During the past two decades, the supramolecular conjugates of calixarenes have turned intriguing to the researchers due to their versatility in functionalization and applications spanning across various fields, such as chemical, biological and materials sciences. Though several review articles discuss host-guest and other functional aspects of the supramolecular conjugates of calixarenes, there is no such article that consolidates the role of the conjugates in the context of cell science. In this article, we focus on the utility of such conjugates in the biological cells as studied primarily using microscopy techniques that include endeavours emerging from our research group. Therefore, this will assist researchers working in this area in order to understand the microscopy aspects of calixarene based supramolecular conjugates inside the biological cells and thereby support the design of newer conjugates planned to target a specific purpose. Thus, this article focuses on the aspects, such as drug loading and bactericidal activity, gene transfer, selective ion sensing, and cell imaging by localizing in mitochondria, cytosol or Golgi apparatus, i.e., in any one of the subcellular components. Graphic abstract: [Figure not available: see fulltext.] Synopsis Supramolecular conjugates of calixarenes turned intriguing to the researchers due to their versatility in functionalization and in exhibiting diverse applications. This article focusses on the microscopy data for drug loading, bactericidal activity, gene transfer, ion sensing and cell imaging and thereby support the design of newer conjugates to target specific purposes.