1. Shawn Andrews. Fully Automated Medical Image Analysis Facilitating Subsequent User Analysis. Doctoral Thesis, School of Computing Science, Faculty of Applied Sciences, Simon Fraser University, July 2014.



2. Hengameh Mirzaalian. Computational Techniques for Skin Lesion Tracking And Classification. Doctoral Thesis, School of Computing Science, Faculty of Applied Sciences, Simon Fraser University, November 2014.



3. Lisa Y. W. Tang. Adaptive Energy Functions and Efficient Graph-Based Optimization for Deformable Image Registration. Doctoral Thesis, School of Computing Science, Faculty of Applied Sciences, Simon Fraser University, April 2014.

1. Shawn Andrews, Neda Changizi, and Ghassan Hamarneh. The Isometric Log-Ratio Transform for Probabilistic Multi-Label Anatomical Shape Representation. IEEE Transactions on Medical Imaging (IEEE TMI), 33(9):1890-1899, 2014. Keyword(s): Shape Modelling and Analysis, Segmentation, Uncertainty.



2. Colin J. Brown, Steven Miller, Brian G. Booth, Shawn Andrews, Vann Chau, Ken Poskitt, and Ghassan Hamarneh. Structural Network Analysis of Brain Development in Young Preterm Neonates. NeuroImage, 101(0):667-680, 2014. Keyword(s): Diffusion MRI/Tensor-valued, Neurodevelopment, Connectome.



3. Pablo Guzman, Ghassan Hamarneh, Rafael Ros, and Eduardo Ros. Arterial Mechanical Motion Estimation Based on a Semi-Rigid Body Deformation Approach. Sensors: Special Issue on Ultrasonic Sensors and Transducers for Applications in Biology, Medicine and NDT), 14(6):9429-9450, 2014. Keyword(s): Segmentation, Tracking, Deformable Models.



4. Hengameh Mirzaalian, Tim K. Lee, and Ghassan Hamarneh. Hair Enhancement in Dermoscopic Images using Dual-Channel Quaternion Tubularness Filters and MRF-based Multi-Label Optimization. IEEE Transactions on Image Processing (IEEE TIP), 23(12):5486-5496, 2014. Keyword(s): Anatomical Trees and Tubular Structures, Processing, Color/Multichannel/Vector-valued, Dermatology, Synthesis/Simulation/Augmentation, Datasets.



5. Masoud Nosrati and Ghassan Hamarneh. Local optimization based Segmentation of Spatially-Recurring, Multi-Region Objects with Part Configuration Constraints. IEEE Transactions on Medical Imaging (IEEE TMI), 33(9):1845-1859, 2014. Keyword(s): Optimization, Segmentation.



6. Manku Rana, Ghassan Hamarneh, and James Wakeling. 3D curvatures of muscle fascicles in triceps surae. Journal of Applied Physiology, 117(11):1388-1397, 2014. Keyword(s): Shape Modelling and Analysis.



7. Roja Zakariaee, Colin J. Brown, Ghassan Hamarneh, Christina Parsons, and Ingrid Spadinger. Estimation of Bladder-Wall Cumulative Dose in Multi-Fraction Image-Based Gynaecological Brachytherapy Using Deformable Point Set Registration. Medical Physics (also appeared in COMP 2014), 41(3):1, 2014. Keyword(s): Registration and Matching, Brachytherapy.

1. Alborz Amir-Khalili, Jean-Marc Peyrat, Julien Abi-Nahed, Osama Al-Alao, Abdulla Al-Ansari, Ghassan Hamarneh, and Rafeef Abugharbieh. Auto Localization and Segmentation of Occluded Vessels in Robot-Assisted Partial Nephrectomy. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8673, pages 407-414, 2014. Keyword(s): Spatio-Temporal, Segmentation, Image-Guided Surgery.



2. Shawn Andrews, Lisa Y. W. Tang, and Ghassan Hamarneh. Fast Random Walker Image Registration using Precomputation. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 189-192, 2014. Keyword(s): Registration and Matching, Fast MIA.



3. Shawn Andrews, Lisa Y. W. Tang, and Ghassan Hamarneh. Topology Preservation and Anatomical Feasibility in Random Walker Image Registration. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8673, pages 210-217, 2014. Keyword(s): Registration and Matching.



4. Brian G. Booth and Ghassan Hamarneh. DTI-DeformIt: Generating Ground-Truth Validation Data for Diffusion Tensor Image Analysis Tasks. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 730-733, 2014. Keyword(s): Diffusion MRI/Tensor-valued, Synthesis/Simulation/Augmentation, Software and Tools, Validation, Physical Modelling.



5. Colin J. Brown, Steven Miller, Brian G. Booth, Shawn Andrews, Vann Chau, Ken Poskitt, and Ghassan Hamarneh. Analysis of Structural Connectome Development in Healthy Preterm Neonates. In Annual Neuroscience Extravaganza, Brain Research Centre, UBC, 2014. Keyword(s): Diffusion MRI/Tensor-valued, Neurodevelopment.



6. Ivan Figueroa, Jean-Marc Peyrat, Ghassan Hamarneh, and Rafeef Abugharbieh. Biomechanical Kidney Model for Predicting Tumor Displacement in the Presence of External Pressure Load. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 810-813, 2014. Keyword(s): Physical Modelling.



7. Ghassan Hamarneh, Alborz Amir-Khalili, Masoud Nosrati, Ivan Figueroa, Jeremy Kawahara, Osama Al-Alao, Jean-Marc Peyrat, Julien Abi-Nahed, Abdulla Al-Ansari, and Rafeef Abugharbieh. Towards Multi-Modal Image-Guided Tumour Identification in Robot-Assisted Partial Nephrectomy. In IEEE Middle East Conference on Biomedical Engineering (IEEE MECBME), pages 159-162, 2014. Keyword(s): Image-Guided Surgery, Segmentation, Registration and Matching, Physical Modelling, Multimodal.



8. Jeremy Kawahara, Jean-Marc Peyrat, Julien Abi-Nahed, Osama Al-Alao, Abdulla Al-Ansari, Rafeef Abugharbieh, and Ghassan Hamarneh. Automatic Labelling of Tumourous vs Tumour-Free Frames in Free-Hand Laparoscopic Ultrasound Video. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8674, pages 677-684, 2014. Keyword(s): Spatio-Temporal, Machine Learning, Segmentation, Image-Guided Surgery.



9. Hengameh Mirzaalian and Ghassan Hamarneh. Automatic Globally-Optimal Pictorial Structures with Random Decision Forest Based Likelihoods For Cephalometric X-Ray Landmark Detection. In Automatic Cephalometric X-Ray Landmark Detection Challenge 2014, in conjunction with IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 1-12, 2014. Keyword(s): Challenge, Machine Learning, Optimization.



10. Masoud Nosrati and Ghassan Hamarneh. A Variational Approach for Overlapping Cell Segmentation. In Overlapping Cervical Cytology Image Segmentation Challenge, in conjunction with IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 1-2, 2014. Keyword(s): Challenge, Segmentation.



11. Masoud Nosrati, Jean-Marc Peyrat, Julien Abi-Nahed, Osama Al-Alao, Abdulla Al-Ansari, Rafeef Abugharbieh, and Ghassan Hamarneh. Efficient Multi-Organ Segmentation in Multi-View Endoscopic Videos using Pre-Op Priors. In Lecture Notes in Computer Science, Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 8674, pages 324-331, 2014. Keyword(s): Fast MIA, Registration and Matching, Segmentation, Optimization, Image-Guided Surgery.



12. Lisa Y. W. Tang and Ghassan Hamarneh. Random Walk Image Registration via Cost Aggregation. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 576-579, 2014. Keyword(s): Registration and Matching, Fast MIA.



13. Roja Zakariaee, Colin J. Brown, Ghassan Hamarneh, Christina Parsons, and Ingrid Spadinger. Estimation of Bladder-Wall Cumulative Dose in Multi-Fraction Image-Based Gynaecological Brachytherapy Using Deformable Point Set Registration. In Canadian Organization of Medical Physicists 60th Annual Scientific Meeting (COMP), 2014. Keyword(s): Registration and Matching, Brachytherapy.



14. Mengliu Zhao and Ghassan Hamarneh. Bifurcation Detection in 3D Vascular Images Using Novel Features and Random Forest. In IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pages 421-424, 2014. Keyword(s): Anatomical Trees and Tubular Structures, Machine Learning, Bifurcation/Junction.

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