to their rich chemical and physical properties, which arise from the high variability of composition and morphologies. [1] As such organic, inorganic, and hybrid nanoparticles thereof find wide applications, in pharmaceutics, material design, such as coatings, cosmetics, optical and magnetics sensors, electronics, textiles, foods, or bioimaging. Most intriguing are nanoparticles exhibiting a core-shell structure with deviating electrical, magnetic, optical, chemical, catalytic, or thermal properties and high biocompatibility.Particularly, polymer nanoparticles, liposomes, polymersomes, polyplexes, and carbon based nanomaterials have attracted high attention for being used as drug carrier systems to treat diseases and disease-related complications. [2] Even more, amphiphilic polymers or block copolymers can self-assemble by means of nanoprecipitation, solvent exchange, emulsion, or dispersion polymerization, and other methods, [3] leading to a variety of different morphologies, including latex particles with distinct surface functionalities, core-shell structures, or even inner compartments. The determination of the surface properties and the internal structure of these nanoparticles is of high interest for understanding the property(structure)-function relation of such systems. [4] In Understanding the property-function relation of nanoparticles in various application fields involves determining their physicochemical properties, which is still a remaining challenge to date. While a multitude of different characterization tools can be applied, these methods by themselves can only provide an incomplete picture. Therefore, novel analytical techniques are required, which can address both chemical functionality and provide structural information at the same time with high spatial resolution. This is possible by using tipenhanced Raman spectroscopy (TERS), but due to its limited depth information, TERS is usually restricted to investigations of the nanoparticle surface. Here, TERS experiments are established on polystyrene nanoparticles (PS NPs) after resin embedding and microtome slicing. With that, unique access to their internal morphological features is gained, and thus, enables differentiation between information obtained for core-and shell-regions. Complementary information is obtained by means of transmission electron microscopy (TEM) and from force-distance curve based atomic force microscopy (FD-AFM). This multimodal approach achieves a high degree of discrimination between the resin and the polymers used for nanoparticle formulation. The high potential of TERS combined with advanced AFM spectroscopy tools to probe the mechanical properties is applied for quality control of the resin embedding procedure.