Endoscopic optical coherence tomography (OCT) enables the assessment of the eardrum and the middle ear in vivo. However, revealing the ossicles is often limited due to shadowing effects of preceding structures and the 3D impression is difficult to interpret. To compare the identified middle ear structures, OCT and cone-beam CT of a patient were spatially aligned and showed a good agreement in locating malleus and the promontory wall. As CT imaging uses ionizing radiation and is thus limited in application, we furthermore provide a concept how radiology can be utilized as a priori knowledge for OCT imaging. Therefore, a statistical shape model derived from µCT data of temporal bone specimens was fitted to in vivo OCT measurements, potentially providing a real-time augmentation of endoscopic OCT for middle ear diagnostics in the future.