This study aims to investigate oxygen metabolic, neuroinflammatory and hemodynamic parameters in different parts of the ischemic stroke lesions using multi-modal MRI. Significant difference of cerebral blood flow (CBF) was found between patients with and without penumbra. The oxygen extraction fraction (OEF) and nonblood susceptibility of tissue in the penumbra were significantly different from ischemic core, revealing benign oxygen metabolic compensation and less neuroinflammation in the penumbra. OEF in the diffusion lesion was positively correlated with clinical severity and continuously decreased with time. Multi-modal MRI-based markers can accurately reflect the pathophysiologic discrepancy in different regions of the ischemic stroke lesions.