Computer-aided technologies have allowed new 3D modelling capabilities and engineering analyses based on experimental and numerical simulation. It has enormous potential for product development, such as biomedical instrumentation and implants. However, due to the complex shapes of anatomical structures, the accuracy of these technologies plays an important key role for adequate and accurate finite element analysis (FEA). The objective of this study was to determine the influence of the geometry variability between two digital models of a human model of the mandible. Two different shape acquisition techniques, CT scan and 3D laser scan, were assessed. A total of 130 points were controlled and the deviations between the measured points of the physical and 3D virtual models were assessed. The results of the FEA study showed a relative difference of 20% for the maximum displacement and 10% for the maximum strain between the two geometries.