In order to ensure the safe operation of high-speed trains in cold regions, frost heave is one of the basic problems in the research for prediction and control roadbed deformation in such regions. In this paper, based on the classical hydrodynamic model we developed a method of studying thermal regime of soils and predicting frost heave deformations of subgrade soils. Our coupling model takes into account the mutual influence of temperature and soil moisture during non-stationary processes of heat and moisture transfer, calculation of frost heave deformation based on calculated result of the temperature and moisture fields of the roadbed. We have also observed the change of the soil temperatures and frost heave deformation in a freezing-thawing cycle at the geodesic center of PGUPS. The field observation results show that the soil temperature variations amplitude decreases with depth. The simulation verification results and the field observation data show good reproducibility, thus the reliability of the model is confirmed. At last, the paper presents the application of the method in improving high speed railway lines (HSRL) subgrade design in order to reduce frost heave deformations. Based on the results of calculations, it is recommended to lay a thermal insulation layer at the depth of 0.2 m below the subgrade and on the slopes to reduce frost depth and frost heave deformations of subgrade soils.