3-D Electrical Impedance Tomography (EIT) is an emerging technique for real-time and non-destructive 3-D cell culture imaging. This paper presents a pioneering study of scaffold-based 3-D cell culture imaging using a miniature planar EIT sensor. A 17-electrode miniature-planar EIT sensor equipped with a regular-shape 3-D printed scaffold was manufactured, modelled and characterized. In addition, an efficient 3-D image reconstruction method based on 3-D isotropic Total Variation and l1 joint regularization were proposed. Numerical simulation on scaffold phantoms and experimental study on time-varying distribution of MCF-7 cancer cell suspension within the scaffold were performed. Both simulation and experiment results suggest that using the miniature EIT sensor and the developed 3-D image reconstruction algorithms are able to achieve high quality, non-destructive scaffold-based 3-D cell culture imaging.