Background: Neurological complications occurs frequently in patients with end-stage renal disease (ESRD), the neuropathological mechanisms of which remains unclear. This study investigated changes in local neuronal functional activity in ESRD patients using regional homogeneity (ReHo) and functional connectivity (FC) algorithms based on resting-state functional magnetic resonance imaging (rs-fMRI) and analysed associations between spontaneous brain activity changes and blood biochemical indices. Methods: Thirty-six patients with ESRD and Thirty-two healthy controls were scanned with rs-fMRI to calculate ReHo values across the whole brain. Brain areas with altered ReHo values were selected as regions of interest (ROIs) for FC analysis, which was used to explore the functional integration between ROIs. Independent sample t tests were used for comparison between groups, and Pearson’s correlation analyses were used for the correlation between altered ReHo values and clinical data. Results: Compared with the healthy controls, ESRD patients showed increased ReHo in the left temporal pole (TPO), right orbital inferior frontal gyrus (ORBinf) and bilateral rectus gyrus (REC) (P<0.01, AlphaSim corrected), while the ReHo values in the bilateral calcarine sulcus (CAL), left inferior frontal gyrus (IFG), right superior temporal gyrus (STG) and supramarginal gyrus (SMG) were significantly decreased (P<0.01). ESRD patients showed decreased FC between the right CAL and both the left IFG and right SMG (P<0.01). We also found decreased FC between the right SMG and right STG. Correlation analyses showed that ReHo values in the right CAL were positively correlated with haemoglobin levels (r=0.347, P=0.048) and haematocrit (r=0.357, P=0.041). Conclusion: ESRD patients had dyssynchrony in local functional activities in several brain regions, mainly involving the default mode network (DMN), and dyssynchrony in local and remote brain activities in the IFG-CAL-SMG-STG circuit, which may contribute to further understanding of the neuropathological mechanism of brain injury in patients with ESRD.