Schizophrenia is related to accelerated brain ageing, while individualized biomarkers are scarce. We established a brain age prediction model based on diffusion tensor imaging sequence. The difference between brain age and chronological age of first-episode schizophrenia patients and healthy controls were compared, and the longitudinal studies were performed in follow-up patients after a short-term antipsychotic treatment. The results verified the theory of accelerated brain ageing and medication have an effect on ameliorating it. Structural brain changes in schizophrenia could reveal the accelerated aging and quantification of age discrepancy could contribute to clinical decision-making and find new targeted therapies.