Miscellaneous

1. Yanis Aeschlimann, Anna Calissano, Andreas Abildtrup Hansen, Théodore Papadopoulo, and Samuel Deslauriers-Gauthier. Graph matching of structural and functional brain networks. Note: Working paper or preprint, January 2024. Keyword(s): Brain connectivity, Structure-Function, Graph matching, Brain Network. [bibtex-entry]

1. Andreas Abildtrup Hansen, Yanis Aeschlimann, Samuel Deslauriers-Gauthier, and Anna Calissano. Permutation equivariant structure-function mapping. 2023 Annual Meeting of the Organization for Human Brain Mapping, July 2023. Note: Poster. [bibtex-entry]



2. Yanis Aeschlimann, Anna Calissano, Samuel Deslauriers-Gauthier, Théodore Papadopoulo, and Andreas Hansen. Preliminary results on the graph matching of structural and functional brain networks. Neuromod Yearly Meeting 2023, June 2023. Note: Poster. Keyword(s): brain networks, structural connectivity, functional connectivity, brain atlas, network alignment. [bibtex-entry]



3. Anna Calissano, Théodore Papadopoulo, Xavier Pennec, and Samuel Deslauriers-Gauthier. Graph Matching improves the Similarity of Structural Brain Networks. OHBM 2023 - Organization for Human Brain Mapping, July 2023. Note: Poster. Keyword(s): Brain network, Network alignment, diffusion MRI. [bibtex-entry]



4. Morten Akhoj, James Benn, Erlend Grong, Stefan Sommer, and Xavier Pennec. Principal subbundles for dimension reduction. Note: Working paper or preprint, July 2023. [bibtex-entry]



5. Safaa Al-Ali, John Chaussard, Sébastien Li-Thiao-Té, Éric Ogier-Denis, Alice Percy-Du-Sert, Xavier Treton, and Hatem Zaag. Detection of ulcerative colitis lesions from weakly annotated colonoscopy videos using bounding boxes. Note: Working paper or preprint, November 2023. [bibtex-entry]



6. Irene Balelli, Aude Sportisse, Francesco Cremonesi, Pierre-Alexandre Mattei, and Marco Lorenzi. Fed-MIWAE: Federated Imputation of Incomplete Data via Deep Generative Models. Note: Working paper or preprint, 2023. Keyword(s): Missing data, Federated learning, Federated pre-processing, Variational autoencoders, Deep Learning. [bibtex-entry]



7. James Benn and Stephen Marsland. Towards a BCH Formula on the Diffeomorphism Group with a Right-Invariant Metric. Note: Working paper or preprint, December 2023. [bibtex-entry]



8. Blanche Buet and Xavier Pennec. Flagfolds. Note: Working paper or preprint, 2023. [bibtex-entry]



9. Francesco Cremonesi, Marc Vesin, Sergen Cansiz, Yannick Bouillard, Irene Balelli, Lucia Innocenti, Santiago Silva, Samy-Safwan Ayed, Riccardo Taiello, Laetita Kameni, Richard Vidal, Fanny Orlhac, Christophe Nioche, Nathan Lapel, Bastien Houis, Romain Modzelewski, Olivier Humbert, Melek Önen, and Marco Lorenzi. Fed-BioMed: Open, Transparent and Trusted Federated Learning for Real-world Healthcare Applications. Note: Working paper or preprint, April 2023. Keyword(s): Machine learning, Biomedical Application, Healthcare, Federated Learning Framework. [bibtex-entry]



10. Yann Fraboni, Richard Vidal, Laetitia Kameni, and Marco Lorenzi. Sequential Informed Federated Unlearning: Efficient and Provable Client Unlearning in Federated Optimization. Note: Working paper or preprint, January 2023. [bibtex-entry]



11. Dimbihery Rabenoro and Xavier Pennec. The geometry of Riemannian submersions from compact Lie groups. Application to flag manifolds. Note: Working paper or preprint, October 2023. [bibtex-entry]



12. Tom Szwagier and Xavier Pennec. Stratified principal component analysis. Note: Working paper or preprint, November 2023. Keyword(s): Covariance model, Eigenvalue multiplicity, Flag manifold, Parsimony, Probabilistic principal component analysis, Stratification. [bibtex-entry]



13. Yann Thanwerdas. Permutation-invariant log-Euclidean geometries on full-rank correlation matrices. Note: Working paper or preprint, November 2023. Keyword(s): SPD matrices, elliptope, correlation matrices, log-Euclidean metric, permutationinvariant, cor-inversion, off-log metric, log-scaled metric, quotient-affine metric AMS subject classifications.. [bibtex-entry]

1. Francisco J Burgos-Fernandez, Buntheng Ly, Fernando Dìaz-Doutón, Meritxell Vilaseca, Jaume Pujol, and Maxime Sermesant. Deep learning for eye fundus diagnosis based on multispectral imaging. ARVO 2022 - Annual meeting of the Association for Research in Vision and Ophthalmology, May 2022. Note: Poster. [bibtex-entry]



2. Elodie Maignant, Xavier Pennec, and Alain Trouvé. Looking for invariance in Locally Linear Embedding. Curves and Surfaces 2022, June 2022. Note: Poster. Keyword(s): Locally linear embedding. [bibtex-entry]



3. James Benn, Anna Calissano, Stephen Marsland, and Xavier Pennec. The Currents Space of Graphs. Note: Working paper or preprint, December 2022. [bibtex-entry]



4. Dimbihery Rabenoro and Xavier Pennec. A geometric framework for asymptotic inference of principal subspaces in PCA. Note: Working paper or preprint, November 2022. [bibtex-entry]

1. Anna Calissano, Aasa Feragen, and Simone Vantini. Graph-Valued Models for Dimensionality Reduction and Regression. JSM 2021 - Joint Statistical Meeting, August 2021. [bibtex-entry]



2. Luigi Antelmi, Nicholas Ayache, Philippe Robert, Federica Ribaldi, Valentina Garibotto, Giovanni B Frisoni, and Marco Lorenzi. Combining Multi-Task Learning and Multi-Channel Variational Auto-Encoders to Exploit Datasets with Missing Observations -Application to Multi-Modal Neuroimaging Studies in Dementia. Note: Working paper or preprint, May 2021. Keyword(s): Multi Task Learning, Missing Data, Variational Autoencoders, Multimodal Data Analysis, OPAL-Meso. [bibtex-entry]



3. Nina Miolane, Matteo Caorsi, Umberto Lupo, Marius Guerard, Nicolas Guigui, Johan Mathe, Yann Cabanes, Wojciech Reise, Thomas Davies, António Leitão, Somesh Mohapatra, Saiteja Utpala, Shailja Shailja, Gabriele Corso, Guoxi Liu, Federico Iuricich, Andrei Manolache, Mihaela Nistor, Matei Bejan, Armand Mihai Nicolicioiu, Bogdan-Alexandru Luchian, Mihai-Sorin Stupariu, Florent Michel, Khanh Dao Duc, Bilal Abdulrahman, Maxim Beketov, Elodie Maignant, Zhiyuan Liu, Marek Cerny, Martin Bauw, Santiago Velasco-Forero, Jesus Angulo, and Yanan Long. ICLR 2021 Challenge for Computational Geometry & Topology: Design and Results. Note: Working paper or preprint, December 2021. [bibtex-entry]



4. Talia Nir, Jean-Paul Fouche, Jintanat Ananworanich, Beau Ances, Jasmina Boban, Bruce Brew, Linda Chang, Joga Chaganti, Christopher R.K. Ching, Lucette Cysique, Thomas Ernst, Joshua Faskowitz, Vikash Gupta, Jaroslaw Harezlak, Jodi Heaps-Woodruff, Charles Hinkin, Jacqueline Hoare, John Joska, Kalpana Kallianpur, Taylor Kuhn, Hei Lam, Meng Law, Christine Lebrun-Frenay, Andrew Levine, Lydiane Mondot, Beau Nakamoto, Bradford Navia, Xavier Pennec, Eric Porges, Cecilia Shikuma, April Thames, Victor Valcour, Matteo Vassallo, Adam Woods, Paul Thompson, Ronald Cohen, Robert Paul, Dan Stein, and Neda Jahanshad. Smaller limbic structures are associated with greater immunosuppression in over 1000 HIV-infected adults across five continents: Findings from the ENIGMA-HIV Working Group. Note: Working paper or preprint, January 2021. [bibtex-entry]



5. Zihao Wang and Hervé Delingette. Attention for Image Registration (AiR): an unsupervised Transformer approach. Note: Working paper or preprint, May 2021. Keyword(s): Transformer, Images Registration, Deep Learning. [bibtex-entry]



6. Zihao Wang and Hervé Delingette. Quasi-Symplectic Langevin Variational Autoencoder. Note: Working paper or preprint, June 2021. [bibtex-entry]

1. Zihao Wang, Zhifei Xu, Jiayi He, Hervé Delingette, and Jun Fan. Long Short-Term Memory Neural Equalizer. Note: Working paper or preprint, November 2020. Keyword(s): decision feedback equalizer, neuromorphic computing, deep learning, LSTM. [bibtex-entry]

1. Valeria Manera, Luigi Antelmi, Radia Zeghari, Nicholas Ayache, Marco Lorenzi, and Philippe Robert. Prevalence of lack of interest and anhedonia in the general population of the UK Biobank. AAIC 2019 - Alzheimer's Association International Conference, July 2019. Note: Poster. [bibtex-entry]



2. Radia Zeghari, Philippe Robert, Valeria Manera, Marco Lorenzi, and Alexandra König. Towards a Multidimensional Assessment of Apathy in Neurocognitive Disorders. AAIC 2019 - Alzheimer's Association International Conference, July 2019. Note: Poster. [bibtex-entry]



3. Nina Miolane, Johan Mathe, Claire Donnat, Mikael Jorda, and Xavier Pennec. geomstats: a Python Package for Riemannian Geometry in Machine Learning. Note: Preprint NIPS2018, January 2019. [bibtex-entry]



4. Xavier Pennec. Curvature effects on the empirical mean in Riemannian and affine Manifolds: a non-asymptotic high concentration expansion in the small-sample regime. Note: Working paper or preprint, June 2019. Keyword(s): empirical mean, affine connection manifold, Fréchet means, Riemannian manifold, curvature, non-asymptotic estimation. [bibtex-entry]

1. Clement Abi Nader, Nicholas Ayache, Valeria Manera, Philippe Robert, and Marco Lorenzi. Disentangling spatio-temporal patterns of brain changes in large-scale brain imaging databases through Independent Gaussian Process Analysis. 12ème Conférence Francophone d'Epidémiologie Clinique (EPICLIN) et 25èmes Journées des statisticiens des Centre de Lutte Contre le Cancer (CLCC), May 2018. Note: Poster. Keyword(s): Gaussian Process, Statistical Learning. [bibtex-entry]



2. Luigi Antelmi, Nicholas Ayache, Philippe Robert, and Marco Lorenzi. Supplementary Material of the paper: ''Multi-Channel Stochastic Variational Inference for the Joint Analysis of Heterogeneous Biomedical Data in Alzheimer's Disease'', July 2018. Note: Supplementary Material of the paper: ''Multi-Channel Stochastic Variational Inference for the Joint Analysis of Heterogeneous Biomedical Data in Alzheimer's Disease''. Paper accepted at the 1st International Workshop on Machine Learning in Clinical Neuroimaging, in conjunction with MICCAI 2018, September 20, Granada (Spain). [bibtex-entry]



3. Luigi Antelmi, Marco Lorenzi, Valeria Manera, Philippe Robert, and Nicholas Ayache. A method for statistical learning in large databases of heterogeneous imaging, cognitive and behavioral data.. EPICLIN 2018 - 12ème Conférence Francophone d'Epidémiologie Clinique / CLCC 2018 - 25èmes Journées des statisticiens des Centre de Lutte Contre le Cancer, May 2018. Note: Poster. Keyword(s): CCA, Statistical learning. [bibtex-entry]



4. Marco Lorenzi and Hélène Barelli. Blood Levels of Omega 3 and 6 across the Progression of Alzheimer's Disease. Alzheimer's Association International Conference (AAIC), 2018. Note: Poster. [bibtex-entry]



5. Clement Abi Nader, Nicholas Ayache, Philippe Robert, and Marco Lorenzi. Appendix Alzheimer's Disease Modelling and Staging through Independent Gaussian Process Analysis of Spatio-Temporal Brain Changes, July 2018. Note: Appendix. [bibtex-entry]



6. 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]



7. Xavier Pennec. Parallel Transport with Pole Ladder: a Third Order Scheme in Affine Connection Spaces which is Exact in Affine Symmetric Spaces. Note: Working paper or preprint, May 2018. Keyword(s): parallel transport, pole ladder, symmetric space, numerical approximation, affine connection space. [bibtex-entry]



8. Qiao Zheng, Hervé Delingette, Nicolas Duchateau, and Nicholas Ayache. 3D Consistent Biventricular Myocardial Segmentation Using Deep Learning for Mesh Generation. Note: Working paper or preprint, March 2018. Keyword(s): spatial consistency, convolutional neu- ral network, deep learning, myocardial segmentation, propagation. [bibtex-entry]

1. Léo Guignard, Ulla-Maj Fiuza, Bruno Leggio, Emmanuel Faure, Julien Laussu, Lars Hufnagel, Grégoire Malandain, Christophe Godin, and Patrick Lemaire. Contact-dependent cell communications drive morphological invariance during ascidian embryogenesis, December 2017. Note: BioRxiv preprint first posted online Dec. 24, 2017; doi: http://dx.doi.org/10.1101/238741. The copyright holder for this preprint (which was not peer-reviewed) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC 4.0 International license. [bibtex-entry]

1. Nicholas Ayache. Le patient numérique personnalisé : une révolution, April 2016. Note: Article publié par l'Académie des Sciences dans l'Humanité. [bibtex-entry]



2. Nina Miolane, Xavier Pennec, and Susan Holmes. Towards a unified bayesian geometric framework for template estimation in Computational Anatomy. International Society of Bayesian Analysis: World Meeting, June 2016. Note: Poster. Keyword(s): template, shape, manifold, estimation, medical imaging. [bibtex-entry]

1. Jan L. Bruse, Kristin Mcleod, Giovanni Biglino, Tain-Yen Hsia, Xavier Pennec, Maxime Sermesant, Andrew M. Taylor, and Silvia Schievano. A Statistical Shape Atlas of the Surgically Reconstructed Aortic Arch in Patients With Hypoplastic Left Heart Syndrome. 7th World Congress of Biomechanics, Boston 2014, July 2014. Note: Poster. [bibtex-entry]



2. Loic Le Folgoc, Hervé Delingette, Antonio Criminisi, and Nicholas Ayache. Technical Appendix on Sparse Bayesian Regression. MICCAI - 17th International Conference on Medical Image Computing and Computer Assisted Intervention, September 2014. Note: Technical appendix to a MICCAI 2014 conference paper. Loïc Le Folgoc, Hervé Delingette, Antonio Criminisi, and Nicholas Ayache: Sparse Bayesian Registration. Keyword(s): Sparse, Bayesian, Regression, RVM. [bibtex-entry]



3. Adrien Sportes, Anant Vemuri, Stéphane Nicolau, Jerome Huppertz, Luc Soler, and Michel Delvaux. Development Of A Prototype Of Video Synchronisation For Relocalization Of Biopsy Sites During Endoscopic Evaluation Of Barrett's Oesophagus: Preliminary Experimental And Clinical Study. United European Gastroenterology (UEG) Week, 2014. Note: Poster. Keyword(s): Barrett Oesophagus, Gastroscopy, Relocalization. [bibtex-entry]



4. A Sportes, Anant S. Vemuri, Stéphane Nicolau, J Huppertz, L Soler, and M Delvaux. Développement d'un système de relocalisation endoscopique de sites de biopsie dans le suivi de l'endobrachyoesophage : Résultats préliminaires d'un prototype de synchronisation video. Société Nationale Française de Gastro-Entérologie, 2014. Note: Poster. Keyword(s): Electromagnetic tracking, Surgical navigation, Gastrointestinal endoscopy. [bibtex-entry]



5. Clair Vandersteen, Thomas Demarcy, Hervé Delingette, Charles Raffaelli, Jonathan Laudanski, Thierry Pourcher, Jacques Darcourt, Philippe Franken, Dan Gnansia, Nicholas Ayache, and Nicolas Guevara. Teaching tool for advanced visualization of temporal bone structures by fusion of $\mu$CT and CT scan images. 8th International Symposium on Objective Measures in Auditory Implants, October 2014. Note: Poster. [bibtex-entry]

1. Nina Miolane. Defining a mean on Lie group. Master's thesis, Imperial College London, September 2013. Keyword(s): Lie group. [bibtex-entry]



2. Hervé Delingette, Polina Golland, and Kensaku Mori. Editorial for the MEDIA special issue on MICCAI 2012, 2013. Note: Editorial of the Medical Image Analysis journal 17 (2013) 711. [bibtex-entry]

1. Barbara André, Tom Vercauteren, Anna M. Buchner, Murli Krishna, Nicholas Ayache, and Michael B. Wallace. Comparison of a Classification Software based on Image Retrieval with the Off-Line Diagnosis of Expert Endoscopists for probe-based Confocal Laser Endomicroscopy (pCLE) of Colorectal Polyps. Gastrointestinal Endoscopy (DDW 2012), 2012. Note: In press. [bibtex-entry]



2. Barbara André, Tom Vercauteren, Anna M. Buchner, Michael B. Wallace, and Nicholas Ayache. Image-based Semantic Learning Software for Automatic Detection of Discriminative Criteria used for probe-based Confocal Laser Endomicroscopy (pCLE) Diagnosis of Colorectal Polyps. Gastrointestinal Endoscopy (DDW 2012), 2012. Note: In press. [bibtex-entry]



3. Marine Breuilly, Grégoire Malandain, Nicholas Ayache, Jacques Darcourt, Thierry Pourcher, and Philippe Franken. Simulated breath-hold reconstruction in micro-SPECT: Application to peritoneal metastases expressing NIS as reporter gene, 2012. [bibtex-entry]



4. Marine Breuilly, Grégoire Malandain, Nicholas Ayache, Philippe Franken, Jacques Darcourt, and Thierry Pourcher. Simulated breath-hold reconstruction in micro-SPECT: application to peritoneal metastases expressing NIS as reporter gene. 2nd second Molecular Imaging in Biology and Oncology (MIBO) workshop (MIBO2012), Nice, January 2012. [bibtex-entry]



5. Marine Breuilly, Grégoire Malandain, Jacques Darcourt, Thierry Pourcher, and Philippe Franken. Prise en compte du mouvement respiratoire du petit animal pour la reconstruction 3D TEMP synchronisée : application aux métastases péritonéales, 2012. Note: 50e colloque de Médecine Nucléaire de Langue Françcaise. ISSN: 0928-1258. [bibtex-entry]



6. Vikash Gupta, Nicholas Ayache, and Xavier Pennec. Towards higher resolution analysis of Clinical Brain Diffusion Images. 1st International Symposium on Deep Brain Connectomics, Clermon-Ferrand, France, September 2012. [bibtex-entry]



7. Marco Lorenzi, Nicholas Ayache, Xavier Pennec, Giovanni B. Frisoni, and for the Alzheimer's Disease Neuroimaging Initiative (ADNI). Differentiating pathological brain atrophy from normal aging: a promising diagnostic tool for Alzheimer's disease. 2nd Virtual Physiological Human European Conference (VPH2012), London, September 2012. [bibtex-entry]



8. Marco Lorenzi, Nicholas Ayache, Xavier Pennec, Giovanni B. Frisoni, and for the Alzheimer's Disease Neuroimaging Initiative (ADNI). Disentangling the normal aging from the pathological Alzheimer's disease progression on structural MR images. 5th Clinical Trials in Alzheimer's Disease (CTAD'12), Monte Carlo, October 2012. [bibtex-entry]



9. Xavier Pennec and the MICCAI Workshops / Challenges / Tutorials Organizers. Proceedings of the MICCAI 2012 Workshops, Challenges and Tutorials. USB key distributed to 967 participants, October 2012. Note: 4080 pages. [bibtex-entry]

1. Barbara André, Tom Vercauteren, Anna M. Buchner, Muhammad Waseem Shahid, Michael B. Wallace, and Nicholas Ayache. Toward a structured training system for probe-based Confocal Laser Endomicroscopy (pCLE) on Barrett's Esophagus: a video retrieval approach to estimate diagnosis difficulty. Gastroenterology (DDW 2011), 2011. [bibtex-entry]



2. Michel Dojat, Mélanie Pélégrini-Issac, Farooq Ahmad, Christian Barillot, Bénédicte Batrancourt, Alban Gaignard, Bernard Gibaud, Pascal Girard, David Godard, Gilles Kassel, Diane Lingrand, Grégoire Malandain, Franck Michel, Johan Montagnat, Xavier Pennec, Javier Balderrama, and Bacem Wali. NeuroLOG: A framework for the sharing and reuse of distributed tools and data in neuroimaging. 17th Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 26-30, 2011. [bibtex-entry]

1. Barbara André, Tom Vercauteren, Anna M. Buchner, Michael B. Wallace, and Nicholas Ayache. Endomicroscopic Video Retrieval Approach to Support Diagnostic Differentiation Between Neoplastic and Non-Neoplastic Colonic Polyps. Gastroenterology (DDW 2010), May 2010. [bibtex-entry]



2. Benoît Bleuzé, Olivier Clatz, Pierre Fillard, Maxime Sermesant, Nicolas Toussaint, and Julien Wintz. Horizontal Data Fusion for Integrative Modelling: the MedINRIA Fusion Toolbox. First VPH Conference (VPH2010), Brussels), September 2010. Note: Abstract. [bibtex-entry]



3. Marine Breuilly, Grégoire Malandain, Nicholas Ayache, Philippe Franken, Jacques Darcourt, and Thierry Pourcher. Definition of motionless phases for monitoring gated reconstruction of SPECT images in alive mice. ICVSS 2010, July 2010. [bibtex-entry]



4. Mikael Cohen, Christine Lebrun, Dominique Aufauvre, Stéphane Chanalet, Christelle Filleau, William Camu, Pierre Thomas, Grégoire Malandain, and Pierre Clavelou. Longitudinal MRI assessment of quality of life and disability in early treated relapsing remitting multiple sclerosis. American Academy of Neurology Annual Meeting, April 2010. Keyword(s): multiple sclerosis. [bibtex-entry]



5. I. L. Dryden, Xavier Pennec, and Jean-Marc Peyrat. Power Euclidean metrics for covariance matrices with application to diffusion tensor imaging. ArXiv e-prints, September 2010. [bibtex-entry]



6. Marco Lorenzi, Michael Donohue, Donata Paternico, Cristina Scarpazza, Susanne Ostrowitzki, Olivier Blin, Elaine Irving, and G. Frisoni. Enrichment through biomarkers in clinical trials of Alzheimer's drugs in patients with mild cognitive impairment. Clinical Trials on Alzheimer's Disease International Conference, November 2010. [bibtex-entry]



7. Marco Lorenzi, G. Frisoni, Nicholas Ayache, and Xavier Pennec. Mapping longitudinal changes in the brain affected by Alzheimer's disease. First VPH Conference (VPH2010), Brussels), September 2010. [bibtex-entry]



8. Kristin McLeod, Tommaso Mansi, Stanley Durrleman, Maxime Sermesant, and Xavier Pennec. Statistical Analysis of the Anatomy: From Digital Patient to Digital Population. First VPH Conference (VPH2010), Brussels), September 2010. Note: Abstract. [bibtex-entry]



9. Liliane Ramus, Souha Aouadi, Yoann Pointreau, Guillaume Bera, Yungan Tao, Anne Beaudré, Vincent Grégoire, and Grégoire Malandain. Design and use of patient-specific atlases for radiotherapy planning of the head and neck region. Acts of the 29th European Society for Therapeutic Radiology and Oncology (ESTRO), 2010. [bibtex-entry]



10. Jatin Relan, Maxime Sermesant, Phani Chinchapatnam, Hervé Delingette, Kawal Rhode, Reza Razavi, and Nicholas Ayache. Personalisation of a 3D Macroscopic Cardiac Electrophysiology Model for Simulation of Induced Ischemic Ventricular Tachycardia. First VPH Conference (VPH2010), Brussels), September 2010. [bibtex-entry]



11. Christof Seiler, A. Gazdhar, T. Geiser, Mauricio Reyes, and B. Gantenbein-Ritter. Mesenchymal Stem Cell Classification During Differentiation Based on Shape Information. TERMIS, Galway, Ireland, June 2010. Note: Abstract. [bibtex-entry]



12. Juliette Thariat, Liliane Ramus, Philippe Maingon, Vincent Grégoire, Vincent Darcourt, Serge Marcie, and Grégoire Malandain. Atlas de contourage automatique des dents pour l'optimisation des soins dentaires. 21e Congrès de la Société Française de Radiothérapie Oncologique (SFRO), 2010. [bibtex-entry]



13. Juliette Thariat, Liliane Ramus, Philippe Maingon, Vincent Grégoire, Serge Marcie, and Grégoire Malandain. Construction of a dental atlas for automatic teeth segmentation to improve post-irradiation dental care management. 52nd Annual Meeting of the American Society for Therapeutic Radiology and Oncology (ASTRO), 2010. [bibtex-entry]

1. Barbara André, Tom Vercauteren, Aymeric Perchant, Michael B. Wallace, Anna M. Buchner, and Nicholas Ayache. Endomicroscopic image retrieval and classification using invariant visual features. Pesented as a poster at the third edition of the International Computer Vision Summer School 2009 (ICVSS'09), July 2009. [bibtex-entry]



2. Florence Dru and Tom Vercauteren. An ITK Implementation of the Symmetric Log-Domain Diffeomorphic Demons Algorithm. Insight Journal -- 2009 January - June, May 2009. [bibtex-entry]



3. Tommaso Mansi, Barbara André, Maxime Sermesant, Hervé Delingette, Nicholas Ayache, and Younes Boudjemline. Simulation personnalisée de replacements valvulaires pulmonaires grâce à l'utilisation d'un modèle mathématique du coeur. Archives de Pédiatrie - Congrès des Sociétés Françaises Médico-chirurgicales Pédiatriques, June 2009. [bibtex-entry]



4. J. Relan, M. Sermesant, and H. Delingette, M. Pop, M. Sorine, G.A. Wright, and N. Ayache. Personalisation of 3D Cardiac Electrophysiology Models for valid Predictions: A Step Towards Patient-Specific Ventricular Tachycardia Modelling. The Cardiac Physiome: Multi-scale and Multi-physics Mathematical Modelling Applied to the Heart, Cambridge, UK, July 2009. [bibtex-entry]



5. Christof Seiler, S. Weber, W. Schmidt, F. Fischer, N. Reimers, and Mauricio Reyes. Automatic Landmark Propagation for Left and Right Symmetry Assessment of Tibia and Femur: A Computational Anatomy Based Approach. CAOS, Boston, USA, June 2009. Note: Abstract. [bibtex-entry]

1. François Hebert. Segmentation de l'intestin grêle dans le cadre de la maladie de Crohn. Master's Thesis, Master IGMMV, Université de Nice Sophia-Antipolis, 2008. [bibtex-entry]



2. Erik Pernod. Interface Development for Medical Imaging Applications in the framework of the Multiple Sclerosis Disease. Rapport de fin d'études, Institut des Sciences de l'Ingénieur de Toulon et du Var, 2008. [bibtex-entry]



3. C Brun, N Leporé, X Pennec, YY Chou, AD Lee, M Barysheva, K McMahon, GI de Zubicaray, M Wright, AW Toga, and PM Thompson. Volumetric Differences in Brain Structure in Identical and Fraternal Twins Computed using Riemannian Tensor-Based Morphometry. 13th Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 15-19, 2008. [bibtex-entry]



4. A. Isambert, V. Grégoire, F. Bidault, M. Benkebil, L. Ramus, J. Bourhis, and D. Lefkopoulos. Evaluation d'un algorithme de segmentation automatique des structures d'intérêt dans la sphère ORL. 19e Congrès de la Société Française de Radiothérapie Oncologique (SFRO), 2008. Note: Cancer radiothérapie 12(6-7):743, 2008. [bibtex-entry]



5. Tommaso Mansi, Maxime Sermesant, Martin Huber, Andrew Taylor, Giacomo Pongiglione, Xavier Pennec, and Younes Boudjemline. Modélisation électromécanique du coeur et analyse d'images. Archives de Pédiatrie - Congrès des Sociétés Françaises Médico-chirurgicales Pédiatriques, February 2008. Note: Archives de Pédiatrie 15(5):1032 -- Special award for best presentation. [bibtex-entry]



6. Sébastien Novellas, Grégoire Malandain, Jimena Costa, Jean-Christophe Souplet, Nicholas Ayache, and P Chevallier. Apport d'un algorithme de segmentation semi-automatique pour analyse des adénopathies médiastinales. Journées Françaises de Radiologie, October 2008. [bibtex-entry]



7. Erik Pernod, Jean-Christophe Souplet, Mikael Cohen, Nicolas Toussaint, Christine Lebrun, and Grégoire Malandain. SepINRIA v1.7.2: Multiple Sclerosis Brain MRI visualisation, comparison and analysis Software. World Congress for Treatment and Research in Multiple Sclerosis (WCTRIMS), September 2008. Keyword(s): multiple sclerosis, SepINRIA. [bibtex-entry]



8. Javier Rojas Balderrama, Diane Lingrand, Erik Pernod, Jean-Christophe Souplet, Xavier Pennec, and Johan Montagnat. NeuroLOG: neuroscience application workflows execution on the EGEE grid. Enabling Grid for E-sciencE (EGEE) conference, September 2008. Note: EGEE'08 best paper award. [bibtex-entry]



9. Jean-Christophe Souplet, Pierre Fillard, Nicolas Toussaint, Christine Lebrun, and Grégoire Malandain. SepINRIA: A software to analyse Multiple Sclerosis Brain MRI. 60th American Academy of Neurology Annual Meeting, April 2008. Keyword(s): multiple sclerosis, SepINRIA. [bibtex-entry]



10. Jean-Christophe Souplet, Christine Lebrun, Pierre Clavelou, William Camu, Stéphane Chanalet, Nicholas Ayache, and Grégoire Malandain. A Comparative Study of Atrophy Measurements in Multiple Sclerosis. 17th Franco-UK scientific meeting of ARSEP (François Lhermitte Conferences), March 2008. [bibtex-entry]



11. Jean-Christophe Souplet, Christine Lebrun, Pierre Clavelou, William Camu, Stéphane Chanalet, Nicholas Ayache, and Grégoire Malandain. A New Atrophy Measurement Method dedicated to Multiple Sclerosis. 60th American Academy of Neurology Annual Meeting, April 2008. [bibtex-entry]



12. Jean-Christophe Souplet, Christine Lebrun, and Grégoire Malandain. SepINRIA v1.7.1: A Free Software for Lesion Segmentation and Atrophy Evaluation dedicated to Multiple Sclerosis Brain MRI. Journal of Neurology - 18th European Neurological Society Meeting, June 2008. Keyword(s): multiple sclerosis, SepINRIA. [bibtex-entry]



13. Jean-Christophe Souplet, Christine Lebrun, and Grégoire Malandain. SepINRIA: Un logiciel gratuit dédié à l'analyse d'Images de Résonance Magnétique cérébrales de patients atteints de sclérose en Plaques. Journées de Neurologie de Langue Française, April 2008. Keyword(s): multiple sclerosis, SepINRIA. [bibtex-entry]

1. Valentin Becker, Tom Vercauteren, Claus Hann von Weyern, Christian Prinz, Roland M. Schmid, and Alexander Meining. Ultra-hochauflösende, Sondenbasierte, Konfokale Lasermikroskopie in Kombination mit Videomosaicing. 62. Jahrestagung der Deutschen Gesellschaft für Verdauungs- und Stoffwechselkrankheiten, August 2007. Note: Zeitschrift für Gastroenterologie 45(8) - Abstract only. [bibtex-entry]



2. P.-Y. Bondiau, J. Thariat, K. Bénézery, J. Hérault, C. Dalmasso, S. Marcié, and G. Malandain. Doses aux organes à risque cérébraux : optimisation par radiothérapie stéréotaxique robotisée et atlas de segmentation automatique versus radiothérapie conformationnelle tridimensionnelle. 18e Congrès de la Société Française de Radiothérapie Oncologique (SFRO), 2007. Note: Cancer radiothérapie 11(6-7):399, 2007. [bibtex-entry]



3. A. Isambert, V. Gregoire, F. Bidault, G. Calais, O. Commowick, G. Malandain, J.B. Ruaud, M. Tomsej, C. Bramoulle, J. Bourhis, and D. Lefkopoulos. Atlas-based automatic segmentation (ABAS) of head and neck (H&N) structures in conformal radiotherapy (CRT). Acts of the 26th European Society for Therapeutic Radiology and Oncology (ESTRO), 2007. [bibtex-entry]



4. Christine Lebrun, Stéphane Chanalet, Jean-Christophe Souplet, Nicholas Ayache, and Grégoire Malandain. Imaging pre-treatment tools and automatic segmentation of lesion burden. Journées Internationales de la Société Française de Neurologie, June 2007. Keyword(s): multiple sclerosis. [bibtex-entry]



5. Xavier Pennec. From Riemannian Geometry to Computational Anatomy of the Brain. ERCIM News No.69, p.15-16, January 2007. Note: Special issue on the Digital Patient. [bibtex-entry]



6. Xavier Pennec and Pierre Fillard. Avons-nous tous le même cerveau?. In Voir l'invisible, p.112-113, Omniscience, December 2007. ISBN: 978-2-916097-13-8. [bibtex-entry]



7. Xavier Pennec and Pierre Fillard. Les autoroutes de l'information neuronale. In Voir l'invisible, p.116-117, Omniscience, December 2007. ISBN: 978-2-916097-13-8. [bibtex-entry]



8. Jean-Christophe Souplet, Christine Lebrun, Pierre Clavelou, William Camu, Stéphane Chanalet, Nicholas Ayache, and Grégoire Malandain. A comparative study of skull stripping methods in relapsing-remitting multiple sclerosis: Emergence of a new automatic segmentation algorithm. Congress of the European Committee for Treatment and Research in Multiple Sclerosis (ECTRIMS), October 2007. Keyword(s): multiple sclerosis, skull-stripping. [bibtex-entry]



9. Jean-Christophe Souplet, Christine Lebrun, Pierre Fillard, Nicholas Ayache, Pierre Clavelou, and Grégoire Malandain. SepINRIA : un outil d'évaluation de la charge lésionnelle chez des patients atteints de sclérose en plaques. Journées Internationales de la SFN : Sclérose en Plaques (Multiple Sclerosis), June 2007. Note: Abstract in Revue Neurologique (Paris) 2007; 163: 6-7, 725. Keyword(s): multiple sclerosis, SepINRIA, MedINRIA. [bibtex-entry]



10. Tom Vercauteren, Anne Osdoit, Aymeric Perchant, and Sacha Loiseau. Mosaicing of Confocal Microscopic Video Sequences: Larger Field of View and still Higher Resolution!. Proc. Digestive Disease Week (DDW'07), April 2007. Note: Abstract in Gastrointestinal Endoscopy 65(5):AB352. [bibtex-entry]



11. Tom Vercauteren, Aymeric Perchant, and Nicholas Ayache. In Vivo Microscopy for Real-Time Structural and Functional Cellular Imaging. ERCIM News No.69, April 2007. [bibtex-entry]

1. Romain Vauchelles. Mise en place d'un programme d'analyse d'images en wound healing et mise en évidence du rôle de l'activation de Arf 1 par le GEF ARNO dans la migration cellulaire. Master's thesis, Master Imagerie pour la Biologie, Université de Rouen, 2006. [bibtex-entry]



2. Nicholas Ayache, Jean-Pierre Boissel, Soren Brunak, Gordon Clapworthy, Guy Lonsdale, Jochen Fingberg, Alejandro Frangi, Gustavo Deco, Peter Hunter, Poul Nielsen, Matt Halstead, Rod Hose, Isabelle Magnin, Fernando Martin-Sanchez, Peter Sloot, Jaap Kaandorp, Alfons Hoekstra, Serge Van Sint Jan, and Marco Viceconti. Towards Virtual Physiological Human: Multilevel Modelling and Simulation of the Human Anatomy and Physiology. Virtual Physiological Human: White paper, EC - DG INFSO and DG JRC, 2006. [bibtex-entry]



3. N. Bernasconi, P. Besson, T. Mansi, and A. Bernasconi. MRI Texture Analysis Enhances the Visibility of Cortical Tubers in Tuberous Sclerosis. Annual Meeting of the American Epilepsy Society AES 2006 (abstracts), 2006. [bibtex-entry]



4. Pierre Fillard, Nicolas Toussaint, and Xavier Pennec. MedINRIA: DT-MRI Processing and Visualization Software, November 2006. Note: Guest paper at the Similar Tensor Workshop, Las Palmas, Spain. [bibtex-entry]



5. Aurélie Isambert, Guillaume Bonniaud, R. Lery, R. Comtat, Jean-Christophe Diaz, Grégoire Malandain, and Dimitri Lefkopoulos. Evaluation sur fantôme d'un logiciel de recalage d'images multimodales automatique pour la radiothérapie. 17e Congrès de la Société Française de Radiothérapie Oncologique (SFRO), November 2006. Note: Cancer radiothérapie 10(6-7):507, 2006. [bibtex-entry]



6. Aurélie Isambert, Frédéric Dhermain, F. Bidault, Guillaume Bonniaud, R. Lery, Grégoire Malandain, Olivier Commowick, Jean-Christophe Diaz, Jean Bourhis, and Dimitri Lefkopoulos. Evaluation of Multimodality Image Registration Software and Atlas-based Automatic Segmentation for Delineation of Organs at Risk (OAR) in the Brain in Conformal Radiotherapy (CRT). 48th Annual Meeting of the American Society for Therapeutic Radiology and Oncology (ASTRO), November 2006. Keyword(s): Multimodality image registration, atlas-based automatic segmentation, radiation therapy. [bibtex-entry]



7. Aurélie Isambert, Frédéric Dhermain, Guillaume Bonniaud, F. Bidault, A. Beaudre, Grégoire Malandain, Olivier Commowick, Jean-Christophe Diaz, M. Ricard, Jean Bourhis, and Dimitri Lefkopoulos. Evaluation d'un logiciel de recalage d'images multimodal et d'un outil de segmentation automatique des organes à risque (OAR) intra-crâniens en situation clinique d'une radiothérapie conformationnelle 3D (RTC3D). Congrès annuel de la Société Française des Physiciens Médicaux (SFPM), June 2006. [bibtex-entry]



8. Ender Konukoglu, Olivier Clatz, Pierre-Yves Bondiau, Hervé Delingette, and Nicholas Ayache. Extrapolating tumor invasion margins for physiologically determined radiotherapy regions. Presented in DIMACS Workshop: Computational Tumor Modeling, 2006. [bibtex-entry]



9. Xavier Pennec. A European paediatric platform. INédit 56, p.4, November 2006. [bibtex-entry]



10. Aymeric Perchant, Tom Vercauteren, Charlotte Cavé, and Sacha Loiseau. Mosaicing of Confocal Microscopic In Vivo Soft Tissue Video Sequences Improves Multimodality Approach. Proc. Radiological Society of North America (RSNA'06), December 2006. Note: Abstract only. [bibtex-entry]

1. Antoine Azar. An Interactive Intensity- and Feature-Based Non-Rigid Registration Framework for 3D Medical Images. Master's Thesis, Master IGMMV, Université de Nice Sophia-Antipolis, 2005. Note: In collaboration with Siemens Corporate Research, NJ, USA. [bibtex-entry]



2. Olivier Duhamel. Validation de modèles mathématiques en biologie à l'aide du traitement d'image. Master's Thesis, Université Paul Sabatier, Toulouse, 2005. [bibtex-entry]



3. T. Mansi. Automatic Segmentation of Focal Cortical Dysplasia Lesions on MRI Images using Geometric Deformable Models. Master's thesis, Politecnico di Torino (Italy) / ENST Paris (France), 2005. [bibtex-entry]



4. O. Colliot, T. Mansi, N. Bernasconi, V. Naessens, D. Klironomos, and A. Bernasconi. Automatic delineation of focal cortical dysplasia lesion on MRI. Annual Meeting of the American Epilepsy Society AES 2005 (abstracts), 2005. [bibtex-entry]



5. Jimena Costa, Hervé Delingette, Jean-Christophe Diaz, William Wibault, and Ann Egelmeers. Towards an automatic delineation of lower abdomen structures for conformational radiotherapy based on CT images. Proceedings of the 44èmes Journées Scientifiques de la Société Française de Physique Médicale (SFPM), June 2005. [Abstract] [bibtex-entry]



6. G. Dugas-Phocion, C. Lebrun, S. Chanalet, M. Chatel, N. Ayache, and G. Malandain. Automatic segmentation of white matter lesions in multi-sequence MRI of relapsing-remitting multiple sclerosis patients. 21th Congress of the European Committee for Treatment and Research in Multiple Sclerosis (ECTRIMS), September 2005. Keyword(s): multiple sclerosis. [bibtex-entry]



7. D. Galanaud, D. Dormont, J.P. Brandel, M.G. Linguraru, E. Bardinet, and J. Chiras. Exploration des Maladies a Prions par IRM Multimodalitaire. Journées de Neuroradiologie de Langue Française, 2005. Note: Journal of Neuroradiology 32(2):79. [bibtex-entry]



8. A. Isambert, F. Dhermain, A. Beaudre, G. Malandain, O. Commowick, J.C. Diaz, F. Bidault, P.Y. Bondiau, J. Bourhis, M. Ricard, and D. Lefkopoulos. Requirements for the use of an atlas-based automatic segmentation for delineation of Organs at risk (OAR) in conformal radiotherapy (CRT): quality assurance (QA) and preliminary results for 22 adult patients with primary brain tumors. Acts of the 24th European Society for Therapeutic Radiology and Oncology (ESTRO 2005), 2005. [bibtex-entry]



9. M.G. Linguraru and N. Ayache. Definition and Evaluation of MRI-Based Measures for the Neuroradiological Investigation of Creutzfeldt-Jakob Diseases. ERCIM News,No.60, Special Issue on Biomedical Informatics, 2005. [bibtex-entry]



10. Mauricio A. Reyes, Gregoire Malandain, Nicholas Ayache, Jacques Darcourt, and Pierre M. Koulibaly. Respiratory Motion Compensation within Emission Tomographic Reconstruction. 52nd Annual Meeting of the Society of Nuclear Medicine, June 2005. [bibtex-entry]

1. Pierre Fillard. Un cadre riemannien pour l'imagerie du tenseur. rapport de Master, Master Optique-Image-Vision spécialité recherche, Université Jean-Monnet Saint Etienne, 2004. [bibtex-entry]



2. Heike Hufnagel. Non-linear 2D and 3D Registration Using Block-Matching and B-Splines. Diplomarbeit, University of Luebeck, Lübeck, Germany, 2004. [bibtex-entry]



3. Caroline Bensa, Grégoire Malandain, Stéphane Chanalet, Christelle Bertogliati, Octave Migneco, Marcel Chatel, and Christine Lebrun. Multiple Sclerosis and Mild Cognitive Impairment. American Academy of Neurology, 56th Annual Meeting, April-May 2004. Keyword(s): multiple sclerosis. [Abstract] [bibtex-entry]



4. Ignacio Blanquer, Vincent Hernandez, Guy Lonsdale, Kevin Dean, Sharon Lloyd, Richard McClatchey, Johan Montagnat, Mike Brady, Xavier Pennec, Howard Bolofsky, Chris Jones, Martin Hofmann, Tony Solmonides, Ilidio C. Oliveira, Juan Pedro Sanchez, Victoria Lopez, George De Moor, Brecht Claerhout, and Jean A.M. Harveg. HealthGrid White Paper: http://whitepaper.healthgrid.org/. Edited by Cisco System. Also in Studies in Health Technolgy and Informatics volume 112, 2005, p.249-321 (PMID: 15923733), September 2004. Keyword(s): HealthGrid. [Annotation] [bibtex-entry]



5. Jonathan Boisvert. Système de navigation pour les chirurgies minimalement invasives du rachis, November 2004. [bibtex-entry]



6. PY Bondiau, G Malandain, O Commowick, PY Marcy, S Chanalet, and N Ayache. Atlas-based Automatic Segmentation of MR Images: Validation Study on the Brainstem in Radiotherapy Context. 90th Scientific Assembly and Annual Meeting of the Radiological Society of North America (RSNA), 2004. [bibtex-entry]



7. Olivier Commowick, Pierre-Yves Bondiau, and Grégoire Malandain. Segmentation automatique des tissus cérébraux en présence de structures pathologiques. Proceedings of the 43th Journées Scientifiques de la Société Française de Physique Médicale (SFPM), June 2004. [bibtex-entry]



8. Guillaume Dugas-Phocion, Miguel Ángel González Ballester, Christine Lebrun, Stéphane Chanalet, Caroline Bensa, Marcel Chatel, Nicholas Ayache, and Grégoire Malandain. Automatic segmentation of white matter lesions in T2 FLAIR MRI of relapsing-remitting multiple sclerosis patients. 20th Congress of the European Committee for Treatment and Research in Multiple Sclerosis (ECTRIMS), October 2004. Keyword(s): multiple sclerosis. [bibtex-entry]



9. Guillaume Dugas-Phocion, Miguel Ángel González Ballester, Christine Lebrun, Stéphane Chanalet, Caroline Bensa, and Grégoire Malandain. Segmentation automatique des hypersignaux de la substance blanche (HSB) sur des IRM T2 FLAIR de patients atteints de forme rémittente de sclérose en plaques. Journées de Neurologie de Langue Française, April 2004. Keyword(s): multiple sclerosis. [bibtex-entry]



10. Christine Lebrun, Caroline Bensa, Grégoire Malandain, Christelle Bertogliati, Octave Migneco, and M.-N. Magnie. Sclérose en plaque et troubles cognitifs mineurs. Journées de Neurologie de Langue Française, April 2004. Keyword(s): multiple sclerosis. [bibtex-entry]



11. M.G. Linguraru, D. Galanaud, D. Dormont, B. Faucheaux, S. Haïk, J.J. Hauw, J. Chiras, E. Bardinet, M.A. González Ballester, P. Cozzone, N. Ayache, and J.P. Brandel. Détection et Quantification Automatique des Hypersignaux en IRM dans la Maladie de Creutzfeldt-Jakob. Journées Françaises de Radiologie, 2004. Note: Journal de Radiologie 85(6):1394. [bibtex-entry]



12. Xavier Pennec. Geodesics for statistics. INédit 43, p.6, March 2004. [bibtex-entry]

1. Thibaut Bardyn. Modèles biomécaniques déformables : introduction de méthodes algébriques pour le calcul de la déformation. rapport de DEA, DEA Mathématiques, Vision, Apprentissage, École Normale Supérieure Cachan, 2003. [bibtex-entry]



2. Olivier Commowick. Utilisation d'atlas anatomiques numériques pour la cancérologie. rapport de DEA, DEA Mathématiques, Vision, Apprentissage, École Normale Supérieure Cachan, 2003. [bibtex-entry]



3. C. Bensa, S. Chanalet, G. Malandain, C. Bertogliati, P. Bedoucha, M.N. Mauro, M. Chatel, and C. Lebrun. Sclérose en plaques et troubles cognitifs mineurs. Journées de Neurologie de Langue Française, April 2003. Note: Revue Neurologique, tome 159, page 2S63. Keyword(s): multiple sclerosis. [bibtex-entry]



4. C. Bensa, S. Chanalet, G. Malandain, C. Bertogliatti, P. Bedoucha, M.N. Magnié, M. Chatel, and C. Lebrun. Multiple sclerosis and mild cognitive impairment. 19th Congress of the European Committee for Treatment and Research in Multiple Sclerosis (ECTRIMS), September 2003. Note: Multiple Sclerosis, P545, pp S136. Keyword(s): multiple sclerosis. [bibtex-entry]



5. C. Lebrun, D. Rey, S. Chanalet, N. Ayache, M. Chatel, and G. Malandain. First validation experiments of a 3-D automatic algorithm based on a vector field analysis to detect and quantify volume variation of multiple sclerosis lesions. 19th Congress of the European Committee for Treatment and Research in Multiple Sclerosis (ECTRIMS), September 2003. Note: Multiple Sclerosis, P455, pp S112. Keyword(s): multiple sclerosis. [bibtex-entry]



6. C. Lebrun, D. Rey, S. Chanalet, V. Bourg, M. Chatel, N. Ayache, and G. Malandain. Intérêt du recalage automatique des IRM cérébrales dans le suivi et la décision thérapeutique : application à la sclérose en plaques. 10èmes Journées Jean-Denis-Degos Thérapeutique et Neurologie, December 2003. Keyword(s): multiple sclerosis. [bibtex-entry]

1. Cédric Checoury. Optimisation de modèles physiques de tissus mous pour la simulation chirurgicale. Rapport de DEA, Université de Nice Sophia-Antipolis, Septembre 2002. Keyword(s): simulation. [bibtex-entry]



2. Olivier Clatz. Analysis and prediction of the brain deformation during a neurosurgical procedure. Rapport de DEA, ENS Cachan, Septembre 2002. [bibtex-entry]



3. P.-Y. Bondiau, G. Malandain, P.-Y. Marcy, F. Peyrade, M. Frenay, and J.-P. Gérard. Contourage automatique de l'encépahle utilisant la fusion d'image avec atlas : résultats sur 3 patients. 13ème Congrès National de la Société Française de Radiothérapie Oncologique (SFRO), November 2002. [bibtex-entry]

1. Karen Bénézery. Recalage et fusion d'images scanner et IRM du pelvis : utilisation dans le traitement des tumeurs prostatique. Master's thesis, DEA Rayonnements et Imagerie en Médecine, Université Toulouse III, 2001. [bibtex-entry]



2. Florence Perret. Correction et segmentation d'images appliquées à la radiothérapie. Master's thesis, École Centrale de Paris, 2001. [bibtex-entry]



3. Radu-Constantin Stefanescu. Parallélisation de l'algorithme des démons. Master's thesis, DEA Algorithmique, Filière géométrie algorithmique, Formes et Images -- Ecole Polytechnique, 2001. [bibtex-entry]



4. J. Unia. Suivi Temporel de structures cérébrales dans des IRM à l'aide de modèles biomécaniques. Master's thesis, Université de Lyon, June 2001. Note: DEA Images et Systèmes. [bibtex-entry]



5. P.Y. Bondiau, O. Ostapiak, G. Malandain, T. Toubiana, K. Benezery, J.M. Hannoun-Levi, R.J. Bensadoun, A. Courdi, D. Leschi, P. Chauvel, and J.P. Gerard. Fusion de la tomographie par émission de positons (TEP) fonctionnelle et du Scanner dosimétrique : Etude de faisabilité pour le traitement des tumeurs cérébrales. Proc. du premier atelier de radiothérapie assistée par l'image, 4 et 5 mai 2001. [bibtex-entry]



6. K. Bénézery, F. Perret, P.-Y. Bondiau, G. Malandain, and N. Ayache. Recalage et Fusion d'images Scanner et IRM du pelvis : utilisation dans le traitement du cancer de la prostate. 12ème Congrès de la Société Française de Radiothérapie Oncologique (SFRO), 22-23 Novembre 2001. [bibtex-entry]



7. Y. Chau, D. Rey, G. Malandain, C. Raffaelli, and B. Padovani. Extraction automatique des structures arborescentes pulmonaires, semi-automatique des segments pulmonaires à partir de TDM thoraciques normales. Journées Françaises de Radiologie, JFR'2001, October 2001. [bibtex-entry]

1. W. Bensassi. Segmentation d'images cérébrales en utilisant les modèles déformables. Rapport de D.E.A., Ecole Polytechnique, 2000. [bibtex-entry]



2. Gérald Bianchi. Réalité Augmentée en chirurgie hépatique. Rapport de D.E.A., DEA Informatique, Productique, Imagerie médicale -- université Blaise Pascal Clermont-Ferrand II, 2000. [bibtex-entry]



3. Yves Chau. Extraction automatique des structures arborescentes pulmonaires -- Création semi-automatique des segments pulmonaires sur des images tomodensitométriques normales. Rapport de D.E.A., DEA Algorithmique, Robotique, Automatique, Vision, Image et Signal -- université de Nice-Sophia Antipolis, 2000. [bibtex-entry]



4. Guillaume Flandin. Filtrage adaptatif par Analyse Tensorielle. Rapport de D.E.A., DEA Signal, Image, Acoustique - ENSEEIHT, Toulouse, 2000. [bibtex-entry]



5. Sébastien Granger. Évaluation de la précision du recalage 3D de surfaces-Application à l'implantologie dentaire assistée par ordinateur-Rapport de fin de première année. Master's thesis, École des Mines de Paris - Centre de Mathematiques Appliques, 2000. [bibtex-entry]



6. E. Guilhaurre. Reconstruction et déformation contrainte de surfaces. Master's thesis, Ecole ESSI, 2000. [bibtex-entry]



7. M.G. Linguraru. Filtering hint Images for Microcalcification Detection: An Anisotropic Diffusion Approach. PhD Transfer Thesis, University of Oxford, 2000. [bibtex-entry]



8. Aline Myx. Visualisation du déplacement des viscères pelviens par analyse d'images dans la chirurgie du prolapsus rectal. Rapport de D.E.A., DEA Signaux et Images en Biologie et Médecine - université d'Angers, 2000. [bibtex-entry]



9. Niels Raynaud. Segmentation d'images hépatique par analyse statistique. Rapport de D.E.A., DEA Mathématiques, Vision, Apprentissage -- ENS Cachan, 2000. [bibtex-entry]



10. D. Etienne, A. Stankoff, X. Pennec, S. Granger, A. Lacan, and R. Derycke. A new approach for dental Implant aided surgery. 4th Congresso Panamericano de Periodontologia, 17-19 august 2000, Santiago, Chili, 2000. Keyword(s): registration, odontology. [bibtex-entry]



11. C. Lebrun-Frenay, D. Rey, G. Malandain, S. Chanalet, N. Ayache, and M. Chatel. Detection and quantification of MS lesions MRI variations by mathematical differential operators. 16th Congress of the European Committee for Treatment and Research in Multiple Sclerosis, septembre 6-9 2000. Note: Revue Neurologique (Supplement), 156(3S104). Keyword(s): multiple sclerosis. [bibtex-entry]



12. D. Rey, C. Lebrun-Frenay, G. Malandain, S. Chanalet, N. Ayache, and M. Chatel. A New Method to Detect and Quantify Evolving MS Lesions by Mathematical Operators. American Academy of Neurology, 52nd Annual Meeting, May 2000. Note: Neurology (Supplement 3) 54(7):123. Keyword(s): multiple sclerosis. [bibtex-entry]

1. F. Buisson. Segmentation et quantification du cartilage de l'articulation fémoro-tibiale de rat à partir d'images micro-IRM. Rapport de DESS, DESS Génie Biomédical pour l'Ingénieur - Université de Nice, 1999. [bibtex-entry]



2. N. Scapel. Optimisation topologique et géométrique d'un maillage surfacique dynamique : application à la segmentation des images médicales volumiques. Stage de 3ème année, Ecole Centrale de Paris, 1999. [bibtex-entry]



3. Maxime Sermesant. Diffusion anisotrope et segmentation par modèles déformables sur des images échographiques 4-D du coeur. Stage de 3ème année, Ecole Centrale Paris, 1999. Keyword(s): anisotropic diffusion, 4D, Heart, segmentation, ultrasound, medical images, motion tracking. [bibtex-entry]



4. P.Y. Bondiau, G. Malandain, K. Benezery, A. Roche, R. Ferrand, D. Pontvert, J. L. Habrand, and J. N. Bruneton. Full Automatic CT Scan and MRI Matching : Use for Brain Tumor Radiotherapy. Proc of RSNA'99, 27 nov au 3 déc 1999. Note: Supplement to Radiology 1999; 213, 236. [bibtex-entry]



5. M. A. González Ballester. Accurate Shape Modelling and Measurement Using Estimates of Partial Volume Effects. Tutorial on Recent Advances in Image Segmentation at MICCAI, September 1999. [bibtex-entry]



6. Bertrand Mafart, Denis Méline, Alain Silvestre, and Gérard Subsol. Imagerie 3D et Paléontologie : les différences de forme entre le crâne de l'Homme Moderne et de l'Homme de Tautavel. Audiovisual material produced by INRIA audiovisuel, 1999. Keyword(s): video. [bibtex-entry]



7. B. Mafart, D. Méline, A. Silvestre, and G. Subsol. Imagerie 3D et paléontologie : les différences de forme entre le crâne de l'Homme Moderne et de l'Homme de Tautavel. vidéo INRIA, September 1999. [bibtex-entry]

1. 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]



2. D. Rey. Détection et quantification automatiques de processus évolutifs dans des images tridimensionnelles. Rapport de D.E.A., université de Clermont-Ferrand / ISIMA, 1998. Keyword(s): multiple sclerosis. [bibtex-entry]



3. P. Cachier. Recalage d'images ultrasonores tridimensionelles. Rapport de stage de DEA, July 1998. [bibtex-entry]



4. Béatrice Frison. Segmentation des réseaux vasculaires à l'aide d'outils de topologie discrète. Rapport de stage de $2^{\rm e}$ année de l'ESSI, September 1998. [bibtex-entry]



5. Florence Guirardel. Segmentation d'images à l'aide des Level Sets. Rapport de stage de 2eme année de l'ENSIMAG, septembre 1998. [bibtex-entry]



6. Jérémie Roux. Extraction de mouvement à partir de séquences temporelles d'images ultrasonores 3D-cardiaques. Rapport de stage de fin d'études de l'École Centrale de Paris, juin 1998. [bibtex-entry]



7. G. Subsol. A scheme for automatically building 3D morphometric anatomical atlases based on feature lines: a list of references. DIKU International Summer School'98 - Shape Variation - University of Copenhagen - Danemark, 1998. [bibtex-entry]



8. 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]

1. Guillaume Calmon. Mesure des variations de volume dans des images médicales tridimensionnelles. Master's thesis, École des Mines de Paris, 1997. [bibtex-entry]



2. M. A. González Ballester. Computer-Aided MRI-Based Analysis of Brain Morphology. DPhil Transfer Thesis, University of Oxford, 1997. [bibtex-entry]



3. S. Jourdan. Étude statistique d'images SPECT fonctionnelles à l'aide du logiciel SPM. Rapport de D.E.A., université de Nice-Sophia Antipolis, June 1997. [bibtex-entry]



4. M.G. Linguraru. Aplicatii ale Calculatoarelor si Segmenatarilor de Imagini in Medicina. MSc Thesis, Universitatea Lucian Blaga Sibiu, 1997. [bibtex-entry]



5. Guillaume Picinbono. Modèle géométrique de contour déformable implicite pour la segmentation et la simulation. Master's thesis, université de Nice-Sophia Antipolis, 1997. Keyword(s): thesis, reconstruction. [bibtex-entry]



6. Sylvain Prima. Étude de la dissymétrie dans des images volumiques cérébrales. Rapport de D.E.A., université Paris-Dauphine, September 1997. [bibtex-entry]



7. Guillaume Calmon and Jean-Philippe Thirion. Analyse d'images tridimensionnelles - Application à la sclérose en plaques. Audiovisual material produced by INRIA audiovisuel, 1997. Keyword(s): video. [bibtex-entry]



8. J. Declerck, J. Feldmar, and N. Ayache. Studying the Heart Left Ventricular Motion with 4D Transformations. ERCIM News No.31, October 1997. [bibtex-entry]



9. L. Soler, G. Malandain, H. Delingette, and J. Montagnat. Computerized anatomical segmentation of the liver from helical CT-Scanners. ERCIM News No.31, October 1997. [bibtex-entry]



10. Alexandre Guimond. Classification d'images anatomiques tridimensionnelles. Note: Proposition de thèse, université de Montréal, 67 pages, May 1997. [bibtex-entry]

1. P.-Y. Bondiau. Reconstruction informatique du globe oculaire à partir des images scanner, IRM et du FO : utilisation pour le traitement des tumeurs oculaires. Rapport de D.E.A., DEA de l'université de Toulouse III Paul Sabatier, septembre 1996. [bibtex-entry]



2. G. Calmon. Détection et mesure de variation de volume de lésions cérébrales dans des images médicales 3D. stage ingénieur de l'École des Mines de Paris, École des Mines de Paris, September 1996. [bibtex-entry]



3. M. A. González Ballester. Visualizador de Superficies Paramétricas con Texturas, Iluminación y Sombreado. Degree Thesis, Universitat Jaume I, 1996. [bibtex-entry]



4. A. Guimond. Constitution et exploration automatique de bases de données d'images médicales tridimentionnelles. rapport de DEA, université de Nice Sophia Antipolis, June 1996. [bibtex-entry]



5. K. Krissian. Diffusion anisotrope d'images cérébrales 3D et segmentation matière blanche / matière grise. Rapport de DEA, université de Paris IX, septembre 1996. [bibtex-entry]



6. M.G. Linguraru. Graphic Tools under XWindow for Image Segmentation. BSc Thesis, University of Coventry, 1996. [bibtex-entry]



7. J. Montagnat. Segmentation d'images médicales volumiques à l'aide de maillages déformables contraints. Rapport de D.E.A., DEA de l'université d'Orsay et Ecole Normale Supérieure de Cachan, September 1996. [bibtex-entry]



8. N. Ayache, E. Bardinet, S. Benayoun, H. Delingette, G. Malandain, S. Fernández-Vidal, L. Soler, J. Montagnat, S. Cotin, G. Subsol, and J.-P. Thirion. Analysis of medical images : Registration, Atlas, Motion. Audiovisual material produced by INRIA audiovisuel, 1996. Keyword(s): video, simulation. [bibtex-entry]

1. F. Schikli, H. Delingette, B. Padovani, C. Maestro, N. Ayache, and J.N. Bruneton. Tomodensimétrie et volumétrie tumorale. Actes des Journées Française de la radiologie (JFR'95), October 1995. Keyword(s): workshop, medical. [bibtex-entry]

1. N. Ayache, E. Bardinet, S. Benayoun, I. Cohen, L.D. Cohen, H. Delingette, J. Feldmar, C. Nastar, G. Subsol, and J.-P. Thirion. Non Rigid Motion (Tracking, Analysis and Simulation). Audiovisual material produced by INRIA audiovisuel, 1994. Keyword(s): video, reconstruction. [bibtex-entry]



2. Jean-Philippe Thirion. Fully automatic registration multiple sclerosis study. Audiovisual material produced by INRIA audiovisuel, 1994. Keyword(s): video. [bibtex-entry]

1. Stéphane Cotin. Découpe de Surfaces à l'aide d'un Système de Réalité Virtuelle. Master's thesis, Université de Nice, Sophia-Antipolis, 1993. Note: D.E.A. Théorie et Applications de la Vision Artificielle. [bibtex-entry]



2. Jérôme Declerck. Approximation de déformations géométriques par des B-Splines. rapport de stage de fin d'études, École Centrale de Paris, juin 1993. [bibtex-entry]



3. S. Fernàndez-Vidal. Mise en correspondance d'images médicales 3D. Rapport de DEA, Université de Nice-Sophia Antipolis, september 1993. Note: (in french). [bibtex-entry]



4. Sara Fernàndez-Vidal. Recalage d'images médicales multidimensionnelles : une approche mécanique. Rapport de D.E.A., Université de Nice Sophia-Antipolis, 1993. Note: D.E.A. Théorie et Applications de la Vision Artificielle. [bibtex-entry]



5. Marta Fidrich. Analyse Multi-échelle de Points Extrémaux. rapport de stage de DEA, Univ. Paris XI, août 1993. [bibtex-entry]



6. Donatas Kvedarauskas. Recalage rigide d'images 3D basé sur l'utilisation des conditions de compatibilité. Recalage de surfaces en utilisant des points de la surface et des points extrémaux. rapport de stage de D.E.A., Université Paris XI, août 1993. [bibtex-entry]



7. Xavier Pennec. Traitement de l'erreur dans les méthodes de Hachage géométrique et d'Alignement, une étude théorique. Rapport de DEA, DEA Informatique, Mathématique et Applications, École Polytechnique, ENS Ulm, July 1993. Keyword(s): registration, matching, uncertainty. [bibtex-entry]



8. Jérôme Pignon. Maillages Simplexes Volumiques. Application à la simulation de Muscles. Master's thesis, Université de Nice, Sophia-Antipolis, 1993. Note: D.E.A. Théorie et Applications de la Vision Artificielle. [bibtex-entry]



9. Hervé Delingette, Jérôme Pignon, Stéphane Cotin, and Gérard Subsol. Cranio-facial Surgery Modeling. Audiovisual material produced by INRIA audiovisuel, October 1993. [bibtex-entry]



10. H. Delingette and H. Watanabe. Simplex Mesh Modeling, 1993. Note: Slides 11-13 selected at the ACM SIGGRAPH 93 Slides. Keyword(s): video, reconstruction. [bibtex-entry]



11. Chahab Nastar. Non-rigid motion analysis in medical images. Audiovisual material produced by INRIA audiovisuel, June 1993. [bibtex-entry]

1. E. Bardinet. Contour actifs et approximation de surface. Contraintes différentielles dans les modèles numériques de terrain. Rapport de DEA, Université de Paris Dauphine, Septembre 1992. [bibtex-entry]



2. S. Dewez and B. Hidoine. A l'image de l'homme. Audiovisual material produced by INRIA audiovisuel, 1992. [bibtex-entry]

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