5 PTPN4 PTPN4 PTPN4 KIF20B KIF20B KIF20B ANK3 ANK3 ANK3 GRIN3B GRIN3B GRIN3B TBX1 TBX1 TBX1 EIF2AK3 EIF2AK3 EIF2AK3 INPP4A INPP4A INPP4A TRAK1 TRAK1 TRAK1 EGF EGF EGF MPDZ MPDZ MPDZ PRRT2 PRRT2 PRRT2 Figure 1i: Family 9

I I.1 I.2 I.3 I.4

II.1 # II.2 # II.3 II.4 II.5 II.6 SCN2A SCN2A GTF2IRD1 KALRN LAMA1 CLSTN2 LMTK3 DRD3 L3MBTL1 PDGFRB GPR151 KCNT1

III III.1 III.2 III.3 III.4 III.5 SCN2A SCN2A SCN2A GTF2IRD1 GTF2IRD1 GTF2IRD1 LAMA1 LAMA1 LAMA1 LMTK3 LMTK3 LMTK3 L3MBTL1 L3MBTL1 L3MBTL1 SCN2A SCN2A SCN2A KALRN KALRN KALRN CLSTN2 CLSTN2 CLSTN2 DRD3 DRD3 DRD3 PDGFRB PDGFRB PDGFRB GPR151 GPR151 GPR151 KCNT1 KCNT1 KCNT1 Figure 1j: Family 10

I I.1 I.2 I.3 I.4

II II.1 II.2 II.3 II.4 # II.5 II.6 II.7 II.8 PLXNA2 PLD1 TH IQSEC3 THBS1 LAMA1 EFNA2

III III.1 # III.2 III.3 III.4 III.5 # III.6 III.7 PCM1 GRM7 GRM7 GRM7 GRM2 SHANK3 NEURL1 GRM2 GRM2 PCM1 PLD1 LAMA1 PCM1 PCM1 NRP1 IQSEC3 NRP1 NRP1 PTPRT Psychotic disorder THBS1 NEURL1 NEURL1 SHANK3 LAMA1 PTPRT PTPRT PLXNA2 EFNA2 SHANK3 SHANK3 PLD1 PLXNA3 PLXNA3 TH PLXNA2 PLXNA2 IQSEC3 PLD1 PLD1 LAMA1 TH TH EFNA2 IQSEC3 IQSEC3 THBS1 THBS1 LAMA1 LAMA1 EFNA2 EFNA2 Figure 1k: Family 11

I I.1 I.2 I.3 I.4

II II.8 II.9 II.1 II.2 II.3 II.4 II.5 II.6 # II.7 # II.10 II.11 II.12 ANK2 KMT2E FGF23 GRIN3B ARR3

III III.1 III.2 # III.3 III.4 III.5 ANK2 ANK2 KMT2E KMT2E FGF23 FGF23 GRIN3B GRIN3B ARR3 ARR3