VPS35 and Parkinson disease: SHapley Additive exPlanations (SHAP) analysis was applied to identify key prognostic features, evaluating seven PD risk genes (SNCA, LRRK2, GBA, PRKN, PINK1, PARK7, VPS35) and pathway scores for mitochondrial dysfunction, neuroinflammation, and autophagy.<h4>Results</h4>On an independent test set (<i>n</i> = 78), the model achieved a Coefficient of Determination (R2) of 0.551 and Mean Absolute Error (MAE) of 6.01.