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Publications of Sébastien Ourselin

Books and proceedings

  1. Nicholas Ayache, Sébastien Ourselin, and Anthony Maeder, editors. Medical Image Computing and Computer-Assisted Intervention - MICCAI 2007 - Part I, volume 4791 of LNCS, Brisbane, Australia, October 2007. Springer. Note: 1001 pages. [bibtex-entry]


  2. Nicholas Ayache, Sébastien Ourselin, and Anthony Maeder, editors. Medical Image Computing and Computer-Assisted Intervention - MICCAI 2007 - Part II, volume 4792 of LNCS, Brisbane, Australia, October 2007. Springer. Note: 977 pages. [bibtex-entry]


Thesis

  1. Sébastien Ourselin. Recalage d'images médicales par appariement de régions - Application à la construction d'atlas histologiques 3D. Thèse de sciences, Université de Nice Sophia-Antipolis, January 2002. Keyword(s): registration, matching, similarity measures, medical images, histology, autoradiography, robust estimation. [bibtex-entry]


Articles in journal, book chapters

  1. Georgios Lazaridis, Marco Lorenzi, Jibran Mohamed-Noriega, Soledad Aguilar-Munoa, Katsuyoshi Suzuki, Hiroki Nomoto, Sebastien Ourselin, David Garway-Heath, David Crabb, Catey Bunce, Francesca Amalfitano, Nitin Anand, Augusto Azuara-Blanco, Rupert Bourne, David Broadway, Ian Cunliffe, Jeremy Diamond, Scott Fraser, Tuan Ho, Keith Martin, Andrew Mcnaught, Anil Negi, Ameet Shah, Paul Spry, Edward White, Richard Wormald, Wen Xing, and Thierry Zeyen. OCT Signal Enhancement with Deep Learning. Ophthalmology Glaucoma, 4(3):295-304, May 2021. Keyword(s): Deep learning, Glaucoma, Image analysis, OCT, Visual fields. [bibtex-entry]


  2. Georgios Lazaridis, Marco Lorenzi, Sebastien Ourselin, and David Garway-Heath. Improving statistical power of glaucoma clinical trials using an ensemble of cyclical generative adversarial networks. Medical Image Analysis, 68:101906, February 2021. Keyword(s): Optical coherence tomography, Deep learning, Perceptual loss, GAN, Label fusion, Statistical power, Clinical trials, Glaucoma. [bibtex-entry]


  3. Claire Cury, Stanley Durrleman, David Cash, Marco Lorenzi, Jennifer M Nicholas, Martina Bocchetta, John C. van Swieten, Barbara Borroni, Daniela Galimberti, Mario Masellis, Maria Carmela Tartaglia, James Rowe, Caroline Graff, Fabrizio Tagliavini, Giovanni B. Frisoni, Robert Laforce, Elizabeth Finger, Alexandre de Mendonça, Sandro Sorbi, Sébastien Ourselin, Jonathan Rohrer, Marc Modat, Christin Andersson, Silvana Archetti, Andrea Arighi, Luisa Benussi, Sandra Black, Maura Cosseddu, Marie Fallstrm, Carlos G. Ferreira, Chiara Fenoglio, Nick Fox, Morris Freedman, Giorgio Fumagalli, Stefano Gazzina, Robert Ghidoni, Marina Grisoli, Vesna Jelic, Lize Jiskoot, Ron Keren, Gemma Lombardi, Carolina Maruta, Lieke Meeter, Rick van Minkelen, Benedetta Nacmias, Linn Ijerstedt, Alessandro Padovani, Jessica Panman, Michela Pievani, Cristina Polito, Enrico Premi, Sara Prioni, Rosa Rademakers, Veronica Redaelli, Ekaterina Rogaeva, Giacomina Rossi, Martin Rossor, Elio Scarpini, David Tang-Wai, Hakan Thonberg, Pietro Tiraboschi, Ana Verdelho, and Jason Warren. Spatiotemporal analysis for detection of pre-symptomatic shape changes in neurodegenerative diseases: Initial application to the GENFI cohort. NeuroImage, 188:282-290, March 2019. Keyword(s): Clustering, Thalamus, Spatiotemporal geodesic regression, Parallel transport, Computational anatomy, Shape analysis. [bibtex-entry]


  4. Marco Lorenzi, Andre Altmann, Boris Gutman, Selina Wray, Charles Arber, Derrek D Hibar, Neda J Jahanshad, Jonathan Schott, Daniel Alexander, Paul M. Thompson, and Sébastien Ourselin. Susceptibility of brain atrophy to TRIB3 in Alzheimer's disease, evidence from functional prioritization in imaging genetics. Proceedings of the National Academy of Sciences of the United States of America, 115(12):3162-3167, 2018. Keyword(s): bioinformatics, phenotype, imaging-genetics, Alzheimer's disease, genotype, GWA. [bibtex-entry]


  5. Marzia A Scelzi, Raiyan R Khan, Marco Lorenzi, Christopher Leigh, Michael D Greicius, Jonathan M. Schott, Sébastien Ourselin, and Andre Altmann. Genetic study of multimodal imaging Alzheimer's disease progression score implicates novel loci. Brain - A Journal of Neurology, 141(7):2167 - 2180, July 2018. [bibtex-entry]


  6. Marco Lorenzi, Maurizio Filippone, Giovanni Frisoni, Daniel C Alexander, and Sébastien Ourselin. Probabilistic disease progression modeling to characterize diagnostic uncertainty: application to staging and prediction in Alzheimer's disease. NeuroImage, October 2017. [bibtex-entry]


  7. Alex F. Mendelson, Maria A. Zuluaga, Marco Lorenzi, Brian F. Hutton, and Sébastien Ourselin. Selection bias in the reported performances of AD classification pipelines. Neuroimage-Clinical, 14:400 - 416, 2017. Keyword(s): Alzheimer's disease, Classification, Cross validation, Selection bias, Overfitting, ADNI. [bibtex-entry]


  8. David M. Cash, Chris Frost, Leonardo O. Iheme, Devrim Ünay, Melek Kandemir, Jurgen Fripp, Olivier Salvado, Pierrick Bourgeat, Martin Reuter, Bruce Fischl, Marco Lorenzi, Giovanni B. Frisoni, Xavier Pennec, Ronald K. Pierson, Jeffrey L. Gunter, Matthew L. Senjem, Clifford R. Jack, Nicolas Guizard, Vladimir S. Fonov, D. Louis Collins, Marc Modat, Jorge M. Cardoso, Kelvin K. Leung, Hongzhi Wang, Sandhitsu R. Das, Paul A. Yushkevich, Ian B. Malone, Nick C. Fox, Jonathan M. Schott, and Sebastien Ourselin. Assessing atrophy measurement techniques in dementia: Results from the MIRIAD atrophy challenge. NeuroImage, 123:149-164, December 2015. [bibtex-entry]


  9. Catalina Tobon-Gomez, Arjan J. Geers, Jochen Peters, Jürgen Weese, Karen Pinto, Rashed Karim, Mohammed Ammar, Abdelaziz Daoudi, Jan Margeta, Zulma Sandoval, Birgit Stender, Yefeng Zheng, Maria A Zuluaga, Julian Betancur, Nicholas Ayache, Mohammed Amine Chikh, Jean-Louis Dillenseger, Michael B. Kelm, Saïd Mahmoudi, Sébastien Ourselin, Alexander Schlaefer, Tobias Schaeffter, Reza Razavi, and Kawal S. Rhode. Benchmark for Algorithms Segmenting the Left Atrium From 3D CT and MRI Datasets. IEEE Transactions on Medical Imaging, 34(7):1460-1473, July 2015. Keyword(s): Benchmark testing, automatic segmentations, atrial fibrillation ablation guidance, anatomical regions, 3D CT datasets, Left Atrial Segmentation Challenge, left atrial surface, ground truth, image segmentation, LA appendage trunk, LASC, LA segmentation, left atrial anatomy, left atrium, Magnetic Resonance Imaging, Measurement, medical image processing, MRI datasets, multiple input data, physiological models, pulmonary vein proximal sections, region growing approach, Shape, standardisation framework, statistical analysis, statistical models, biomedical MRI, biophysical modelling, blood vessels, cardiovascular disease, cardiovascular system, Computed Tomography, computerised tomography, diseases, Educational institutions, electroanatomical mapping systems, evaluation code, fibrosis quantification. [bibtex-entry]


  10. Catalina Tobon-Gomez, Mathieu de Craene, Kristin Mcleod, Lennart Tautz, Wenzhe Shi, Anja Hennemuth, Adityo Prakosa, Hengui Wang, Gerald Carr-White, Sergio Kapetanakis, Albert Lutz, Vernon Rasche, Tobias Schaeffter, Constantin Butakoff, Oskar Friman, Tommaso Mansi, Maxime Sermesant, Xiahai Zhuang, Sébastien Ourselin, Hans Otto Peitgen, Xavier Pennec, Reza Razavi, Daniel Rueckert, Alejandro F. Frangi, and Kawal Rhode. Benchmarking framework for myocardial tracking and deformation algorithms: an open access database. Medical Image Analysis, 17(6):632-648, 2013. [bibtex-entry]


  11. Keelin Murphy, Bram van Ginneken, Joseph M. Reinhardt, Sven Kabus, Kai Ding, Xiang Deng, Kunlin Cao, Kaifang Du, Gary E. Christensen, Vincent Garcia, Tom Vercauteren, Nicholas Ayache, Olivier Commowick, Gregoire Malandain, Ben Glocker, Nikos Paragios, Nassir Navab, Vladlena Gorbunova, Jon Sporring, Marleen de Bruijne, Xiao Han, Mattias P. Heinrich, Julia A. Schnabel, Mark Jenkinson, Cristian Lorenz, Marc Modat, Jamie R. McClelland, Sebastien Ourselin, Sascha E.A. Muenzing, Max A. Viergever, Dante De Nigris, D. Louis Collins, Tal Arbel, Marta Peroni, Rui Li, Gregory C. Sharp, Alexander Schmidt-Richberg, Jan Ehrhardt, Rene Werner, Dirk Smeets, Dirk Loeckx, Gang Song, Nicholas Tustison, Brian Avants, James C. Gee, Marius Staring, Stefan Klein, Berend C. Stoel, Martin Urschler, Manuel Werlberger, Jef Vandemeulebroucke, Simon Rit, David Sarrut, and Josien P.W. Pluim. Evaluation of registration methods on thoracic CT: the EMPIRE10 challenge. IEEE Trans Med Imaging, 30(11):1901-20, November 2011. [Abstract] [bibtex-entry]


  12. Jérôme Yelnik, Eric Bardinet, Didier Dormont, Grégoire Malandain, Sébastien Ourselin, Dominique Tandé, Carine Karachi, Nicholas Ayache, Philippe Cornu, and Yves Agid. A three-dimensional, histological and deformable atlas of the human basal ganglia. I. Atlas construction based on immunohistochemical and MRI data. NeuroImage, 34(2):618-38, January 2007. [Abstract] [bibtex-entry]


  13. S. Prima, S. Ourselin, and N. Ayache. Computation of the Mid-Sagittal Plane in 3D Brain Images. IEEE Transactions on Medical Imaging, 21(2):122-138, February 2002. Keyword(s): registration, matching. [bibtex-entry]


  14. Sébastien Ourselin, Alexis Roche, Gérard Subsol, Xavier Pennec, and Nicholas Ayache. Reconstructing a 3D Structure from Serial Histological Sections. Image and Vision Computing, 19(1-2):25-31, January 2001. Keyword(s): registration, matching, histology. [bibtex-entry]


  15. S. Ourselin, C. Sattonnet, A. Roche, and G. Subsol. Automatic alignement of histological sections for 3D reconstruction and analysis. Analytical Cellular Pathology, 18(3):123, 1999. Note: Abstracts of the 1999 Annual Meeting of the Association Française de Cytométrie, Dijon, 12-15 October 1999. Keyword(s): registration, matching, histology, MRI. [bibtex-entry]


Conference articles

  1. Yann Fraboni, Lucia Innocenti, Michela Antonelli, Richard Vidal, Laetitia Kameni, Sebastien Ourselin, and Marco Lorenzi. Validation of Federated Unlearning on Collaborative Prostate Segmentation. In DECAF MICCAI 2023 Workshops, volume 14393 of Lecture Notes in Computer Science, Toronto, Canada, pages 322-333, October 2023. Medical Image Computing and Computer Assisted Intervention, Springer Nature Switzerland. Keyword(s): federated unlearning, prostate cancer, segmentation, Medical imaging. [bibtex-entry]


  2. Lucia Innocenti, Michela Antonelli, Francesco Cremonesi, Kenaan Sarhan, Alejandro Granados, Vicky Goh, Sebastien Ourselin, and Marco Lorenzi. Benchmarking Collaborative Learning Methods Cost-Effectiveness for Prostate Segmentation. In ECML - PharML - Applications of Machine Learning in Pharma and Healthcare (Workshop at ECML PKDD 2023), Turin (IT), Italy, September 2023. arXiv. Note: Workshop at ECML PKDD 2023. Keyword(s): Collaborative Learning, Cost-Effectiveness, Prostate Segmentation. [bibtex-entry]


  3. Georgios Lazaridis, Marco Lorenzi, Sebastien Ourselin, and David Garway-Heath. Enhancing OCT Signal by Fusion of GANs: Improving Statistical Power of Glaucoma Clinical Trials. In MICAI 2019 - 22nd International Conference on Medical Image Computing and Computer-Assisted Intervention, volume LNCS. LNIP - 11764 of Medical Image Computing and Computer Assisted Intervention -- MICCAI 2019, Shenzhen, China, pages 3-11, October 2019. Springer International Publishing. [bibtex-entry]


  4. Eric Bardinet, Sébastien Ourselin, Didier Dormont, Grégoire Malandain, Dominique Tandé, Karine Parain, Nicholas Ayache, and Jérôme Yelnik. Co-registration of histological, optical and MR data of the human brain. In Takeyoshi Dohi and Ron Kikinis, editors, Medical Image Computing and Computer-Assisted Intervention (MICCAI'02), volume 2488 of LNCS, Tokyo, pages 548-555, September 2002. Springer. Keyword(s): registration, human brain atlas, histology, MRI. [bibtex-entry]


  5. Eric Bardinet, Sébastien Ourselin, Grégoire Malandain, Dominique Tandé, Karine Parain, Nicholas Ayache, and Jérôme Yelnik. Three dimensional functional cartography of the human basal ganglia by registration of optical and histological serial sections. In IEEE International Symposium on Biomedical Imaging, Washington, USA, pages 329-332, 2002. Keyword(s): registration, human brain atlas, histology, MRI. [bibtex-entry]


  6. Sébastien Ourselin, Radu Stefanescu, and Xavier Pennec. Robust registration of multi-modal images: towards real-time clinical applications. In Takeyoshi Dohi and Ron Kikinis, editors, Medical Image Computing and Computer-Assisted Intervention (MICCAI'02), volume 2489 of LNCS, Tokyo, pages 140-147, September 2002. Springer. Note: A preliminary version appeared as INRIA RR-4333. Keyword(s): parallelism, robust estimation, registration, matching. [bibtex-entry]


  7. Jérôme Yelnik, Eric Bardinet, Didier Dormont, Chantal François, Dominique Tandé, Karine Parain, Sébastien Ourselin, Grégoire Malandain, Nicholas Ayache, and Etienne Hirsch. Elaboration of a three-dimensional, functional and registrable atlas of the human basal ganglia. In 3rd Forum of European Neuroscience, Paris, July 2002. The Federation of European Neuroscience Societies (FENS). Keyword(s): registration, human brain atlas, histology, MRI. [bibtex-entry]


  8. E. Bardinet, A.C.F Colchester, A. Roche, Y. Zhu, Y. He, S. Ourselin, B. Nailon, S.A. Hojjat, J. Ironside, S. Al-Sarraj, N. Ayache, and J. Wardlaw. Registration of Reconstructed Post Mortem Optical Data with MR Scans of the Same Patient. In W.J. Niessen and M.A. Viergever, editors, 4th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention (MICCAI'01), volume 2208 of LNCS, Utrecht, The Netherlands, pages 957-965, October 2001. Keyword(s): registration, matching, histology. [bibtex-entry]


  9. H. Delingette, E. Bardinet, D. Rey, J-D. Lemarechal, J. Montagnat, S. Ourselin, A. Roche, D. Dormont, J. Yelnik, and N. Ayache. YAV++: a Software Platform for Medical Image Processing and Visualization. In Workshop on Interactive Medical Image Visualization and Analysis satellite symposia of MICCAI, IMIVA'01, Utrecht, The Netherlands, October 2001. [bibtex-entry]


  10. S. Ourselin, E. Bardinet, D. Dormont, G. Malandain, A. Roche, N. Ayache, D. Tandé, K. Parain, and J. Yelnik. Fusion of histological sections and MR images: towards the construction of an atlas of the human basal ganglia. In W.J. Niessen and M.A. Viergever, editors, 4th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention (MICCAI'01), volume 2208 of LNCS, Utrecht, The Netherlands, pages 743-751, October 2001. Keyword(s): registration, matching, human brain atlas, histology, MRI. [bibtex-entry]


  11. A. C. F. Colchester, S. Ourselin, Y. Zhu, E. Bardinet, Y. He, A. Roche, S. Al-Sarraj, B. Nailon, J. Ironside, and N. Ayache. 3-D Reconstruction of Macroscopic Optical Brain Slice Images. In A.M. DiGioia and S. Delp, editors, Third International Conference on Medical Robotics, Imaging And Computer Assisted Surgery (MICCAI 2000), volume 1935 of Lectures Notes in Computer Science, Pittsburgh, Pennsylvanie USA, octobre 11-14 2000. Springer. Keyword(s): registration, matching, histology, MRI. [bibtex-entry]


  12. S. Ourselin, A. Roche, S. Prima, and N. Ayache. Block Matching: A General Framework to Improve Robustness of Rigid Registration of Medical Images. In A.M. DiGioia and S. Delp, editors, Third International Conference on Medical Robotics, Imaging And Computer Assisted Surgery (MICCAI 2000), volume 1935 of Lectures Notes in Computer Science, Pittsburgh, Penn, USA, pages 557-566, octobre 11-14 2000. Springer. Keyword(s): registration, matching, histology, MRI. [bibtex-entry]


  13. S. Prima, S. Ourselin, and N. Ayache. Computation of the Mid-Sagittal Plane in 3D Images of the Brain. In D. Vernon, editor, Sixth European Conference on Computer Vision, ECCV'2000, volume 1842-3 of Lecture Notes in Computer Science, Dublin, Irlande, pages 685-701, June/July 2000. Springer. Note: Http://www.inria.fr/rrrt/RR-3841.html. [bibtex-entry]


  14. A. Roche, X. Pennec, M. Rudolph, D. P. Auer, G. Malandain, S. Ourselin, L. M. Auer, and N. Ayache. Generalized Correlation Ratio for Rigid Registration of 3D Ultrasound with MR Images. In A.M. DiGioia and S. Delp, editors, Proc. of the 3rd Int. Conf. on Medical Image Computing and Computer-Assisted Intervention (MICCAI'00), volume 1935 of LNCS, Pittsburgh, Pennsylvanie, USA, pages 567-577, October 11-14 2000. Note: Published in IEEE TMI 20(10), oct. 2001, p. 25-31. Keyword(s): registration, matching, multimodal, magnetic resonance, ultrasound, correlation ratio. [bibtex-entry]


  15. Sébastien Ourselin, Alexis Roche, Gérard Subsol, and Xavier Pennec. Automatic Alignment of Histological Sections. In F. Pernus, S. Kovacic, H.S. Stiehl, and M.A. Viergever, editors, International Workshop on Biomedical Image Registration, WBIR'99, Bled (Slovénie), pages 1-13, August 1999. Keyword(s): registration, matching, histology. [bibtex-entry]


Internal reports

  1. Sébastien Ourselin, Xavier Pennec, Radu Stefanescu, Grégoire Malandain, and Nicholas Ayache. Robust Registration of Multi-Modal Medical Images: Towards Real-Time Clinical Applications. Research report RR-4333, INRIA, 2001. Keyword(s): registration, matching, real time, parallelism, magnetic resonance. [bibtex-entry]


  2. Alexis Roche, Xavier Pennec, Grégoire Malandain, Nicholas Ayache, and Sébastien Ourselin. Generalized Correlation Ratio for Rigid Registration of 3D Ultrasound with MR Images. Research report RR-3980, INRIA, July 2000. Note: Published in IEEE TMI 20(10), oct. 2001, p. 25-31. Keyword(s): registration, matching, multimodal, magnetic resonance, ultrasound, correlation ratio. [bibtex-entry]


  3. S. Prima, S. Ourselin, and N. Ayache. Computation of symmetry planes in 3D medical images. Research report RR-3841, INRIA, December 1999. [bibtex-entry]


  4. Sébastien Ourselin, Alexis Roche, Gérard Subsol, Xavier Pennec, and Christophe Sattonnet. Automatic Alignment of Histological Sections for 3D Reconstruction and Analysis. Research report RR-3595, INRIA, December 1998. Keyword(s): registration, histology. [bibtex-entry]


Miscellaneous

  1. Claire Cury, Stanley Durrleman, David M. Cash, Marco Lorenzi, Jennifer M Nicholas, Martina Bocchetta, John Cornelis van Swieten, Barbara Borroni, Daniela Galimberti, Mario Masellis, Maria Carmela Tartaglia, James Rowe, Caroline Graff, Fabrizio Tagliavini, Giovanni B. Frisoni, Robert Laforce, Elizabeth Finger, Alexandre de Mendonça, Sandro Sorbi, Sébastien Ourselin, Jonathan D Rohrer, and Marc M Modat. Spatiotemporal analysis for detection of pre-symptomatic shape changes in neurodegenerative diseases: applied to GENFI study. Note: Working paper or preprint, August 2018. Keyword(s): LDDMM, Frontotemporal Dementia, Shape Analysis, Genfi, Thalamus, Spatio temporal analysis, Morphometry. [bibtex-entry]


  2. S. Ourselin. Alignement automatique de coupes histologiques pour la reconstruction et l'analyse tridimensionnelles. Rapport de D.E.A., université de Nice / Sophia Antipolis, 1998. [bibtex-entry]


  3. G. Subsol, J. Montagnat, S. Ourselin, and L. Soler. Algorithmes de traitement d'images tridimensionnelles pour des applications pharmaceutiques, 1998. Note: Étude de faisabilité. [bibtex-entry]



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