Cooperative assembly of nanoparticles and amphiphiles has emerged as a significant strategy for constructing hybrid nanocomposites with desired architectures and properties. It is of great significance to develop novel hybrid nanostructures with controlled spatial localization of nanoparticles within hybrid assemblies. Here, by adopting dissipative particle dynamics simulations, the cooperative assembly of Janus particles and amphiphilic oligomers is studied. We demonstrate that a variety of defined hybrid nanostructures such as balls, sticks, disks, lines, vesicles, and networks can be achieved by the cooperative assembly of Janus particles and amphiphilic oligomers. Furthermore, the investigation of the kinetic pathway illustrates that the formation of hybrid assemblies is an entropy-driven process. Our simulation results suggest that the Janus balance of nanoparticles can significantly affect the structure and size of hybrid aggregates and the spatial localization of Janus particles within hybrid assemblies. These findings not only enrich our understanding of the cooperative assembly of Janus nanoparticles and amphiphiles, but also offer a feasible strategy to prepare hybrid materials with controlled localization of nanoparticles.