For the first time using computerized ionospheric tomography (CIT) and leveraging ultra-dense slant total electron content (STEC) measurements derived from two ground-based Global Navigation Satellite System (GNSS) receiver networks in Japan, we have reconstructed the 3-D field-aligned structure of nighttime medium-scale traveling ionospheric disturbances (MSTIDs) with high spatiotemporal resolution. The CIT algorithm focuses on electron density perturbation components, allowing for the imaging of disturbances with small amplitudes and scales. Slant TECs used for CIT are setup to consist of two components: the background derived from IRI-2016 model and TEC perturbations obtained by subtracting a 30-min running average from observations. The resolution is set to 0.25º in latitude and longitude, 10 km in altitude, 30 s in time. Simulations were conducted to assess the performance of the CIT algorithm, revealing that this technique has good fidelity by accurately reconstructing more than 80% of the electron density perturbations. The focus is on the nighttime event of July 4, 2022, when data were accessible. The reconstruction results show that the MSTIDs initially form at lower altitudes and subsequently develop to exhibit large amplitudes and scales that extend to higher altitudes, characterized by a well-defined frontal structure with electrodynamic signatures. These results are consistent with theories and snippets of observational evidence regarding electromagnetic-influenced MSTIDs, hence affirming the effectiveness of the developed CIT technique in probing of the variations in the 3-D structure of ionospheric electron density. This is expected to contribute to a compressive understanding of the underlying mechanisms of ionospheric inhomogeneities.Graphical