In this study, we integrated single-cell sequencing datasets of ischemic stroke (IS), hemorrhagic stroke (HS) and AD models to construct metabolic flux profiles at single-cell levels. We discovered that the three disorders cause shared metabolic shifts in endothelial cells. These altered metabolic modules were mainly enriched in the transporter-related pathway and were predicted to potentially lead to a decrease in metabolites such as pyruvate and fumarate.