Chronic hepatic encephalopathy (CHE) is a severe neuropsychiatric disorder associated with chronic liver disease (CLD). For children, the impairment of neurocognitive functions as a consequence of CLD seems to be irreversible. We aimed to investigate longitudinally, using in-vivo 1H-MRS, differences in metabolic changes between hippocampus, cerebellum and striatum of a developing brain in a rat model of CHE. We showed the most pronounced changes in metabolites in cerebellum, suggesting its increased vulnerability. Further delineation of regional changes in the brain in response to CLD may help elucidate the molecular and regional origins of neuromotor and neurocognitive changes associated with CLD.