The invention discloses a method for constructing an HSAT H-T-S human-mouse chimera model and the application thereof. Firstly, a female Nod-SCID mouse in 6-8 weeks is selected; whole body exposure is carried out on the SCID mouse by radiation; secondly, human embryo thymic cells are taken; the cells come from the thymus of the embryo of a person who is voluntary to terminate the pregnancy, and the pregnant week is less than 24 weeks; the quantity of the cells is 1*10<7>, wherein, the quantity proportion of the thymic cells, as well as thymic epithelia and other stroma cells is 1:1, and the specificity of alpha-GalCer-CD1d tetramer is used for eliminating young and mature NKT cells; thirdly, the obtained embryo thymic cells are injected to the thymus of the SCID mouse subcutaneously to carry out dermatoplasty and obtain an HSAT H-T-S human-mouse chimera model. In the method, the human embryo thymic cells are implanted to the thymus of the mouse with severe combined immunodeficiency, and the full skin of human embryo trunk is grafted to the chest cavity of the SCID mouse, thereby reproducing the immune tolerance and rejection reaction of the dermatoplasty reaction in human body. The invention has good repeatability, obvious effect, simple method and good application prospect.