Neisseria gonorrhoeae infections have been associated with complications including chronic endometritis and pelvic inflammatory disease. Robust in vitro models of the female reproductive tract are urgently needed to better understand the biological mechanisms leading to these pathophysiological changes. Our human three-dimensional (3D) endometrial epithelial cell (EEC) model, which is generated using the HEC-1A cell line and rotating wall vessel (RWV) bioreactor technology, replicates several hallmarks of endometrial tissue in vivo. Studying the interactions of N. gonorrhoeae with the host using this newly characterized human 3D EEC model allows for the investigation of unique mechanisms of gonococcal pathogenesis in the upper female reproductive tract. In this chapter, we describe methodologies that can be used to investigate the interactions of N. gonorrhoeae with the human 3D endometrial epithelium. Protocols for generating the human 3D EEC model using the RWV technology and assessing the host response (including morphological/ultrastructural changes to the epithelial cells; cytokine/chemokine secretion or gene expression changes) following infection with N. gonorrhoeae are presented.