To explore the value of quantitative susceptibility mapping (QSM) in evaluating renal injury in patients with chronic kidney disease (CKD). 40 CKD patients were included in the study to evaluate the potential clinical value of QSM. We found that with the progress of CKD staging, renal medulla susceptibility values decreased significantly. Susceptibility value of the medulla was highly correlated with estimated glomerular filtration rate (eGFR). QSM could serve as a quantitative biomarker to assess the renal injury of early CKD.