Extended Data Table1:

List of prioritized genes

List of genes meeting prioritisation criteria summarised in Figure 1. Index SNP: index associated SNP for the locus from the GWAS. Ensembl ID: Ensembl gene identifier. Symbol ID: HGNC gene symbol. Gene Biotype: as classified by Ensembl. FINEMAP and SMR priority genes: genes meeting the prioritisation criteria described in the text. Rare priority genes: genes implicated by rare coding variants in schizophrenia, autism spectrum disorders or developmental disorder. Full details regarding the prioritisation criteria for each gene are given inSupplementary Tables 11–18.

Index SNP	Ensembl ID	Symbol ID	gene_biotype	FINEMAP priority gene	SMR priority gene	Rare priority gene
rs12712510	ENSG00000231200	AC068490.2	lincRNA	•
rs6504163	ENSG00000159640	ACE	protein_coding		•
rs7575796	ENSG00000115073	ACTR1B	protein_coding	•
rs61833239	ENSG00000117020	AKT3	protein_coding		•
rs6546857	ENSG00000163016	ALMS1P	pseudogene		•
rs9925915	ENSG00000174939	ASPHD1	protein_coding		•
rs12285419	ENSG00000175224	ATG13	protein_coding		•
rs4766428	ENSG00000174437	ATP2A2	protein_coding	•
rs1540840	ENSG00000127152	BCL11B	protein_coding	•		•
rs2304205	ENSG00000126453	BCL2L12	protein_coding	•
rs3808581	ENSG00000104765	BNIP3L	protein_coding	•
rs2649999	ENSG00000157895	C12orf43	protein_coding	•
rs10774034	ENSG00000151067	CACNA1C	protein_coding	•		•
rs2944821	ENSG00000183166	CALN1	protein_coding	•
rs6839635	ENSG00000145354	CISD2	protein_coding		•
rs61405217	ENSG00000109572	CLCN3	protein_coding		•
rs17194490	ENSG00000144619	CNTN4	protein_coding	•
rs10127983	ENSG00000143578	CREB3L4	protein_coding		•
rs2532240	ENSG00000120088	CRHR1	protein_coding		•
8:4180090_T_A	ENSG00000183117	CSMD1	protein_coding	•
rs715170	ENSG00000206129	CTD-2008L17.2	lincRNA	•
rs113113059	ENSG00000112659	CUL9	protein_coding	•	•
rs10957321	ENSG00000172817	CYP7B1	protein_coding		•
rs61828917	ENSG00000117593	DARS2	protein_coding		•
rs4632195	ENSG00000187323	DCC	protein_coding	•
rs4678552	ENSG00000163673	DCLK3	protein_coding		•
rs7816998	ENSG00000085788	DDHD2	protein_coding		•
rs2600490	ENSG00000198010	DLGAP2	protein_coding	•
rs8048039	ENSG00000103423	DNAJA3	protein_coding		•
rs72728416	ENSG00000188641	DPYD	protein_coding	•
rs8175378	ENSG00000170571	EMB	protein_coding		•
rs999494	ENSG00000135638	EMX1	protein_coding	•
rs11619756	ENSG00000120658	ENOX1	protein_coding	•
rs959071	ENSG00000262319	ENSG00000262319	antisense		•
rs4073003	ENSG00000072134	EPN2	protein_coding	•
rs6925079	ENSG00000188107	EYS	protein_coding	•
rs815609	ENSG00000055147	FAM114A2	protein_coding		•
rs4766428	ENSG00000204856	FAM216A	protein_coding		•
rs1006945	ENSG00000101447	FAM83D	protein_coding		•
rs58120505	ENSG00000122687	FTSJ2	protein_coding		•
rs4702	ENSG00000140564	FURIN	protein_coding	•	•
rs10985811	ENSG00000136928	GABBR2	protein_coding	•
rs1858999	ENSG00000167491	GATAD2A	protein_coding		•
rs12498839	ENSG00000150625	GPM6A	protein_coding	•
rs12188094	ENSG00000164199	GPR98	protein_coding	•
rs77502336	ENSG00000023171	GRAMD1B	protein_coding	•
rs9926049	ENSG00000183454	GRIN2A	protein_coding	•		•
rs2206956	ENSG00000152822	GRM1	protein_coding	•
rs11210892	ENSG00000178922	HYI	protein_coding		•
rs1378559	ENSG00000169306	IL1RAPL1	protein_coding	•
rs38752	ENSG00000184903	IMMP2L	protein_coding	•
rs3814883	ENSG00000169592	INO80E	protein_coding		•
rs2304205	ENSG00000126456	IRF3	protein_coding	•
rs2532240	ENSG00000120071	KANSL1	protein_coding		•	•
rs10243922	ENSG00000122778	KIAA1549	protein_coding	•
rs17731	ENSG00000067082	KLF6	protein_coding	•
rs459391	ENSG00000224924	LINC00320	lincRNA	•	•
rs9545047	ENSG00000227676	LINC01068	lincRNA		•
rs28454198	ENSG00000249307	LINC01088	antisense	•
rs2387414	ENSG00000131409	LRRC4B	protein_coding	•
rs59498392	ENSG00000175324	LSM1	protein_coding		•
rs58120505	ENSG00000002822	MAD1L1	protein_coding	•
rs35164357	ENSG00000112893	MAN2A1	protein_coding	•
rs9925915	ENSG00000102882	MAPK3	protein_coding		•
rs2532240	ENSG00000186868	MAPT	protein_coding		•
rs143116451	ENSG00000175727	MLXIP	protein_coding		•
rs2914983	ENSG00000115540	MOB4	protein_coding		•
rs4793888	ENSG00000153944	MSI2	protein_coding	•
rs11263770	ENSG00000141140	MYO19	protein_coding		•
rs324017	ENSG00000166886	NAB2	protein_coding	•
rs9545047	ENSG00000102471	NDFIP2	protein_coding		•
rs2119242	ENSG00000078114	NEBL	protein_coding	•
rs1121296	ENSG00000172260	NEGR1	protein_coding	•
rs5943629	ENSG00000146938	NLGN4X	protein_coding	•
rs9975024	ENSG00000180530	NRIP1	protein_coding	•
rs11972718	ENSG00000122584	NXPH1	protein_coding	•
rs1939514	ENSG00000183715	OPCML	protein_coding	•
rs56205728	ENSG00000137843	PAK6	protein_coding	•
rs7432375	ENSG00000114054	PCCB	protein_coding		•
rs10069930	ENSG00000204969	PCDHA2	protein_coding		•
rs246024	ENSG00000204962	PCDHA8	protein_coding		•
rs35734242	ENSG00000185619	PCGF3	protein_coding	•
rs58950470	ENSG00000197136	PCNXL3	protein_coding	•
rs6588168	ENSG00000184588	PDE4B	protein_coding	•
rs2929278	ENSG00000167004	PDIA3	protein_coding		•
rs34539323	ENSG00000181191	PJA1	protein_coding	•
rs6673880	ENSG00000149527	PLCH2	protein_coding	•
rs3813567	ENSG00000041357	PSMA4	protein_coding		•
rs2890914	ENSG00000153707	PTPRD	protein_coding	•
rs61937595	ENSG00000179912	R3HDM2	protein_coding	•
rs11121172	ENSG00000142599	RERE	protein_coding		•	•
rs11227250	ENSG00000172922	RNASEH2C	protein_coding		•
rs13107325	ENSG00000246560	RP11–10L12.4	antisense		•
rs6479487	ENSG00000227603	RP11–165J3.6	antisense		•
rs505061	ENSG00000234840	RP11–399D6.2	lincRNA	•
rs1198588	ENSG00000259946	RP11–490G2.2	lincRNA		•
rs35351411	ENSG00000259616	RP11–507B12.2	lincRNA	•
rs10035564	ENSG00000272335	RP11–53O19.3	lincRNA		•
rs1915019	ENSG00000253553	RP11–586K2.1	antisense		•
rs10873538	ENSG00000256500	RP11–73M18.2	protein_coding		•
rs154433	ENSG00000103037	SETD6	protein_coding		•
rs2914983	ENSG00000115524	SF3B1	protein_coding		•
rs12652777	ENSG00000170624	SGCD	protein_coding	•
rs13107325	ENSG00000138821	SLC39A8	protein_coding	•		•
rs2909457	ENSG00000144290	SLC4A10	protein_coding	•
rs6839635	ENSG00000164037	SLC9B1	protein_coding		•
rs2022265	ENSG00000065609	SNAP91	protein_coding	•	•
rs7811417	ENSG00000105866	SP4	protein_coding	•		•
rs3810450	ENSG00000161277	THAP8	protein_coding	•
rs704364	ENSG00000163634	THOC7	protein_coding		•
rs7312697	ENSG00000133687	TMTC1	protein_coding	•
rs1924377	ENSG00000133107	TRPC4	protein_coding	•
rs13262595	ENSG00000171045	TSNARE1	protein_coding	•
rs10861176	ENSG00000198431	TXNRD1	protein_coding	•
rs10238960	ENSG00000185274	WBSCR17	protein_coding	•
rs2929278	ENSG00000092470	WDR76	protein_coding		•
rs3764002	ENSG00000075035	WSCD2	protein_coding	•
rs11693094	ENSG00000170396	ZNF804A	protein_coding	•
rs72986630	ENSG00000197933	ZNF823	protein_coding	•	•
rs758749	ENSG00000127903	ZNF835	protein_coding	•