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In this study, key predictors of science achievement in the PISA 2006 and 2015 assessments are investigated by focusing on school- and student-level factors. Machine Learning models (Random Forest, XGBoost, and Support Vector Regressor) are used to identify and compare the most influential predictors for student groups (low vs high-performing) across the years. SHAP values are utilized to reveal the contribution of each factor to have a better understanding of the predictors' effect. The findings emphasizes the effect of these factors over time and provide insights to address educational inequalities through the relevant policies.