In SNP level, 27 SNPs of the NLGN1 gene were nominally associated with schizophrenia (P<0.05) in our previous GWAS (the most significant SNP rs6792822, P = 7.18×10−5) and 3 SNPs in PGC schizophrenia GWAS achieved the suggestive significance level (P<1×10−6, the most significant SNP rs34626435, P = 3.32×10−7) (S1 Table). Here, NLGN1 is linked to schizophrenia.