In conclusion, based on cortical morphology and schizophrenia candidate gene loci, the present study revealed an association between candidate gene locus and cortical thickness, as well as between cortical thickness, diagnosis, and phenotypic traits, especially the effects of SNV20673 in TMX2-CTNND1 on the right homologue of Broca’s area, which contributed to the pathogenesis of schizophrenia. This evidence concerns the gene TMX2 and schizophrenia.