In Positron Emission Tomography (PET) imaging, patient motion due to respiration can lead to artefacts and blurring, in addition to quantification errors. The integration of PET imaging with Magnetic Resonance (MR) imaging in PET/MR scanners provides spatially aligned complementary clinical information, and allows the use of high spatial resolution and high contrast MR images to monitor and correct motion-corrupted PET data. In this thesis, we form a methodology for respiratory motion correction of PET data, and show it can improve PET image quality. The approach is practical, having minimal impact on clinical PET/MR protocols, with no need for external respiratory monitoring, using standard MR sequences and minimal extra acquisition time. First we validate the use of PET-derived respiratory signal to use for motion tracking, that uses raw PET data only, via Principal Component Analysis (PCA), then set up the tools to carry out PET Motion Compensated Image Reconstruction (MCIR). We introduce a joint PET-MR motion model, using one minute of PET and MR data to provide a motion model that captures inter-cycle and intra-cycle breathing variations. Different motion models (one/two surrogates, linear/polynomial) are evaluated on dynamic MR data sets. Finally we apply the methodology on 45 clinical PET-MR patient datasets. Qualitative PET reconstruction improvements and artefact reduction are assessed with visual analysis, and quantitative improvements are calculated using Standardised Uptake Value (SUV) changes in avid lesions. Lesion detectability changes are explored with a study where two radiologists identify lesions or ’hot spots’, with confidence levels, in uncorrected and motion-corrected images. In summary, we developed a methodology for motion correction in PET/MR by using a joint motion model and demonstrated the capability of a joint PET-MR motion model to predict respiratory motion by showing significantly improved image quality of PET data, with one minute of extra scan time, and no external hardware
