On account of its unique physicochemical properties, magnetic nanoparticles attracts many attentions in its applications of tissue engineering. Here, we briefly described two major characteristics of magnetic nanoparticles, surface chemical activity and the magnetic properties. The main synthesis methods of magnetic nanoparticles in biomedicine was included. Based on the two major characteristics of magnetic nanoparticles, we mainly reviewed methods of the designing biomaterials in tissue engineering and the assembling growth factors or genes released vector. We also summarized the research progress of mechanical stimulation, stem cell labeling, tracking and cell patterning on the magnetic nanoparticles construction in this paper.