In this paper, we are interested in the seismic wave propagation into an uncertain medium. To this end, we performed an ensemble of 400 large-scale simulations that requires 4 million core-hours of CPU time. In addition to the large computational load of these simulations, solving the uncertainty propagation problem requires dedicated procedures to handle the complexities inherent to large data set size and the low number of samples. We focus on the peak ground motion at the free surface of the 3D domain, and our analysis utilizes a surrogate model combining two key ingredients for complexity mitigation: i) a dimension reduction technique using empirical orthogonal basis functions and ii) a functional approximation of the uncertain reduced coordinates by polynomial chaos expansions. We carefully validate the resulting surrogate model by estimating its predictive error using bootstrap, truncation, and cross-validation procedures. The surrogate model allows us to compute various statistical information of the uncertain prediction, including marginal and joint probability distributions, interval probability maps, and 2D fields of global sensitivity indices.