Sebastien Ourselin

We organising FIMH 2013 in London!

Interested to do a PhD or PostDoc in my group? Please send me an e-mail or look at the current positions we have available.

Enhancing translation from bench to bedside using computational imaging

Click here to try out our latest suite of free, open-source software!

Our Research is mainly focused on the development of novel imaging biomarkers. We are taking advantage of state-of-the-art algorithms developed within CMIC and the internationally leading clinical research at UCL to design robust and innovative software for clinical trials (Phase 2 and 3). Robust software plays a critical role in clinical trials and will result in improved healthcare delivery to patients.

Translational Imaging Platform: Our team is leading the translational imaging research program between CMIC and the Institute of Neurology, and has established in collaboration with Prof Nick Fox a new imaging unit at Queen Square to deliver novel imaging biomarkers for clinical trials. Our Grand Challenge is to develop the fundamental building blocks enabling research at IoN - and beyond after first proof of concept - to take full advantage of a common software environment platform, facilitating the development and rapid deployment of complex and robust pipelines that have applications across diseases and research questions (M. Clarkson, G. Zombori).

NifTK: as part of our effort to translate image analysis tools to the clinic, we are also strongly involved into fast image processing using GPU and support of the open source community. Our team has been developing a set of self contain software packages for image registration (NiftyReg), segmentation (NiftySeg), reconstruction (NiftyRec), but also for biomechanical modeling (NiftySim). All these packages are downloadable from the CMIC website and available under SourceForge.

Alzheimer’s Disease: Imaging biomarkers now play a key role in both basic and applied research and are increasingly seen as important in diagnosis, drug discovery and therapeutic trials. In collaboration with the Dementia Research Centre (N. Fox, M. Rossor) and IXICO (D. Hill) we are developing novel imaging biomarkers for Alzheimer’s disease using MR and PET images, enabling the robust and automatic measure of disease progression and disease modification. We have been focusing on whole brain atrophy (K. Leung), hippocampus (J. Barnes, K. Leung), cortical thickness (M. Clarkson, J. Cardoso), longitudnal analysis (M. Modat), DTI (S. Keihaninejad) and more recently PIB uptake (A. Andrews) and classification (J. Young). These imaging biomarkers are currently used in many clinical trials, including large international activities, such as the ADNI and DIAN initiatives.

iMRI Neurosurgery: Being able to obtain high quality MR images during surgery is opening new opportunities to update the surgical planning during the surgery. In collaboration with the IoN (T. Yousry, J. Thornton) and NHNN (A. McEvoy), we are developing near real-time registration algorithms to combine pre-operative images with intra-operative images (P. Daga, M. Modat). This is opening exciting opportunities to improve surgical outcomes, especially in epilepsy surgery (J. Duncan, G. Watson).

Improving PET and SPECT image reconstruction: PET and SPECT are functional imaging techniques that find application in diagnosis of ischemic heart disease, mapping of local brain metabolism, drug development and detection of tumors and areas of infection. In collaboration with S. Arridge and INM (B. Hutton), we are investigating the correlation of drug distribution with the underlying tissue morphology and consequently the use of information from other imaging modalities, such as MRI and CT, to improve the quantification of pharmaceutical distribution. (S. Pedemonte, D. Kazantsev).

Phenotyping: In collaboration with our team, CABI (M. Lythgoe) develops imaging techniques to investigate the anatomical, structural and functional contributions of genes to human diseases and development using genetically modified mice. Our research effort is this large and multidisciplinary project is to provide image analysis capability for high-throughput high-resolution imaging (M. Modat, J. Cardoso).

Cardiac Imaging: we are working with KCL (R. Rezavi, S. Smith), Imperial College (D. Rueckert), and GOSH (A. Taylor) to develop fully automatic 3D and 4D anatomical models of the heart. Specifically, our main research is the development of registration and segmentation algorithms (X. Zhuang) using MR and Ultrasound images.

Neonatal Imaging: Very premature children are at risk of learning difficulties in childhood that are underpinned by slow processing of information and poor everyday memory. We wish to find out how measureable these are in infancy and whether they relate to brain growth after birth, In collaboration with the UCL Institute for Women’s Health (N. Marlow, N. Roberston) we are developing novel robust MR biomarkers to speed up clinical translation of neuroprotective agents which will have a positive benefit to the neurocognitive outcome of the premature children (A. Melbourne).

Our Current team includes the following people:

Research Associates:

Dr. Jorge Cardoso
Dr. Dave Cash (jointly with DRC)
Dr. Matthew Clarkson
Dr. Daniil Kazantsev
Dr. Kirsi Kinnunen (jointly with DRC)
Dr. Kelvin Leung (jointly with DRC)
Dr. Andrew Melbourne
Dr. Marc Modat
Dr. Ferran Prados (jointly with the Department of Neuroinflammation)
Mr. Ivor Simpson (jointly with DRC)
Dr. Maria Zuluaga

Research Engineer:

Dr. Miklos Espak (jointly with DRC)
Dr. Gergely Zombori

Post-graduate students:

Abigail Andrews
Ma Da
Pankaj Daga
Albert Hoang Duc
Stian Johnsen
Arnaud Le Carvenec (jointly with INRIA)
Alexander Mendelson
Christopher Parker (jointly with Jonathan Clayden)
Stefano Pedemonte
Nicholas Powell
Jonathan Young

Main Internal Collaborators:

[Dementia] Nick Fox, Martin Rossor, Jason Warren, Josephine Barnes, Jonathan Schott, Jonathan Rohrer, Daniel Alexander, Gary Zhang
[Epilepsy] John Duncan, Andrew Mcevoy, Caroline Micallef
[Multiple Sclerosis] Claudia Wheeler Kingshott, David Miller
[Neonatal] Neil Marlow, Nikki Roberston
[MRI] Xavier Golay, David Thomas, John Thornton
[Nuclear Medicine] Brian Hutton, Simon Arridge
[Preclinical] Mark Lythgoe
[Cardiology] Andrew Taylor

Main External Collaborators:

[Imperial College] Daniel Rueckert
[KCL] Reza Razavi
[INRIA] Nicholas Ayache, Xavier Pennec
[IXICO] Derek Hill

Alumni:

Dr. Shiva Keihaninejad
Dr. Gerard Ridgway
Dr. Zeike Talyor
Dr. Xiahai Zhuang

Short Biography: Dr Sebastien Ourselin is the Deputy Director of the Centre for Medical Image Computing (CMIC) and Professor of Medical Image Computing. He obtained his PhD in Computer Science from INRIA (France) in the field of medical image analysis under the supervision of Prof. Nicholas Ayache. He has published over 200 journal and conference articles. He is an associate editor of IEEE Transactions on Medical Imaging and a member of the Editorial Board of Medical Image Analysis. He is a MICCAI Board Member since 2008, and was elected Executive Secretary of the MICCAI Society (2009-2012).

Dr. Ourselin is leading the translational imaging research program between CMIC and the Institute of Neurology, and has established in collaboration with Prof Nick Fox a new imaging unit at Queen Square to deliver novel imaging biomarkers for clinical trials.

His main research interests include image registration, segmentation, molecular imaging, atlas conception, statistical shape modeling, surgical simulation, image-guided therapy and minimally invasive surgery. He has been involved in a broad range of clinical projects, including neuroimaging, neurosurgery, computer-assisted cardiovascular surgery, radiotherapy treatment, colonoscopy, and orthopaedic imaging. His research is often collaborative, involving clinical and commercial partners.

Before joining UCL, he founded and led the CSIRO BioMedIA Lab (2003-2007), Australia. He headed a 17-strong government funded research group in biomedical image analysis and surgical simulation. He led the development of the MILX platform, now distributed to Australian hospital partners. He also established and led the image analysis research program of the AIBL study, and the development of a successfully commercialized surgical simulator for colonoscopy. In less than 4 years, his laboratory became the research leader in medical image analysis and surgical simulation in Australia. BioMedIA Lab is still existing and thriving (see: aehrc.com/biomedical_imaging/). In Australia, he is still currently adjunct A/Prof at the University of Queensland (joint appointment Faculty of Health Sciences and School of Information Technology and Electrical Engineering), adjunct A/Prof at the University of New South Wales, Graduate School of Biomedical Engineering. He is also Honorary Medical Physicist at Westmead Hospital (Sydney, Australia), Department of Radiology. Until December 2007, he was President of the Australian Pattern Recognition Society (http://www.aprs.org.au).

He has been actively involved in conference organization nationally and internationally. He is chair of the Image Processing conference of SPIE Medical Imaging (2012-2015). He has been part of the MICCAI Program Committee since 2005, and was Program co-chair of MICCAI 2007. He was co-chair of MMBIA 2012 in Breckenridge (USA), and is currently co-chair of FIMH 2013 in London (UK) and IPMI 2015.

Contact Details:
University College London
Centre for Medical Image Computing
3rd Floor
Engineering Front Building
Malet Place
London WC1E 6BT
United Kingdom

Office: 3.03
Tel: +44 (0)20 7679 0221 (Direct Dial)

Publications

2013

Allan, M., Ourselin, S., Thompson, S., Hawkes, D. J., Kelly, J., Stoyanov, D. (2013). Toward detection and localization of instruments in minimally invasive surgery. IEEE Trans Biomed Eng 60(4), 1050-1058 doi:10.1109/TBME.2012.2229278. Author URL

Cardoso, M. J., Melbourne, A., Kendall, G. S., Modat, M., Robertson, N. J., Marlow, N., Ourselin, S. (2013). AdaPT: An adaptive preterm segmentation algorithm for neonatal brain MRI. Neuroimage 65, 97-108 doi:10.1016/j.neuroimage.2012.08.009. Author URL

Keihaninejad, S., Zhang, H., Ryan, N. S., Malone, I. B., Modat, M., Cardoso, J., Cash, D., Fox, N. C., Ourselin, S. (2013). An unbiased longitudinal analysis framework for tracking white matter changes using diffusion tensor imaging with application to Alzheimer's disease. NeuroImage doi:10.1016/j.neuroimage.2013.01.044. Author URL

Leung, K. K., Bartlett, J. W., Barnes, J., Manning, E. N., Ourselin, S., Fox, N. C., Alzheimer's Disease Neuroimaging Initiative, (2013). Cerebral atrophy in mild cognitive impairment and Alzheimer disease Rates and acceleration. Neurology 80(7), 648-654 doi:10.1212/WNL.0b013e318281ccd3. Author URL

Mahoney, C. J., Malone, I. B., Ridgway, G. R., Buckley, A. H., Downey, L. E., Golden, H. L., Ryan, N. S., Ourselin, S., Schott, J. M., Rossor, M. N., Fox, N. C., Warren, J. D. (2013). White matter tract signatures of the progressive aphasias. Neurobiol Aging 34(6), 1687-1699 doi:10.1016/j.neurobiolaging.2012.12.002. Author URL

Malone, I. B., Cash, D., Ridgway, G. R., MacManus, D. G., Ourselin, S., Fox, N. C., Schott, J. M. (2013). MIRIAD-Public release of a multiple time point Alzheimer's MR imaging dataset. Neuroimage 70, 33-36 doi:10.1016/j.neuroimage.2012.12.044. Author URL

Norris, F. C., Modat, M., Cleary, J. O., Price, A. N., McCue, K., Scambler, P. J., Ourselin, S., Lythgoe, M. F. (2013). Segmentation propagation using a 3D embryo atlas for high-throughput MRI phenotyping: Comparison and validation with manual segmentation. Magn Reson Med 69(3), 877-883 doi:10.1002/mrm.24306. Author URL

Xi, J., Lamata, P., Niederer, S., Land, S., Shi, W., Zhuang, X., Ourselin, S., Duckett, S. G., Shetty, A. K., Rinaldi, C. A., Rueckert, D., Razavi, R., Smith, N. P. (2013). The estimation of patient-specific cardiac diastolic functions from clinical measurements. Med Image Anal 17(2), 133-146 doi:10.1016/j.media.2012.08.001. Author URL

2012

Allain, B., Hu, M., Lovat, L. B., Cook, R. J., Vercauteren, T., Ourselin, S., Hawkes, D. J. (2012). Re-localisation of a biopsy site in endoscopic images and characterisation of its uncertainty. Med Image Anal 16(2), 482-496 doi:10.1016/j.media.2011.11.005. Author URL

Alner, K., Hyare, H., Mead, S., Rudge, P., Wroe, S., Rohrer, J. D., Ridgway, G. R., Ourselin, S., Clarkson, M., Hunt, H., Fox, N. C., Webb, T., Collinge, J., Cipolotti, L. (2012). Distinct neuropsychological profiles correspond to distribution of cortical thinning in inherited prion disease caused by insertional mutation. J Neurol Neurosurg Psychiatry 83(1), 109-114 doi:10.1136/jnnp-2011-300167. Author URL

Bousse, A., Pedemonte, S., Thomas, B. A., Erlandsson, K., Ourselin, S., Arridge, S., Hutton, B. F. (2012). Markov random field and Gaussian mixture for segmented MRI-based partial volume correction in PET. Phys Med Biol 57(20), 6681-6705 doi:10.1088/0031-9155/57/20/6681. Author URL

Cardoso, M. J., Winston, G., Modat, M., Keihaninejad, S., Duncan, J., Ourselin, S. (2012). Geodesic shape-based averaging. Med Image Comput Comput Assist Interv. ( Vol. 15 pp.26-33). Author URL

Cardoso, M. J., Wolz, R., Modat, M., Fox, N. C., Rueckert, D., Ourselin, S. (2012). Geodesic information flows. Med Image Comput Comput Assist Interv. ( Vol. 15 pp.262-270). Author URL

Cash, D. M., Melbourne, A., Modat, M., Machado, M., Clarkson, M., Fox, N., Ourselin, S. (2012). Cortical folding analysis on patients with Alzheimer's disease and mild cognitive impairment. Lecture Notes in Computer Science. ( Vol. 7512 pp.289-296). Berlin/Heidelberg: Springer. Publisher URL

Cheng, M., Marinovic, W., Watson, M., Ourselin, S., Passenger, J., De Visser, H., Salvado, O., Riek, S. (2012). Abdominal Palpation Haptic Device for Colonoscopy Simulation Using Pneumatic Control. IEEE TRANSACTIONS ON HAPTICS 5(2), 97-108 doi:10.1109/ToH.2011.66. Author URL

Fonteijn, H. M., Modat, M., Clarkson, M. J., Barnes, J., Lehmann, M., Hobbs, N. Z., Scahill, R. I., Tabrizi, S. J., Ourselin, S., Fox, N. C., Alexander, D. C. (2012). An event-based model for disease progression and its application in familial Alzheimer's disease and Huntington's disease. Neuroimage 60(3), 1880-1889 doi:10.1016/j.neuroimage.2012.01.062. Author URL

Han, L., Hipwell, J. H., Tanner, C., Taylor, Z., Mertzanidou, T., Cardoso, J., Ourselin, S., Hawkes, D. J. (2012). Development of patient-specific biomechanical models for predicting large breast deformation. Phys Med Biol 57(2), 455-472 doi:10.1088/0031-9155/57/2/455. Author URL

Hoang Duc, A. K., Modat, M., Leung, K. K., Barnes, J., Fox, N. C., Kadir, T., Ourselin, S. (2012). Manifold learning for atlas selection in multi-atlas based segmentation of hippocampus. SPIE. ( pp.8314-8334).

Kazantsev, D., Arridge, S. R., Pedemonte, S., Bousse, A., Erlandsson, K., Hutton, B. F., Ourselin, S. (2012). An anatomically driven anisotropic diffusion filtering method for 3D SPECT reconstruction. Phys Med Biol 57(12), 3793-3810 doi:10.1088/0031-9155/57/12/3793. Author URL

Keihaninejad, S., Ryan, N., Malone, I. B., Modat, M., Cash, D. M., Ridgway, G., Zhang, H., Fox, N., Ourselin, S. (2012). The importance of group-wise registration in tract based spatial statistics study of neurodegeneration: a simulation study in Alzheimer's disease. PLoS One 7(11), e45996 doi:10.1371/journal.pone.0045996.

Leung, K. K., Ridgway, G. R., Ourselin, S., Fox, N. C., Alzheimer's Disease Neuroimaging Initiative, (2012). Consistent multi-time-point brain atrophy estimation from the boundary shift integral. Neuroimage 59(4), 3995-4005 doi:10.1016/j.neuroimage.2011.10.068. Author URL

Macdonald, K. E., Bartlett, J. W., Leung, K. K., Ourselin, S., Barnes, J. (2012). The Value of Hippocampal and Temporal Horn Volumes and Rates of Change in Predicting Future Conversion to AD. Alzheimer Dis Assoc Disord

Melbourne, A., Cahill, N., Tanner, C., Modat, M., Hawkes, D. J., Ourselin, S. (2012). Using fractional gradient information in non-rigid image registration: Application to breast MRI. Progress in Biomedical Optics and Imaging - Proceedings of SPIE 8314

Melbourne, A., Kendall, G. S., Cardoso, M. J., Gunney, R., Robertson, N. J., Marlow, N., Ourselin, S. (2012). Radial structure in the preterm cortex; persistence of the preterm phenotype at term equivalent age? Med Image Comput Comput Assist Interv. ( Vol. 15 pp.256-263). Author URL

Mertzanidou, T., Hipwell, J., Cardoso, M. J., Zhang, X., Tanner, C., Ourselin, S., Bick, U., Huisman, H., Karssemeijer, N., Hawkes, D. (2012). MRI to X-ray mammography registration using a volume-preserving affine transformation. Med Image Anal 16(5), 966-975 doi:10.1016/j.media.2012.03.001. Author URL

Modat, M., Cardoso, M. J., Daga, P., Cash, D. M., Fox, N. C., Ourselin, S. (2012). Inverse-consistent symmetric free form deformation. WBIR. ( Vol. 7359 pp.79-88). Springer. Publisher URL

Muhlert, N., Sethi, V., Schneider, T., Daga, P., Cipolotti, L., Haroon, H. A., Parker, G. J., Ourselin, S., Wheeler-Kingshott, C. A., Miller, D. H., Ron, M. A., Chard, D. T. (2012). Diffusion MRI-based cortical complexity alterations associated with executive function in multiple sclerosis. J Magn Reson Imaging doi:10.1002/jmri.23970. Author URL

Pedemonte, S., Cardoso, M. J., Arridge, S. R., Hutton, B. F., Ourselin, S. (2012). Steady-state model of the radio-pharmaceutical uptake for MR-PET. MICCAI (1). ( Vol. 7510 pp.289-297). Springer. Publisher URL

Rohrer, J. D., Clarkson, M. J., Kittus, R., Rossor, M. N., Ourselin, S., Warren, J. D., Fox, N. C. (2012). Rates of hemispheric and lobar atrophy in the language variants of frontotemporal lobar degeneration. J Alzheimers Dis 30(2), 407-411 doi:10.3233/JAD-2012-111556. Author URL

Roth, H., McClelland, J., Modat, M., Hampshire, T., Boone, D., Hu, M., Ourselin, S., Halligan, S., Hawkes, D. (2012). Inverse-Consistent Symmetric Registration of Inner Colon Surfaces Derived From Prone and Supine CT Colonography. MEDICAL PHYSICS. ( Vol. 39 pp.3959-3960). Author URL

Shi, W., Zhuang, X., Wang, H., Duckett, S., Luong, D. V., Tobon-Gomez, C., Tung, K., Edwards, P. J., Rhode, K. S., Razavi, R. S., Ourselin, S., Rueckert, D. (2012). A Comprehensive Cardiac Motion Estimation Framework Using Both Untagged and 3-D Tagged MR Images Based on Nonrigid Registration. IEEE Trans Med Imaging 31(6), 1263-1275 doi:10.1109/TMI.2012.2188104. Author URL

Vonach, M., Marson, B., Yun, M., Cardoso, J., Modat, M., Ourselin, S., Holder, D. (2012). A method for rapid production of subject specific finite element meshes for electrical impedance tomography of the human head. Physiol Meas 33(5), 801-816 doi:10.1088/0967-3334/33/5/801. Author URL

Young, J., Modat, M., Cardoso, M. J., Ashburner, J., Ourselin, S. (2012). Classification of Alzheimer's disease patients and controls with Gaussian processes. ISBI. ( pp.1523-1526). IEEE. Publisher URL

Young, J., Ridgway, G. R., Leung, K. K., Ourselin, S. (2012). Classification of Alzheimer's disease patients with hippocampal shape, wrapper based feature selection and support vector machine. SPIE. ( pp.8314-8325).

2011

Allain, B., Hu, M., Lovat, L. B., Cook, R. J., Vercautran, T., Ourselin, S., Hawkes, D. J. (2011). Re-localisation of a biopsy site in endoscopic images and characterisation of its uncertainty. Medical Image Analysis [Accepted]

Cardoso, M. J., Clarkson, M. J., Modat, M., Ourselin, S. (2011). Longitudinal cortical thickness estimation using Khalimsky's cubic complex. Med Image Comput Comput Assist Interv. ( Vol. 14 pp.467-475). Author URL

Cardoso, M. J., Clarkson, M. J., Modat, M., Ourselin, S. (2011). NiftySeg. http://sourceforge.net/projects/niftyseg/.

Cardoso, M. J., Clarkson, M. J., Modat, M., Ourselin, S. (2011). On the extraction of topologically correct thickness measurements using Khalimsky's cubic complex. Lecture Notes in Computer Science. ( Vol. 6801 LNCS pp.159-170).

Cardoso, M. J., Clarkson, M. J., Modat, M., Talbot, H., Couprie, M., Ourselin, S. (2011). Topologically Correct Cortical Segmentation using Khalimsky's Cubic Complex framework. Progress in Biomedical Optics and Imaging - Proceedings of SPIE. ( Vol. 7962 ).

Cardoso, M. J., Clarkson, M. J., Ridgway, G. R., Modat, M., Fox, N. C., Ourselin, S., Alzheimer's Disease Neuroimaging Initiative, (2011). LoAd: A locally adaptive cortical segmentation algorithm. Neuroimage 56(3), 1386-1397 doi:10.1016/j.neuroimage.2011.02.013. Author URL

Cardoso, M. J., Melbourne, A., Kendall, G. S., Modat, M., Hagmann, C. F., Robertson, N. J., Marlow, N., Ourselin, S. (2011). Adaptive neonate brain segmentation. Med Image Comput Comput Assist Interv. ( Vol. 14 pp.378-386). Author URL

Clarkson, M. J., Cardoso, M. J., Modat, M., Ridgway, G. R., Leung, K. K., Rohrer, J. D., Ourselin, S., Fox, N. (2011). A Comparative Study of Voxel and Surface Based Cortical Thickness Methods in Frontotemporal Dementia. Alzheimer's Association International Conference (AAIC) Alzheimer's Imaging Consortium. Author URL

Clarkson, M. J., Cardoso, M. J., Ridgway, G. R., Modat, M., Leung, K. K., Rohrer, J. D., Fox, N. C., Ourselin, S. (2011). A comparison of voxel and surface based cortical thickness estimation methods. NeuroImage 57(3), 856-865 doi:10.1016/j.neuroimage.2011.05.053. Publisher URL

Clarkson, M. J., Cardoso, M., Modat, M., Ridgway, G. R., Leung, K. K., Rohrer, J., Fox, N. C., Ourselin, S. (2011). Cross-sectional analysis using voxel or surface based cortical thickness methods: A comparison study. 2011 8th IEEE International Symposium on Biomedical Imaging: From Nano to Macro: Proceedings: March 30 – April 2, 2011 Chicago, Illinois, USA. ( pp.381-384). Piscataway, US: IEEE. Publisher URL

Cleary, J. O., Modat, M., Norris, F. C., Price, A. N., Jayakody, S. A., Martinez-Barbera, J. P., Greene, N. D., Hawkes, D. J., Ordidge, R. J., Scambler, P. J., Ourselin, S., Lythgoe, M. F. (2011). Magnetic resonance virtual histology for embryos: 3D atlases for automated high-throughput phenotyping. Neuroimage 54(2), 769-778 doi:10.1016/j.neuroimage.2010.07.039. Author URL

Daga, P., Winston, G., Modat, M., Cardoso, M. J., Stretton, J., Symms, M., McEvoy, A. W., Hawkes, D., Duncan, J., Ourselin, S. (2011). Integrating structural and diffusion MR information for optic radiation localisation in focal epilepsy patients. Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on. ( pp.353-356). Publisher URL

Daga, P., Winston, G., Modat, M., Cardoso, M. J., White, M., Mancini, L., McEvoy, A. W., Thornton, J., Micallef, C., Yousry, T., Hawkes, D., Duncan, J. S., Ourselin, S. (2011). Improved neuronavigation through integration of intraoperative anatomical and diffusion images in an interventional MRI suite. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 6689 LNCS, 168-178

Daga, P., Winston, G., Modat, M., White, M., Mancini, L., Cardoso, M., Symms, M., Hawkes, D., Duncan, J., Ourselin, S. (2011). Accurate localization of optic radiation during neurosurgery in an interventional MRI suite. IEEE Trans Med Imaging doi:10.1109/TMI.2011.2179668.

Fonteijn, H. M., Clarkson, M. J., Modat, M., Barnes, J., Lehmann, M., Ourselin, S., Fox, N. C., Alexander, D. C. (2011). An event-based disease progression model and its application to familial Alzheimer's disease. Lecture Notes in Computer Science. ( Vol. 6801 LNCS pp.748-759).

Kazantsev, D., Bousse, A., Pedemonte, S., Arridge, S. R., Hutton, B. F., Ourselin, S. (2011). Edge preserving bowsher prior with nonlocal weighting for 3D spect reconstruction. Proceedings - International Symposium on Biomedical Imaging , 1158-1161

Lehmann, M., Rohrer, J. D., Clarkson, M. J., Ridgway, G. R., Scahill, R. I., Modat, M., Warren, J. D., Ourselin, S., Barnes, J., Rossor, M. N., Fox, N. C. (2011). Patterns of cortical thickness in pathologically-confirmed typical and atypical Alzheimer's disease. ( Vol. 2 pp.57-67).

Leung, K. K., Barnes, J., Modat, M., Ridgway, G. R., Bartlett, J. W., Fox, N. C., Ourselin, S., Alzheimer's Disease Neuroimaging Initiative, (2011). Brain MAPS: An automated, accurate and robust brain extraction technique using a template library. Neuroimage 55(3), 1091-1108 doi:10.1016/j.neuroimage.2010.12.067. Author URL

Leung, K. K., Barnes, J., Modat, M., Ridgway, G. R., Bartlett, J., Fox, N. C., Ourselin, S. (2011). Automated brain extraction using Multi-Atlas Propagation and Segmentation (MAPS). The eighth IEEE International Symposium on Biomedical Imaging (ISBI 2011). Publisher URL

Leung, K. K., Ridgway, G. R., Clarkson, M. J., Nielsen, C., Ourselin, S., Fox, N. (2011). Automated and consistent brain atrophy estimation using boundary shift integral in longitudinal MRI study. Alzheimer's Association International Conference (AAIC): Alzheimer's Imaging Consortium. Author URL

Leung, K. K., Ridgway, G. R., Ourselin, S., Fox, N. C. (2011). Consistent multi-time-point brain atrophy estimation from the boundary shift integral. NeuroImage (0) doi:10.1016/j.neuroimage.2011.10.068. Author URL

Leung, K. K., Ridgway, G. R., Ourselin, S., Fox, N. C. (2011). Consistent multi-time-point brain atrophy estimation from the boundary shift integral. Neuroimage [Accepted]

McClelland, J. R., Hughes, S., Modat, M., Qureshi, A., Ahmad, S., Landau, D. B., Ourselin, S., Hawkes, D. J. (2011). Inter-fraction variations in respiratory motion models. Phys Med Biol 56(1), 251-272 doi:10.1088/0031-9155/56/1/015. Author URL

Melbourne, A., Hipwell, J., Modat, M., Mertzanidou, T., Huisman, H., Ourselin, S., Hawkes, D. J. (2011). The effect of motion correction on pharmacokinetic parameter estimation in dynamic-contrast-enhanced MRI. Phys Med Biol 56(24), 7693-7708 doi:10.1088/0031-9155/56/24/001. Author URL

Modat, M., Ridgway, G. R., Daga, P., Cardoso, M. J., Hawkes, D. J., Ashburner, J., Ourselin, S. (2011). Log-Euclidean free-form deformation. Progress in Biomedical Optics and Imaging - Proceedings of SPIE. ( Vol. 7962 ).

Murphy, K., van Ginneken, B., Reinhardt, J. M., Kabus, S., Ding, K., Deng, X., Cao, K., Du, K., Christensen, G. E., Garcia, V., Vercauteren, T., Ayache, N., Commowick, O., Malandain, G., Glocker, B., Paragios, N., Navab, N., Gorbunova, V., Sporring, J., de Bruijne, M., Han, X., Heinrich, M. P., Schnabel, J. A., Jenkinson, M., Lorenz, C., Modat, M., McClelland, J. R., Ourselin, S., Muenzing, S. E., Viergever, M. A., De Nigris, D., Collins, D. L., Arbel, T., Peroni, M., Li, R., Sharp, G. C., Schmidt-Richberg, A., Ehrhardt, J., Werner, R., Smeets, D., Loeckx, D., Song, G., Tustison, N., Avants, B., Gee, J. C., Staring, M., Klein, S., Stoel, B. C., Urschler, M., Werlberger, M., Vandemeulebroucke, J., Rit, S., Sarrut, D., Pluim, J. P. (2011). Evaluation of Registration Methods on Thoracic CT: The EMPIRE10 Challenge. IEEE Trans Med Imaging 30(11), 1901-1920 doi:10.1109/TMI.2011.2158349.

Norris, F. C., Cleary, J. O., Modat, M., Sinclair, B., Mccue, K., Wells, J. A., Martinez-Barbera, J. P., Brander, S., Fisher, E., Scambler, P. J., Ourselin, S., Lythgoe, M. F. (2011). Mouse phenotyping using high resolution 3D microscopic magnetic resonance imaging. GENETICS RESEARCH. ( Vol. 93 pp.440-440). Author URL

Pedemonte, S., Bousse, A., Hutton, B. F., Arridge, S., Ourselin, S. (2011). 4-D generative model for PET/MRI reconstruction. Med Image Comput Comput Assist Interv. ( Vol. 14 pp.581-588). Author URL

Pedemonte, S., Bousse, A., Hutton, B. F., Arridge, S., Ourselin, S. (2011). Probabilistic graphical model of SPECT/MRI. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 7009 LNCS, 167-174

Ridgway, G. R., Lehmann, M., Rohrer, J., Clarkson, M., Warren, J., Ourselin, S., Fox, N. (2011). Balanced sensitivity and specificity on unbalanced data using support vector machine re-thresholding. Paris, France. Author URL

Rohrer, J. D., Lashley, T., Schott, J. M., Warren, J. E., Mead, S., Isaacs, A. M., Beck, J., Hardy, J., de Silva, R., Warrington, E., Troakes, C., Al-Sarraj, S., King, A., Borroni, B., Clarkson, M., Ourselin, S., Holton, J., Fox, N. C., Revesz, T., Rossor, M. N., Warren, J. D. (2011). Clinical and neuroanatomical signatures of tissue pathology in frontotemporal lobar degeneration. Brain 134(9), 2565-2581

Roth, H. R., McClelland, J. R., Boone, D. J., Modat, M., Cardoso, M. J., Hampshire, T. E., Hu, M., Punwani, S., Ourselin, S., Slabaugh, G. G., Halligan, S., Hawkes, D. J. (2011). Registration of the endoluminal surfaces of the colon derived from prone and supine CT colonography. Medical Physics 38(6), 3077-3089 doi:10.1118/1.3577603. Publisher URL

SIOW, B., Cleary, J. O., Greene, N. D., Daga, P., Modat, M., Ordidge, R., Ourselin, S., Alexander, D. A., Lythgoe, M. F. (2011). Mouse Embryo Phenotyping with Contrast-enhanced micro-Diffusion Tensor Imaging. 19th meeting of the International Society for Magnetic Resonance in Medicine.

Shi, W., Zhuang, X., Wang, H., Duckett, S. G., Oregan, D., Edwards, P. J., Ourselin, S., Rueckert, D. (2011). Automatic Segmentation of Different Pathologies from Cardiac Cine MRI Using Registration and Multiple Component EM Estimation. FIMH. ( Vol. 6666 pp.163-170). Springer. Publisher URL

Shi, W., Zhuang, X., Wolz, R., Duckett, S. G., Tung, K. -. P., Wang, H., Ourselin, S., Edwards, P. J., Razavi, R., Rueckert, D. (2011). A Multi-image Graph Cut Approach for Cardiac Image Segmentation and Uncertainty Estimation. STACOM. ( Vol. 7085 pp.178-187). Springer. Publisher URL

Taylor, Z. A., Crozier, S., Ourselin, S. (2011). A Reduced Order Explicit Dynamic Finite Element Algorithm for Surgical Simulation. IEEE Trans Med Imaging 30(9), 1713-1721 doi:10.1109/TMI.2011.2143723.

Thomas, B. A., Erlandsson, K., Modat, M., Thurfjell, L., Vandenberghe, R., Ourselin, S., Hutton, B. F. (2011). The importance of appropriate partial volume correction for PET quantification in Alzheimer's disease. Eur J Nucl Med Mol Imaging 38(6), 1104-1119 doi:10.1007/s00259-011-1745-9.

Thomas, B. A., Erlandsson, K., Thurfjell, L., Ourselin, S., Hutton, B. F. (2011). An improved iterative MR-based partial volume correction technique for brain PET quantification. EUROPEAN JOURNAL OF NUCLEAR MEDICINE AND MOLECULAR IMAGING. ( Vol. 38 pp.S132-S132). Author URL

Thomas, B. A., Erlandsson, K., Thurfjell, L., Vandenberghe, R., Ourselin, S., Hutton, B. F. (2011). White matter variability for two amyloid brain PET tracers: implications for partial volume correction. EUROPEAN JOURNAL OF NUCLEAR MEDICINE AND MOLECULAR IMAGING. ( Vol. 38 pp.S108-S108). Author URL

Wang, H., Shi, W., Zhuang, X., Duckett, S. G., Tung, K. -. P., Edwards, P. J., Razavi, R., Ourselin, S., Rueckert, D. (2011). Automatic Cardiac Motion Tracking Using Both Untagged and 3D Tagged MR Images. STACOM. ( Vol. 7085 pp.45-54). Springer. Publisher URL

Winston, G. P., Daga, P., Stretton, J., Modat, M., Symms, M. R., McEvoy, A. W., Ourselin, S., Duncan, J. S. (2011). Developing optic radiation tractography to reduce visual field deficits following anterior temporal lobe resection. JOURNAL OF NEUROLOGY. ( Vol. 258 pp.54-54). SPRINGER HEIDELBERG.

Winston, G. P., Daga, P., Stretton, J., Modat, M., Symms, M. R., McEvoy, A. W., Ourselin, S., Duncan, J. S. (2011). Optic radiation tractography and vision in anterior temporal lobe resection. Annals of Neurology doi:10.1002/ana.22619. [Accepted]

Zhang, D. P., Zhuang, X. H., Ourselin, S., Rueckert, D. (2011). Motion tracking of left ventricle and coronaries in 4D CTA. MEDICAL IMAGING 2011: IMAGE PROCESSING. ( Vol. 7962 ). SPIE-INT SOC OPTICAL ENGINEERING.

Zhuang, X., Arridge, S., Hawkes, D. J., Ourselin, S. (2011). A Nonrigid Registration Framework Using Spatially Encoded Mutual Information and Free-Form Deformations. IEEE Trans Med Imaging 30(10), 1819-1828 doi:10.1109/TMI.2011.2150240.

Zhuang, X., Shi, W., Duckett, S. G., Wang, H., Razavi, R., Hawkes, D. J., Rueckert, D., Ourselin, S. (2011). A Framework Combining Multi-sequence MRI for Fully Automated Quantitative Analysis of Cardiac Global And Regional Functions. FIMH. ( Vol. 6666 pp.367-374). Springer. Publisher URL

2010

Allain, B., Hu, M., Lovat, L. B., Cook, R. J., Vercauteren, T., Ourselin, S., Hawkes, D. J. (2010). A System for Biopsy Site Re-targeting with Uncertainty in Gastroenterology and Oropharyngeal Examinations. Med Image Comput Comput Assist Interv. ( Vol. 13 pp.514-521). Author URL

Archer, H. A., Kennedy, J., Barnes, J., Pepple, T., Boyes, R., Randlesome, K., Clegg, S., Leung, K. K., Ourselin, S., Frost, C., Rossor, M. N., Fox, N. C. (2010). Memory complaints and increased rates of brain atrophy: risk factors for mild cognitive impairment and Alzheimer's disease. International Journal of Geriatric Psychiatry 25(11), 1119-1126 doi:10.1002/gps.2440. Author URL

Barnes, J., Ridgway, G. R., Bartlett, J., Henley, S. M., Lehmann, M., Hobbs, N., Clarkson, M. J., MacManus, D. G., Ourselin, S., Fox, N. C. (2010). Head size, age and gender adjustment in MRI studies: a necessary nuisance? Neuroimage 53(4), 1244-1255 doi:10.1016/j.neuroimage.2010.06.025.

Bourgeat, P., Chételat, G., Villemagne, V. L., Fripp, J., Raniga,, P,, Pike,, K,, Acosta,, O,, Szoeke,, C,, Ourselin,, S,, Ames,, D,, Ellis,, KA,, Martins,, RN,, Masters,, CL,, Rowe,, CC, S., O, (2010). beta-Amyloid burden in the temporal neocortex is related to hippocampal atrophy in elderly subjects without dementia. Neurology 74(2), 121-127 Author URL

Bousse, A., Erlandsson, K., Pedemonte, S., Kazantsev, D., Ourselin, S., Arridge, S., Hutton, B. F. (2010). Weighted MRI-Based bowsher priors for SPECT brain image reconstruction. IEEE Nuclear Science Symposium Conference Record , 3519-3522

Bousse, A., Fuin, N., Erlandsson, K., Pedemonte, S., Kazantsev, D., Ourselin, S., Arridge, S., Hutton, B. F. (2010). Point spread function optimization in SPECT. IEEE Nuclear Science Symposium Conference Record , 2061-2065

Cardoso, M. J., Clarkson, M. J., Modat, M., Ridgway, G. R., Ourselin, S. (2010). LOCALLY WEIGHTED MARKOV RANDOM FIELDS FOR CORTICAL SEGMENTATION. Biomedical Imaging: From Nano to Macro, 2010 IEEE International Symposium on. ( pp.956-959). Publisher URL

Clarkson, M. J., Malone, I. B., Modat, M., Leung, K. K., Ryan, N., Alexander, D. C., Fox, N. C., Ourselin, S. (2010). A Framework for Using Diffusion Weighted Imaging to Improve Cortical Parcellation. Medical Image Computing and Computer-Assisted Intervention – MICCAI 2010. ( Vol. 6361 pp.534-541). Springer.

Dowling, J., Lambert, J., Parker, J., Greer, P. B., Fripp, J., Denham, J., Ourselin, S., Salvado, O. (2010). Automatic MRI Atlas-Based External Beam Radiation Therapy Treatment Planning for Prostate Cancer. Prostate Cancer Imaging. ( Vol. 6367 pp.25-33). Springer. Publisher URL

Fripp, J., Crozier, S., Warfield, S. K., Ourselin, S. (2010). Automatic Segmentation and Quantitative Analysis of the Articular Cartilages From Magnetic Resonance Images of the Knee. IEEE Trans Med Imaging 29(1), 55-64 doi:10.1109/TMI.2009.2024743.

Guitera, P., Bourgeat, P., Stretch, J. R., Scolyer, R. A., Ourselin, S., Lean, C., Thompson, J. F., Bourne, R. (2010). Diagnostic value of 8.5 T magnetic resonance spectroscopy of benign and malignant skin lesion biopsies. Melanoma Res 20(4), 311-317

Han, L., Hipwell, J. H., Taylor, Z. A., Tanner, C., Ourselin, S., Hawkes, D. J. (2010). Fast Deformation Simulation of Breasts Using GPU-Based Dynamic Explicit Finite Element Method. Digital Mammography / IWDM. ( Vol. 6136 pp.728-735). Springer. Publisher URL

Kazantsev, D., Pedemonte, S., Bousse, A., Panagiotou, C., Arridge, S. R., Hutton, B. F., Ourselin, S. (2010). ET Bayesian reconstruction using automatic bandwidth selection for joint entropy optimization. IEEE Nuclear Science Symposium Conference Record , 3301-3307

Lee, B., Popescu, D. C., Ourselin, S. (2010). Topology modification for surgical simulation using precomputed finite element models based on linear elasticity. Prog Biophys Mol Biol 103(2-3), 236-251 doi:10.1016/j.pbiomolbio.2010.09.011.

Lehmann, M., Douiri, A., Kim, L. G., Modat, M., Chan, D., Ourselin, S., Barnes, J., Fox, N. C. (2010). Atrophy patterns in Alzheimer's disease and semantic dementia: A comparison of FreeSurfer and manual volumetric measurements. Neuroimage 49(3), 2264-2274 doi:10.1016/j.neuroimage.2009.10.056.

Lehmann, M., Rohrer, J. D., Clarkson, M. J., Ridgway, G. R., Scahill, R. I., Modat, M., Warren, J. D., Ourselin, S., Barnes, J., Rossor, M. N., Fox, N. C. (2010). Reduced Cortical Thickness in the Posterior Cingulate Gyrus is Characteristic of Both Typical and Atypical Alzheimer's Disease. J Alzheimer Dis 20(2), 587-598 doi:10.3233/JAD-2010-1401.

Leung, K. K., Barnes, J., Ridgway, G. R., Bartlett, J. W., Clarkson, M. J., Macdonald, K., Schuff, N., Fox, N. C., Ourselin, S. (2010). Automated cross-sectional and longitudinal hippocampal volume measurement in mild cognitive impairment and Alzheimer's disease. NeuroImage 51(4), 1345-1359 doi:10.1016/j.neuroimage.2010.03.018. Publisher URL

Leung, K. K., Clarkson, M. J., Bartlett, J. W., Clegg, S., Jack, C. R., Weiner, M. W., Fox, N. C., Ourselin, S., the, A. D. N. I. (2010). Robust atrophy rate measurement in Alzheimer's disease using multi-site serial MRI: Tissue-specific intensity normalization and parameter selection. Neuroimage 50(2), 516-523 doi:10.1016/j.neuroimage.2009.12.059. Author URL

Leung, K. K., Shen, K. -. K., Barnes, J., Ridgway, G. R., Clarkson, M. J., Fripp, J., Salvado, O., Meriaudeau, F., Fox, N. C., Bourgeat, P., Ourselin, S. (2010). Increasing Power to Predict Mild Cognitive Impairment Conversion to Alzheimer's Disease Using Hippocampal Atrophy Rate and Statistical Shape Models. Medical Image Computing and Computer-Assisted Intervention – MICCAI 2010. ( Vol. 6362 pp.125-132). Springer.

Mertzanidou, T., Hipwell, J. H., Cardoso, M. J., Tanner, C., Ourselin, S., Hawkes, D. J. (2010). X-ray Mammography - MRI Registration Using a Volume-Preserving Affine Transformation and an EM-MRF for Breast Tissue Classification. Digital Mammography / IWDM. ( Vol. 6136 pp.23-30). Springer. Publisher URL

Modat, M., Daga, P., Clarkson, M. J., Ourselin, S. (2010). NiftyReg. http://sourceforge.net/projects/niftyreg/.

Modat, M., Ridgway, G. R., Hawkes, D. J., Fox, N. C., Ourselin, S. (2010). NONRIGID REGISTRATION WITH DIFFERENTIAL BIAS CORRECTION USING NORMALISED MUTUAL INFORMATION. Biomedical Imaging: From Nano to Macro, 2010 IEEE International Symposium on. ( pp.356-359). Publisher URL

Modat, M., Ridgway, G. R., Taylor, Z. A., Lehmann, M., Barnes, J., Hawkes, D. J., Fox, N. C., Ourselin, S. (2010). Fast free-form deformation using graphics processing units. Comput Methods Programs Biomed 98(3), 278-284 doi:10.1016/j.cmpb.2009.09.002. Author URL

Modat, M., Taylor, Z., Ridgway, G., Barnes, J., Wild, E., Hawkes, D. J., Fox, N., Ourselin, S. (2010). Nonlinear Elastic Spline Registration: Evaluation with Longitudinal Huntington's Disease Data. LNCS. ( pp.128-139). Publisher URL

Norris, F. C., Cleary, J. O., Modat, M., Price, A. N., McCue, K., Beddow, S., Scambler, P. J., Ourselin, S., Lythgoe, M. F. (2010). Propagation-Based Morphometry in an Ex Vivo Mouse Embryo Atlas - Assessment and Validation. Proceedings 18th Scientific Meeting, International Society for Magnetic Resonance in Medicine, Stockholm.

Pedemonte, S., Bousse, A., Erlandsson, K., Modat, M., Arridge, S., Hutton, B. F., Ourselin, S. (2010). GPU accelerated rotation-based emission tomography reconstruction. IEEE Nuclear Science Symposium Conference Record , 2657-2661

Pedemonte, S., Ourselin, S. (2010). NiftyRec. http://sourceforge.net/projects/niftyrec/.

Rohrer, J. D., Ridgway, G. R., Crutch, S. J., Hailstone, J., Goll, J. C., Clarkson, M. J., Mead, S., Beck, J., Mummery, C., Ourselin, S., Warrington, E. K., Rossor, M. N., Warren, J. D. (2010). Progressive logopenic/phonological aphasia: Erosion of the language network. Neuroimage 49(1), 984-993 doi:10.1016/j.neuroimage.2009.08.002. Author URL

Rohrer, J. D., Ridgway, G. R., Modat, M., Ourselin, S., Mead, S., Fox, N. C., Rossor, M. N., Warren, J. D. (2010). Distinct profiles of brain atrophy in frontotemporal lobar degeneration caused by progranulin and tau mutations. Neuroimage doi:10.1016/j.neuroimage.2009.12.088. Author URL

Roth, H., McClelland, J., Boone, D., Hu, M., Ourselin, S., Slabaugh, G., Halligan, S., Hawkes, D., Medicsight, P. L. C. (2010). Conformal Mapping of the Inner Colon Surface to a Cylinder for the Application of Prone to Supine Registration. Medical Image Understanding and Analysis (MIUA).

Roth, H., McClelland, J., Modat, M., Boone, D., Hu, M., Ourselin, S., Slabaugh, G., Halligan, S., Hawkes, D. (2010). Establishing Spatial Correspondence between the Inner Colon Surfaces from Prone and Supine CT Colonography. Med Image Comput Comput Assist Interv. ( Vol. 13 pp.497-504). Author URL

Ryan, N. S., Malone, I., Lehmann, M., Crutch, S., Ourselin, S., Ciccarelli, O., Fox, N. C. (2010). Patterns of white matter tract degeneration and grey matter loss in posterior cortical atrophy and typical amnestic presentations of Alzheimer's disease. EUROPEAN JOURNAL OF NEUROLOGY. ( Vol. 17 pp.60-60). WILEY-BLACKWELL.

Ryan, N. S., Okello, A., Knight, W. D., Lehmann, M., Malone, I., Clarkson, M., Bartlett, J., Ridgway, G., Mancini, L., Thornton, J., Ourselin, S., Brooks, D., Rossor, M., Fox, N. (2010). Early subcortical amyloid deposition in familial Alzheimer's disease is accompanied by changes in tissue volume and diffusivity. Alzheimer's Association International Conference. Alzheimer's & dementia : the journal of the Alzheimer's Association: Elsevier, Inc.. Publisher URL

Schott, J. M., Bartlett, J. W., Barnes, J., Leung, K. K., Ourselin, S., Fox, N. C. (2010). Reduced sample sizes for atrophy outcomes in Alzheimer's disease trials: baseline adjustment. Neurobiol Aging 31(8), 1452-1462.e2 Author URL

Taylor, Z. A., Crozier, S., Ourselin, S. (2010). Real-Time Surgical Simulation Using Reduced Order Finite Element Analysis. Med Image Comput Comput Assist Interv. ( Vol. 13 pp.388-395). Author URL

Taylor, Z. A., Johnsen, S., Ourselin, S. (2010). NiftySim. http://sourceforge.net/projects/niftysim/.

Taylor, Z. A., Ourselin, S., Crozier, S. (2010). A Reduced Order Finite Element Algorithm for Surgical Simulation. Conf Proc IEEE Eng Med Biol Soc. ( Vol. 2010 pp.239-242). Author URL

Visser, H. D., Passenger, J., Conlan, D., Russ, C., Hellier, D., Cheng, M., Acosta, O., Ourselin, S., Salvado, O. (2010). DEVELOPING A NEXT GENERATION COLONOSCOPY SIMULATOR. Int. J. Image Graphics 10, 203-217, 2 doi:10.1142/S0219467810003731.

Yang, G., Hipwell, J. H., Clarkson, M. J., Tanner, C., Mertzanidou, T., Gunn, S., Ourselin, S., Hawkes, D. J., Arridge, S. R. (2010). Combined Reconstruction and Registration of Digital Breast Tomosynthesis: Sequential Method versus Iterative Method. Proceedings of Medical Image Understanding and Analysis 2010. ( pp.P27-1-P27-5). Warwick, UK: Department of Computer Science, University of Warwick. Publisher URL

Zhuang, X., Hawkes, D. J., Ourselin, S. (2010). Spatial Information Encoded Mutual Information for Nonrigid Registration. WBIR. ( Vol. 6204 pp.246-257). Springer. Publisher URL

Zhuang, X., Leung, K., Rhode, K., Razavi, R., Hawkes, D., Ourselin, S. (2010). Whole Heart Segmentation of Cardiac MRI Using Multiple Path Propagation Strategy. Med Image Comput Comput Assist Interv. ( Vol. 13 pp.435-443). Author URL

Zhuang, X., Rhode, K. S., Razavi, R. S., Hawkes, D. J., Ourselin, S. (2010). A Registration-Based Propagation Framework for Automatic Whole Heart Segmentation of Cardiac MRI. IEEE Trans Med Imaging 29(9), 1612-1625 doi:10.1109/TMI.2010.2047112.

Zhuang, X., Yao, C., Ma, Y., Hawkes, D. J., Penney, G. P., Ourselin, S. (2010). REGISTRATION-BASED PROPAGATION FOR WHOLE HEART SEGMENTATION FROM COMPOUNDED 3D ECHOCARDIOGRAPHY. ISBI. ( pp.1093-1096). IEEE. Publisher URL

2009

Acosta, O., Bourgeat, P., Zuluaga, M. A., Fripp, J., Salvado, O., Ourselin, S., Alzheimer's Disease Neuroimaging I, (2009). Automated voxel-based 3D cortical thickness measurement in a combined Lagrangian-Eulerian PDE approach using partial volume maps. Medical Image Analysis 13(5), 730-743 doi:10.1016/j.media.2009.07.003.

Allain, B., Hu, M. X., Lovat, L. B., Ourselin, S., Cook, R., Hawkes, D. J. (2009). Biopsy Site Re-localisation Based on the Computation of Epipolar Lines from Two Previous Endoscopic Images. MICCAI. ( Vol. 5761 pp.491-498). Heidelberg: Springer.

Allain, B., Price, A., Vercauteren, T. K., Cook, R. J., Ourselin, S., Lythgoe, M. F., Hawkes, D. J. (2009). Precision of Confocal Miniprobe Localisation Assessed By High-Field Magnetic Resonance Imaging. GASTROINTESTINAL ENDOSCOPY. ( Vol. 69 pp.AB370-AB370). MOSBY-ELSEVIER.

Barnes, J., Ourselin, S., Fox, N. C. (2009). Clinical Application of Measurement of Hippocampal Atrophy in Degenerative Dementias. Hippocampus 19(6), 510-516 doi:10.1002/hipo.20617. Author URL

Cardoso, M. J., Clarkson, M. J., Ridgway, G. R., Modat, M., Fox, N. C., Ourselin, S. (2009). Improved Maximum a Posteriori Cortical Segmentation by Iterative Relaxation of Priors. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2009, PT II, PROCEEDINGS. ( Vol. 5762 pp.439-447). SPRINGER-VERLAG BERLIN.

Cheng, M., Passenger, J., Salvado, O., Riek, S., Ourselin, S., Watson, M. (2009). Pneumatic Haptic Interface Fuzzy Controller for Simulation of Abdominal Palpations During Colonoscopy. WORLD HAPTICS 2009: THIRD JOINT EUROHAPTICS CONFERENCE AND SYMPOSIUM ON HAPTIC INTERFACES FOR VIRTUAL ENVIRONMENT AND TELEOPERATOR SYSTEMS, PROCEEDINGS. ( pp.250-255). IEEE.

Clarkson, M. J., Nielsen, C., Leung, K. K., Barnes, J., Whitwell, J. L., Gunter, J., Jack, C., Fox, N. C., Ourselin, S., The, A. D. N. I. A. D. N. I. (2009). Correction of MRI Scaling Parameters: A comparison of phantom and registration methods on the ADNI dataset. ISMRM.

Clarkson, M. J., Ourselin, S., Nielsen, C., Leung, K. K., Barnes, J., Whitwell, J. L., Gunter, J. L., Hill, D. L. G., Weiner, M. W., Jack, C. R., Fox, N. C., The, A. D. N. I. (2009). Comparison of phantom and registration scaling corrections using the ADNI cohort. NeuroImage 47(4), 1506-1513 doi:10.1016/j.neuroimage.2009.05.045. Author URL

Cleary, J. O., Modat, M., Price, A. N., NDE, G., Thomas, D. L., Scambler, P. J., Hawkes, D. J., Ordidge, R. J., Ourselin, S., Lythgoe, M. F. (2009). Phenotyping in the Mouse Embryo using a microMRI atlas. ISMRM. ( pp.825-825).

Evans, M. C., Barnes, J., Nielsen, C., Kim, L. G., Clegg, S. L., Blair, M., Leung, K. K., Douiri, A., Boyes, R. G., Ourselin, S., Fox, N. C. (2009). Volume changes in Alzheimer's disease and mild cognitive impairment: cognitive associations. European Radiology 20(3), 674-682 Author URL

Fripp, J., Bourgeat, P., Engstrom, C., Ourselin, S., Crozier, S., Salvado, O. (2009). AUTOMATED SEGMENTATION OF THE MENISCI FROM MR IMAGES. 2009 IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING: FROM NANO TO MACRO, VOLS 1 AND 2. ( pp.510-513). IEEE.

Gutiérrez-Galve, L., Lehmann, M., Hobbs, N. Z., Clarkson, M. J., Ridgway, G. R., Crutch, S., Ourselin, S., Schott, J. M., Fox, N. C., Barnes, J. (2009). Patterns of Cortical Thickness according to APOE Genotype in Alzheimer's Disease. Dement Geriatr Cogn Disord 28(5), 476-485 doi:10.1159/000258100. Author URL

Leung, K. K., Clarkson, M. J., Fox, N. C., Ourselin, S. (2009). Robust intensity normalisation and automatic intensity window selection for the calculation of the boundary shift integral. ISMRM.

Ridgway, G. R., Omar, R., Ourselin, S., Hill, D. L. G., Warren, J. D., Fox, N. C. (2009). Issues with threshold masking in voxel-based morphometry of atrophied brains. NeuroImage 44(1), 99-111 doi:10.1016/j.neuroimage.2008.08.045. Author URL

Rohrer, J. D., Warren, J. D., Modat, M., Ridgway, G. R., Douiri, A., Rossor, M. N., Ourselin, S., Fox, N. C. (2009). Patterns of cortical thinning in the language variants of frontotemporal lobar degeneration. Neurology 72(18), 1562-1569 doi:10.1212/WNL.0b013e3181a4124e. Author URL

Taylor, Z. A., Comas, O., Cheng, M., Passenger, J., Hawkes, D. J., Atkinson, D., Ourselin, S. (2009). On modelling of anisotropic viscoelasticity for soft tissue simulation: Numerical solution and GPU execution. Medical Image Analysis 13(2), 234-244 doi:10.1016/j.media.2008.10.001. Author URL

Thomas, B., Erlandsson, K., Ourselin, S., Thurfjell, L., Hutton, B. (2009). A brain phantom study of iterative deconvolution versus anatomical-based partial-volume correction techniques. JOURNAL OF CEREBRAL BLOOD FLOW AND METABOLISM. ( Vol. 29 pp.S342-S342). NATURE PUBLISHING GROUP.

Thomas, B., Thurfjell, L., Rinne, J., Ourselin, S., Hutton, B. (2009). The effects of iterative deconvolution partial-volume correction on beta-amyloid PET. JOURNAL OF CEREBRAL BLOOD FLOW AND METABOLISM. ( Vol. 29 pp.S337-S338). NATURE PUBLISHING GROUP.

Zhuang, X., Hawkes, D. J., Ourselin, S. (2009). Unifying Encoding of Spatial Information in Mutual Information for Nonrigid Registration. Lecture Notes in Computer Science (LNCS). ( Vol. 5636 pp.491-502).

Zhuang, X., Rhode, K., Razavi, R., Hawkes, D. J., Ourselin, S. (2009). Free-Form Deformations Using Adaptive Control Point Status for Whole Heart MR Segmentation. Lecture Notes in Computer Science (LNCS). ( Vol. 5528 pp.303-311). Author URL

2008

Acosta, O., Bourgeat, P., Fripp, J., Bonner, E., Ourselin, S., Salvado, O. (2008). Automatic Delineation of Sulci and Improved Partial Volume Classification for Accurate 3D Voxel-Based Cortical Thickness Estimation from MR. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2008, PT I, PROCEEDINGS. ( Vol. 5241 pp.253-261). SPRINGER-VERLAG BERLIN.

Acosta, O., Frimmel, H., Fenster, A., Salvado, O., Ourselin, S. (2008). Pyramidal flux in an anisotropic diffusion scheme for enhancing structures in 3D images - art. no. 691429. MEDICAL IMAGING 2008: IMAGE PROCESSING, PTS 1-3. ( Vol. 6914 pp.91429-91429). SPIE-INT SOC OPTICAL ENGINEERING.

Atkinson, D., Hansen, M. S., Modat, M., Ourselin, S., Sørensen, T. S., Taylor, Z. (2008). Commodity Graphics Cards for Image Registration, Biomechanical Modelling and Cardiac Imaging. Bioengineering 08. ( pp.86-). London:

Bourgeat, P., Acosta, O., Zuluaga, M., Fripp, J., Salvado, O., Ourselin, S. (2008). Improved cortical thickness measurement from mr images using partial volume estimation. 2008 IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING: FROM NANO TO MACRO, VOLS 1-4. ( pp.205-208). IEEE.

Cheng, M., Taylor, Z. A., Ourselin, S. (2008). Towards anatomical modelling of multiple organs interaction using real time GPU based non-linear elasticity. Stud Health Technol Inform. ( Vol. NA ).

Comas, O., Taylor, Z. A., Allard, J., Ourselin, S., Salvado, O., Cotin, S., Passenger, J. (2008). Efficient nonlinear FEM for soft tissue modelling and its GPU implementation within the open source framework SOFA. International Symposium on Computational Models for Biomedical Simulation. London:

Erbou, S. G. H., Darkner, S., Fripp, J., Ourselin, S., Ersboll, B. K. (2008). Estimation of shape model parameters for 3D surfaces. 2008 IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING: FROM NANO TO MACRO, VOLS 1-4. ( pp.624-627). IEEE.

Fripp, J., Bourgeat, P., Acosta, O., Jones, G., Villemagne, V., Ourselin, S., Rowe, C., Salvado, O. (2008). Generative atlases and atlas selection for C11-PIBPET-PET registration of elderly, mild cognitive impaired and Alzheimer disease patients. 2008 IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING: FROM NANO TO MACRO, VOLS 1-4. ( pp.1155-1158). IEEE.

Fripp, J., Bourgeat, P., Acosta, O., Raniga, P., Modat, M., Pike, K. E., Jones, G., O'Keefe, G., Masters, C. L., Ames, D., Ellis, K. A., Maruff, P., Currie, J., Villemagne, V. L., Rowe, C. C., Salvado, O., Ourselin, S. (2008). Appearance modeling of C-11 PiB PET images: Characterizing amyloid deposition in Alzheimer's disease, mild cognitive impairment and healthy aging. Neuroimage 43(3), 430-439 doi:10.1016/j.neuroimage.2008.07.053.

Fripp, J., Bourgeat, P., Raniga, P., Acosta, O., Villemagne, V., Jones, G., O'keefe, G., Rowe, C., Ourselin, S., Salvado, O. (2008). MR-Less High Dimensional Spatial Normalization of C-11 PiB PET Images on a Population of Elderly, Mild Cognitive Impaired and Alzheimer Disease Patients. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2008, PT I, PROCEEDINGS. ( Vol. 5241 pp.442-449). SPRINGER-VERLAG BERLIN.

Golland, P., Hata, N., Ourselin, S., Ayache, N. (2008). Advances in radiological image analysis from MICCAI 2007. Academic Radiology 15(11), 1345-1346 doi:10.1016/j.acra.2008.08.005.

Joshi, B., Fedorov, A., Chrisochoides, N., Warfield, S. K., Ourselin, S. (2008). A quantitative assessment of approaches to mesh generation for surgical simulation. Engineering in Computing 24(4), 417-430 doi:10.1007/s00366-008-0088-z.

Jurcak, V., Fripp, J., Engstrom, C., Walker, D., Salvado, O., Ourselin, S., Crozier, S. (2008). AUTOMATED SEGMENTATION OF THE QUADRATUS LUMBORUM MUSCLE FROM MAGNETIC RESONANCE IMAGES USING A HYBRID ATLAS BASED - GEODESIC ACTIVE CONTOUR SCHEME. 2008 30TH ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY, VOLS 1-8. ( pp.867-870). IEEE.

Jurcak, V., Fripp, J., Engstrom, C., Walker, D., Salvado, O., Ourselin, S., Crozier, S. (2008). Atlas based automated segmentation of the quadratus lumborum muscle using non-rigid registration on magnetic resonance images of the thoracolumbar region. 2008 IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING: FROM NANO TO MACRO, VOLS 1-4. ( pp.113-116). IEEE.

Le, H. D. K., Li, R. X., Ourselin, S., Potter, J. (2008). A Visual Dataflow Language for Image Segmentation and Registration. SOFTWARE AND DATA TECHNOLOGIES. ( Vol. 22 pp.60-72). SPRINGER-VERLAG BERLIN.

Mang, A., Schnabel, J. A., Crum, W. R., Modat, M., Camara-Rey, O., Palm, C., Caseira, G. B., Jager, H. R., Ourselin, S., Buzug, T. M., Hawkes, D. J. (2008). Consistency of parametric registration in serial MRI studies of brain tumor progression. International Journal of Computer Assisted Radiology and Surgery 3, 201---211-201---211 Publisher URL

Modat, M., Taylor, Z. A., Barnes, J., Hawkes, D. J., Fox, N. C., Ourselin, S. (2008). Fast Free-Form Deformation using the Normalised Mutual Information gradient and Graphics Processing Units. HP-MICCAI. Publisher URL

Ourselin, S., Ayache, N. (2008). Special issue on the 10th international conference on medical imaging and computer assisted intervention - MICCAI 2007. Medical Image Analysis 12(5), 525-526 doi:10.1016/j.media.2008.07.001.

Ourselin, S., Peters, T. M. (2008). MICCAI SPECIAL ISSUE. COMPUT AIDED SURG 13(5), 241-242 doi:10.1080/10929080802445386.

Passenger, J., Acosta, O., de Visser, H., Bauer, S., Russ, C., Ourselin, S. (2008). Texture coordinate generation of colonic surface meshes for surgical simulation. 2008 IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING: FROM NANO TO MACRO, VOLS 1-4. ( pp.640-643). IEEE.

Raniga, P., Bourgeat, P., Fripp, J., Acosta, O., Villemagne, V. L., Rowe, C., Masters, C. L., Jones, G., O'Keefe, G., Salvado, O., Ourselin, S. (2008). Automated C-11-PiB Standardized Uptake Value Ratio. Academic Radiology 15(11), 1376-1389 doi:10.1016/j.acra.2008.07.006.

Samur, E., Flaction, L., Spaelter, U., Bleuler, H., Hellier, D., Ourselin, S. (2008). A haptic interface with motor/brake system for colonoscopy simulation. SYMPOSIUM ON HAPTICS INTERFACES FOR VIRTUAL ENVIRONMENT AND TELEOPERATOR SYSTEMS 2008, PROCEEDINGS. ( pp.477-478). IEEE COMPUTER SOC.

Taylor, Z. A., Cheng, M., Ourselin, S. (2008). High-speed Nonlinear finite element analysis for surgical simulation using graphics processing units. IEEE Transactions on Medical Imaging 27(5), 650-663

Taylor, Z. A., Comas, O., Cheng, M., Passenger, J., Hawkes, D. J., Atkinson, D., Ourselin, S. (2008). Modelling Anisotropic Viscoelasticity for Real-Time Soft Tissue Simulation. LNCS. ( Vol. 5241 pp.703-710). New York:

Zhuang, X., Rhode, K., Arridge, S., Razavi, R., Hill, D., Hawkes, D. J., Ourselin, S. (2008). An Atlas-Based Segmentation Propagation Framework Using Locally Affine Registration - Application to Automatic Whole Heart Segmentation. Medical Image Computing and Computer-Assisted Intervention – MICCAI 2008. ( Vol. 5242 pp.425-433). Springer. Author URL

Zuluaga, M. A., Acosta, O., Bourgeat, P., Hoyos, M. H., Salvado, O., Ourselin, S. (2008). Cortical thickness measurement from magnetic resonance images using partial volume estimation - art. no. 69140J. MEDICAL IMAGING 2008: IMAGE PROCESSING, PTS 1-3. ( Vol. 6914 pp.J9140-J9140). SPIE-INT SOC OPTICAL ENGINEERING.

de Visser, H., Comas, O., Conlan, D., Ourselin, S., Passenger, J., Salvado, O. (2008). Deforming a high-resolution mesh in real-time by mapping onto a low-resolution physical model. BIOMEDICAL SIMULATION, PROCEEDINGS. ( Vol. 5104 pp.135-146). SPRINGER-VERLAG BERLIN.

2007

Acosta, O., Frimmel, H., Fenster, A., Ourselin, S. (2007). Filtering and restoration of structures in 3D ultrasound images. 2007 4TH IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING : MACRO TO NANO, VOLS 1-3. ( pp.888-891). IEEE.

Ayache, N., Ourselin, S., Maeder, A. J. (Eds.) (2007). Medical Image Computing and Computer-Assisted Intervention - MICCAI 2007, 10th International Conference, Brisbane, Australia, October 29 - November 2, 2007, Proceedings, Part I. MICCAI (1). ( Vol. 4791 ). Springer.

Bourgeat, P., Fripp, J., Stanwell, P., Ramadan, S., Ourselin, S. (2007). MR image segmentation of the knee bone using phase information. Medical Image Analysis 11(4), 325-335 doi:10.1016/j.media.2007.03.003. Author URL

Chinchapatnam, P., Rhode, K. S., King, A. P., Gao, G., Ma, Y., Schaeffter, T., Hawkes, D. J., Razavi, R., Hill, D. L. G., Arridge, S. R., Sermesant, M. (2007). Anisotropic wave propagation and apparent conductivity estimation in a fast electrophysiological model: Application to XMR interventional imaging. Lecture Notes in Computer Science. ( Vol. 4791 pp.575-581). Springer. Author URL

Diep, T. M., Bourgeat, P., Ourselin, S. (2007). Efficient use of cerebral cortical thickness to correct brain MR segmentation. 2007 4TH IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING : MACRO TO NANO, VOLS 1-3. ( pp.592-595). IEEE.

Frimmel, H., Acosta, O., Fenster, A., Ourselin, S. (2007). Reduction of attenuation effects in 3D Transrectal Ultrasound images - art. no. 65130Z. Medical Imaging 2007: Ultrasonic Imaging and Signal Processing. ( Vol. 6513 pp.Z5130-Z5130). SPIE-INT SOC OPTICAL ENGINEERING.

Fripp, J., Bourgeat, P., Crozier, S., Ourselin, S. (2007). Segmentation of the bones in MRIs of the knee using phase, magnitude, and shape information. ACADEMIC RADIOLOGY. ( Vol. 14 pp.1201-1208). ELSEVIER SCIENCE INC.

Fripp, J., Bourgeat, P., Crozier, S., Ourselin, S. (2007). Shape based segmentation of MRIs of the bones in the knee using phase and intensity information - art. no. 651212. Medical Imaging 2007: Image Processing, Pts 1-3. ( Vol. 6512 pp.51212-51212). SPIE-INT SOC OPTICAL ENGINEERING.

Fripp, J., Bourgeat, P., Crozier, S., Ourselin, S. (2007). Shape based segmentation of MRIs of the knee using phase and magnitude information. Academic Radiology 14(10), 1201-1208

Fripp, J., Crozier, S., Warfield, S. K., Ourselin, S. (2007). Automatic segmentation of articular cartilage in magnetic resonance images of the knee. Medical Image Computing and Computer-Assisted Intervention- MICCAI 2007, Pt 2, Proceedings. ( Vol. 4792 pp.186-194). SPRINGER-VERLAG BERLIN.

Fripp, J., Crozier, S., Warfield, S., Ourselin, S. (2007). Automatic segmentation of the bone and extraction of the bone-cartilage interface from magnetic resonance images of the knee. Physics in Medicine and Biology 52(6), 1617-1631 doi:10.1088/0031-9155/52/6/005.

Fripp, J., Ourselin, S., Warfield, S. K., Crozier, S. (2007). Automatic segmentation of the bones from MR images of the knee. 2007 4TH IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING : MACRO TO NANO, VOLS 1-3. ( pp.336-339). IEEE.

Hellier, D., Passenger, J., Appleyard, M. N., Ourselin, S. (2007). Development of a new Colonoscopy Skills Trainer using Virtual Reality and Haptic Feedback. SimTecT 2007 Healthcare Simulation Conference. ( pp.8-).

Holden, M., Moreno-Vallecillo, R., Harris, A., Gomes, L. J., Diep, T. M., Bourgeat, P., Ourselin, S. (2007). Expectation maximisation classification and Laplacian based thickness measurement for cerebral cortex thickness estimation - art. no. 65120M. Medical Imaging 2007: Image Processing, Pts 1-3. ( Vol. 6512 pp.M5120-M5120). SPIE-INT SOC OPTICAL ENGINEERING.

Joshi, B., Fedorov, A., Chrisochoides, N., Warfield, S., Ourselin, S. (2007). Application-driven quantitative assessment of approaches to mesh generation. 2007 4TH IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING : MACRO TO NANO, VOLS 1-3. ( pp.1160-1163). IEEE.

Le, H. D. K., Li, R., Ourselin, S., Potter, J. M. (2007). ITKBoard: A visual dataflow language for biomedical image processing. ICSOFT 2007: PROCEEDINGS OF THE SECOND INTERNATIONAL CONFERENCE ON SOFTWARE AND DATA TECHNOLOGIES, VOL PL/DPS/KE/MUSE. ( pp.13-21). INSTICC-INST SYST TECHNOLOGIES INFORMATION CONTROL & COMMUNICATION.

Lee, B., Popescu, D. C., Ourselin, S. (2007). Progressive Update Approach to Real-time Cutting of Finite Element Models in Surgical Simulation. Stud Health Technol Inform. ( Vol. 125 pp.271-273).

Li, R., Ourselin, S. (2007). Towards Consistently Behaving Deformable Models for Improved Automation in Image Segmentation. In Suri, J. S., Farag, A. (Eds.). Deformable Models - Theory and Biomaterial Applications (1st ed. ). Springer Publishers.

Raniga, P., Bourgeat, P., Ourselin, S., Villemagne, V., O'Keefe, G., Rowe, C. (2007). PIB-PET segmentation for automatic SUVR normalisation without MR information. 2007 4TH IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING : MACRO TO NANO, VOLS 1-3. ( pp.348-351). IEEE.

Raniga, P., Bourgeat, P., Villemagne, V., O'Keefe, G., Rowe, C., Ourselin, S. (2007). Spline based inhomogeneity correction for C-11-PIB PET segmentation using expectation maximization. Medical Image Computing and Computer-Assisted Intervention - MICCAI 2007, Pt 1, Proceedings. ( Vol. 4791 pp.228-235). SPRINGER-VERLAG BERLIN.

Salvado, O., Bourgeat, P., Tarnayo, O. A., Zuluaga, M., Ourselin, S. (2007). Fuzzy classification of brain MRI using a priori knowledge: weighted fuzzy C-means. 2007 IEEE 11TH INTERNATIONAL CONFERENCE ON COMPUTER VISION, VOLS 1-6. ( pp.2548-2555). IEEE.

Taylor, Z., Cheng, M., Ourselin, S. (2007). Real-time nonlinear finite element analysis for surgical simulation using graphics processing units. Medical Image Computing and Computer-Assisted Intervention Conference 2007. ( pp.701-708). Brisbane:

Vrtovec, T., Ourselin, S., Gomes, L., Likar, B., Pernus, F. (2007). Automated generation of curved planar reformations from MR images of the spine. Physics in Medicine and Biology 52(10), 2865-2878

Yelnik, J., Bardinet, E., Dormont, D., Malandain, G., Ourselin, S., Tand, D., Karachi, C., Ayache, N., Cornu, P., Agid, Y. (2007). A three-dimensional, histological and deformable atlas of the human basal ganglia. I. Atlas construction based on immunohistochemical and MRI data. Neuroimage 34(2), 618-638 doi:10.1016/j.neuroimage.2006.09.026. Author URL

2006

Bourgeat, P., Fripp, J., Stanwell, P., Ramadan, S., Ourselin, S. (2006). MR image segmentation using phase information and a novel multiscale scheme. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2006, PT 2. ( Vol. 4191 pp.920-927). SPRINGER-VERLAG BERLIN.

Bourgeat, P., Ourselin, S., Stanwell, P., Ramadan, S. (2006). Texture-based segmentation of the knee bones in MRI using phase information. 2006 3RD IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING: MACRO TO NANO, VOLS 1-3. ( pp.742-745). IEEE.

Fripp, J., Crozier, S., Warfield, S. K., Ourselin, S. (2006). A subdivision-based parametric deformable model for surface extraction and statistical shape modeling of the knee cartilages - art. no. 614123. MEDICAL IMAGING 2006: VISUALIZATION, IMAGE-GUIDED PROCEDURES, AND DISPLAY. ( Vol. 6141 pp.14123-14123). SPIE-INT SOC OPTICAL ENGINEERING.

Fripp, J., Crozier, S., Warfield, S. K., Ourselin, S. (2006). Automatic segmentation of the knee bones using 3D active shape models. 18th International Conference on Pattern Recognition, Vol 1, Proceedings. ( pp.171-174). IEEE COMPUTER SOC.

Lee, B., Popescu, D. C., Joshi, B., Ourselin, S. (2006). Efficient Topology Modification and Deformation for Finite Element Models Using Condensation. Stud Health Technol Inform. ( Vol. 119 pp.299-304).

Li, R. X., Ourselin, S. (2006). Using marker-based deformable models for deriving anatomical models from medical image databases. 2006 3RD IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING: MACRO TO NANO, VOLS 1-3. ( pp.430-433). IEEE.

Vrtovec, T., Ourselin, S., Gomes, L., Likar, B., Pernus, F. (2006). Generation of curved planar reformations from magnetic resonance images of the spine. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2006, PT 2. ( Vol. 4191 pp.135-143). SPRINGER-VERLAG BERLIN.

2005

Bourgeat, P., Fripp, J., Janke, A., Galloway, G., Crozier, S., Ourselin, S. (2005). The use of unwrapped phase in MR image segmentation: A preliminary study. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2005, PT 2. ( Vol. 3750 pp.813-820). SPRINGER-VERLAG BERLIN.

Fripp, J., Bourgeat, P., Mewes, A. J. U., Warfield, S. K., Crozier, S., Ourselin, S. (2005). 3D statistical shape models to embed spatial relationship information. COMPUTER VISION FOR BIOMEDICAL IMAGE APPLICATIONS, PROCEEDINGS. ( Vol. 3765 pp.51-60). SPRINGER-VERLAG BERLIN.

Fripp, J., Crozier, S., Warfield, S. K., Ourselin, S. (2005). Automatic Initialization of 3D Deformable Models for Cartilage Segmentation. DICTA. ( pp.74-74). IEEE Computer Society. Publisher URL

Fripp, J., Ourselin, S., Warfield, S., Mewes, A., Crozier, S. (2005). Automatic Generation of 3D Statistical Shape Models of the Knee Bones. APRS Workshop on Digital Image Computing. ( pp.15-21).

Joshi, B., Lee, B., Popescu, D. C., Ourselin, S. (2005). Multiple Contact Approach to Collision Modelling in Surgical Simulation. Stud Health Technol Inform. ( Vol. 111 pp.237-242).

Le, H. D. K., Li, R., Ourselin, S. (2005). Towards a Visual Programming Environment Based on ITK for Medical Image Analysis. DICTA. ( pp.80-80). IEEE Computer Society. Publisher URL

Li, R. X., Ourselin, S. (2005). A marker-induced vector field for reduced sensitivity to initialization for parametric and geometric deformable models. MEDICAL IMAGING 2005: IMAGE PROCESSING, PT 1-3. ( Vol. 5747 pp.315-325). SPIE-INT SOC OPTICAL ENGINEERING.

Li, R., McLean, D., Ourselin, S. (2005). Vector-field-based deformable models for radiation dosimetry. APRS Workshop on Digital Image Computing, WDIC2005.

Ourselin, S., Li, R. X. (2005). Extension of deformable models: Hybrid approaches for analysis of medical images. 2005 27th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Vols 1-7. ( pp.7182-7185). IEEE.

Popescu, D. C., Joshi, B., Ourselin, S. (2005). Real-time topology modification for finite element models with haptic feedback. COMPUTER ANALYSIS OF IMAGES AND PATTERNS, PROCEEDINGS. ( Vol. 3691 pp.846-853). SPRINGER-VERLAG BERLIN.

Saxena, A., Gupta, G., Gerasimov, V., Ourselin, S. (2005). In use parameter estimation of inertial sensors by detecting multilevel quasi-static states. KNOWLEDGE-BASED INTELLIGENT INFORMATION AND ENGINEERING SYSTEMS, PT 4, PROCEEDINGS. ( Vol. 3684 pp.595-601). SPRINGER-VERLAG BERLIN.

2004

Lee, B., Popescu, D., Ourselin, S. (2004). Contact modelling based on displacement field redistribution for surgical simulation. MEDICAL IMAGING AND AUGMENTED REALITY, PROCEEDINGS. ( Vol. 3150 pp.337-345). SPRINGER-VERLAG BERLIN.

2003

Joshi, B., Ourselin, S. (2003). BSP-Assisted Constrained Tetrahedralization. IMR. ( pp.251-260).

Joshi, B., Ourselin, S. (2003). BSP-Assisted Constrained Tetrahedralization. Proc. 12th International Meshing Roundtable (IMR'03). ( pp.251-260).

Li, R. X., Ourselin, S. (2003). Combining front propagation with shape knowledge for accurate curvilinear modelling. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2003, PT 2. ( Vol. 2879 pp.66-74). SPRINGER-VERLAG BERLIN.

Li, R., Ourselin, S. (2003). Accurate Curvilinear Modeling for Precise Measurements of Tubular Structures. Proc. Seventh Digital Image Computing: Techniques and Applications (DICTA'03). ( pp.243-252). CSIRO Publishing.

Li, R., Ourselin, S. (2003). Accurate Curvilinear Modeling for Precise Measurements of Tubular Structures. DICTA. ( pp.243-252). CSIRO Publishing. Publisher URL

Li, R., Ourselin, S. (2003). Accurate Curvilinear Modelling for Surgical Planning Purposes. World Congress on Medical Physics and Biomedical Engineering (WC2003).

Luo, S., Li, R., Ourselin, S. (2003). A New Deformable Model Using Dynamic Gradient Vector Flow and Adaptive Balloon Forces. APRS Workshop on Digital Image Computing.

Ourselin, S. (2003). An Overview of Medical Image Segmentation. 2003.

Sun, C., Talbot, H., Ourselin, S., Adriaansen, T. (Eds.) (2003). Proceedings of the Seventh International Conference on Digital Image Computing: Techniques and Applications, DICTA 2003, 10-12 December 2003, Macquarie University, Sydney, Australia. DICTA. CSIRO Publishing.

2002

Bardinet, E., Ourselin, S., Dormont, D., Malandain, G., Tande, D., Parain, K., Ayache, N., Yelnik, J. (2002). Co-registration of histological, optical and MR data of the human brain. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION-MICCAI 2002, PT 1. ( Vol. 2488 pp.548-555). SPRINGER-VERLAG BERLIN.

Bardinet, E., Ourselin, S., Malandain, G., Tande, D., Parain, K., Ayache, N., Yelnik, J. (2002). Three dimensional functional cartography of the human basal ganglia by registration of optical and histological serial sections. 2002 IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING, PROCEEDINGS. ( pp.329-332). IEEE.

Ourselin, S. (2002). Recalage d'images medicales par appariement de regions - Application la construction d'atlas histologiques 3D.

Ourselin, S., Benezery, K., Wilson, L. (2002). Towards Prostate Cancer Radiotherapy Planning Improvement Using Atlas Propagation. Australian Physical and Engineering Sciences in MAUicine. ( Vol. 25 pp.193-).

Prima, S., Ourselin, S., Ayache, N. (2002). Computation of the mid-sagittal plane in 3-D brain images. IEEE Transactions on Medical Imaging 21(2), 122-138

2001

Bardinet, E., Colchester, A. C. F., Roche, A., Zhu, Y., He, Y., Ourselin, S., Nailon, B., Hojjat, S. A., Ironside, J., Al-Sarraj, S., Ayache, N., Wardlaw, J. M. (2001). Registration of Reconstructed Post Mortem Optical Data with MR Scans of the Same Patient. MICCAI. ( Vol. 2208 pp.957-965). Springer. Publisher URL

Delingette, H., Bardinet, E., Rey, D., Lemarechal, J. D., Montagnat, J., Ourselin, S., Roche, A., Dormont, D., Yelnik, J., Ayache, N. (2001). YAV++: a Software Platform for Medical Image Processing and Visualization. Workshop on Interactive Medical Image Visualization and Analysis.

Ourselin, S., Bardinet, E., Dormont, D., Malandain, G., Roche, A., Ayache, N., Tandé, D., Parain, K., Yelnik, J. (2001). Fusion of Histological Sections and MR Images: Towards the Construction of an Atlas of the Human Basal Ganglia. MICCAI. ( Vol. 2208 pp.743-751). Springer. Publisher URL

Ourselin, S., Pennec, X., Stefanescu, R. (2001). Robust Registration of Multi-modal Images: Towards Real-Time Clinical Applications. INRIA.

Ourselin, S., Roche, A., Subsol, G., Pennec, X., Ayache, N. (2001). Reconstructing a 3D structure from serial histological sections. Image and Vision Computing 19(1-2), 25-31 doi:10.1016/S0262-8856(00)00052-4. Author URL

2000

Colchester, A., Ourselin, S., Zhu, Y. G., Bardinet, E., He, Y., Roche, A., Al-Sarraj, S., Nailon, B., Ironside, J., Ayache, N. (2000). 3-D reconstruction of macroscopic optical brain slice images. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2000. ( Vol. 1935 pp.95-105). SPRINGER-VERLAG BERLIN.

Ourselin, S., Roche, A., Prima, S., Ayache, N. (2000). Block matching: A general framework to improve robustness of rigid registration of medical images. MEDICAL IMAGE COMPUTING AND COMPUTER-ASSISTED INTERVENTION - MICCAI 2000. ( Vol. 1935 pp.557-566). SPRINGER-VERLAG BERLIN.

Roche, A., Pennec, X., Malandain, G., Ayache, N., Ourselin, S. (2000). Generalized correlation ratio for rigid registration of 3D ultrasound with MR images. INRIA.

1999

Ourselin, S., Sattonnet, C., Roche, A., Subsol, G. (1999). Automatic alignement of histological sections for 3D reconstruction and analysis. Analytical Cellular Pathology. ( Vol. 18 pp.123-123).

Prima, S., Ourselin, S., Ayache, N. (1999). Computation of the Mid-Sagittal Plane in 3D Medical Images of the Brain. INRIA.

1998

Ourselin, S., Roche, A., Subsol, G., Pennec, X. (1998). Automatic Alignment of Histological Sections for 3D Reconstruction and Analysis. INRIA.

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