A method of medical image registration with respect to a volume of interest (VOI) and an apparatus for performing the method are provided. In one embodiment, the method includes obtaining a first medical image of a selected section of the VOI, from a first medical apparatus, detecting a sectional image corresponding to the selected section from second medical images previously captured of the VOI, based on an anatomical feature appearing in the first medical image, mapping virtual coordinate schemes of the first and second medical images to produce a mapped virtual coordinate scheme, based on the detected sectional image and the first medical image, and tracking a movement of a section of the VOI captured by the first medical apparatus in the second medical images by using a mapped virtual coordinate scheme.