Concerns have been raised about possible cancer risks after exposure to computed tomography (CT) scans in childhood. The health effects of ionizing radiation are then estimated from the absorbed dose to the organs of interest which is calculated, for each CT scan, from dosimetric numerical models, like the one proposed in the NCICT software. Given that a dosimetric model depends on input parameters which are most often uncertain, the calculation of absorbed doses is inherently uncertain. A current methodological challenge in radiation epidemiology is thus to be able to account for dose uncertainty in risk estimation. A preliminary important step can be to identify the most influential input parameters implied in dose estimation, before modelling and accounting for their related uncertainty in radiation-induced health risks estimates. In this work, a variance-based global sensitivity analysis was performed to rank by influence the uncertain input parameters of the NCICT software implied in brain and red bone marrow doses estimation, for four classes of CT examinations. Two recent sensitivity indices, especially adapted to the case of dependent input parameters, were estimated, namely: the Shapley effects and the Proportional Marginal Effects (PME). This provides a first comparison of the respective behavior and usefulness of these two indices on a real medical application case. The conclusion is that Shapley effects and PME are intrinsically different, but complementary. Interestingly, we also observed that the proportional redistribution property of the PME allowed for a clearer importance hierarchy between the input parameters.