Heterostructure nanoparticles (NPs) which are composed of different ingredients, appear multiple performances that induced by each component. It is also possible to produce new properties that are not available for single-component particles, due to the mutual coupling between different components. As a result, heterostructure NPs have attracted extensive attention in the field of chemical engineering, biomedicine, and energy catalysis. Due to the special optical properties and catalytic activity of noble metals, and the excellent magnetic properties of magnetic nanoparticles, noble metal-magnetic heterogeneous nanoparticles have attracted much attention from researchers. These nanomaterials combine the excellent properties of the two materials and exhibit different properties through different heterostructures. In this review, noble metal-magnetic heterogeneous nanomaterials were classified into core-shell structure, yolk-shell structure, and dumbbell structure by their structures, and their characteristics, preparation methods and applications were summarized. Their applications in biomedicine, including theranostics, multimode imaging and stimuli-responsive drug carriers, were particularly emphasized.