Mammalian cell culture systems are widely used in vitro models for the evaluation of drugs and drug delivery vehicles such as nanoparticles, mostly because they can help make subsequent animal tests more predictable and less costly. By and large, however, these systems have been formulated as 2D monolayers of cells which fail to take into account both extracellular delivery barriers and phenotypic differences of cells in vivo. While nanoparticles delivered in a bulk solution to a 2D monolayer tend to reach and bind to cells with little interference, the same is not true for nanoparticles delivered in vivo to a 3D environment characterized by smaller pore sizes of the extracellular matrix (ECM). Furthermore, cells in 2D monolayer cultures are exposed to a relatively uniform environment in culture medium, whereas cells grown in 3D tissue mimicking ECM gels are subject to gradients of pH, nutrients, and waste products that exert both stimulatory and inhibitory influences on cell phenotype and proliferation, much like cells in actual solid tumors. These differences between 2D and 3D cell culture systems highlight the need for 3D models that can more accurately capture in vivo conditions. The Pun lab has developed a 3D cell culture perfusion chamber that can be used to evaluate the penetration of fluorescently labeled nanoparticles into a cancer cell-hydrogel tumor mimic. Improvements have been made to the chamber system in regards to recovering live cells for post-experimental flow cytometry, a cell counting process to determine the percentage of cells associated with fluorescent nanoparticles and therefore the percent penetration into tissue. Recently, the system has been used to compare the penetration of polystyrene beads with that of pluronic micelles, the latter being a promising new vehicle for delivering anti-cancer agents to tumor tissue.