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Publications of year 2017

Books and proceedings

  1. Mihaela Pop, Maxime Sermesant, Pierre-Marc Jodoin, Alain Lalande, Xiahai Zhuang, Guang Yang, Alistair A Young, and Olivier Bernard. Statistical Atlases and Computational Models of the Heart. ACDC and MMWHS Challenges. Springer, 2017.
    @book{pop:hal-01800814,
    TITLE = {{Statistical Atlases and Computational Models of the Heart. ACDC and MMWHS Challenges}},
    AUTHOR = {Pop, Mihaela and Sermesant, Maxime and Jodoin, Pierre-Marc and Lalande, Alain and Zhuang, Xiahai and Yang, Guang and Young, Alistair A and Bernard, Olivier},
    url-hal= {https://hal.archives-ouvertes.fr/hal-01800814},
    PUBLISHER = {{Springer}},
    PAGES = {260},
    YEAR = {2017},
    HAL_ID = {hal-01800814},
    HAL_VERSION = {v1},
    
    }
    


  2. Jorge Cardoso, Tal Arbel, Mert Sabuncu, Fletcher Tom, Li Shen, Stanley Durrleman, Stefan Sommer, Enzo Ferrante, Xavier Pennec, Dalca Adrian V., Sarah Parisot, Sarang Joshi, Nematollah Batmanghelich, Aristeidis Sotiras, and Mads Nielsen, editors. Graphs in Biomedical Image Analysis, Computational Anatomy and Imaging Genetics, volume 10551 of Lecture Notes in Computer Science, France, September 2017. Keyword(s): Medical images, Medical imaging, Neural networks, Computer vision, Pattern recognition, Face recognition, Feature selection, Data mining, Bayesian networks, Classification, Cluster analysis, Clustering algorithms, Geometry, Image analysis, Image processing, Image reconstruction, Learning systems, Artificial intelligence, Signal processing.
    @proceedings{cardoso:hal-01597839,
    TITLE = {{Graphs in Biomedical Image Analysis, Computational Anatomy and Imaging Genetics}},
    AUTHOR = {Cardoso, Jorge M. and Arbel, Tal and Ferrante, Enzo and Pennec, Xavier and Adrian V., Dalca and Parisot, Sarah and Joshi, Sarang and Batmanghelich, Nematollah K. and Sotiras, Aristeidis and Nielsen, Mads and Sabuncu, Mert and Tom, Fletcher and Shen, Li and Durrleman, Stanley and Sommer, Stefan},
    url-hal= {https://hal.inria.fr/hal-01597839},
    ADDRESS = {France},
    EDITOR = {Jorge Cardoso and Tal Arbel and Mert Sabuncu and Fletcher Tom and Li Shen and Stanley Durrleman and Stefan Sommer and Enzo Ferrante and Xavier Pennec and Dalca Adrian V. and Sarah Parisot and Sarang Joshi and Nematollah Batmanghelich and Aristeidis Sotiras and Mads Nielsen},
    SERIES = {Lecture Notes in Computer Science},
    VOLUME = {10551},
    YEAR = {2017},
    MONTH = Sep,
    DOI = {10.1007/978-3-319-67675-3},
    KEYWORDS = {Medical images ; Medical imaging ; Neural networks ; Computer vision ; Pattern recognition ; Face recognition ; Feature selection ; Data mining ; Bayesian networks ; Classification ; Cluster analysis ; Clustering algorithms ; Geometry ; Image analysis ; Image processing ; Image reconstruction ; Learning systems ; Artificial intelligence ; Signal processing},
    HAL_ID = {hal-01597839},
    HAL_VERSION = {v1},
    
    }
    


Thesis

  1. Thomas Demarcy. Segmentation and study of anatomical variability of the cochlea from medical images. Theses, Université Côte d'Azur, July 2017. Keyword(s): Cochlea, Segmentation, Shape model, Shape variability, Cochlée, Segmentation, Modèle de forme, Variabilité anatomique.
    @phdthesis{demarcy:tel-01609910,
    TITLE = {{Segmentation and study of anatomical variability of the cochlea from medical images}},
    AUTHOR = {Demarcy, Thomas},
    url-hal= {https://tel.archives-ouvertes.fr/tel-01609910},
    NUMBER = {2017AZUR4052},
    SCHOOL = {{Universit{\'e} C{\^o}te d'Azur}},
    YEAR = {2017},
    MONTH = Jul,
    KEYWORDS = {Cochlea ; Segmentation ; Shape model ; Shape variability ; Cochl{\'e}e ; Segmentation ; Mod{\`e}le de forme ; Variabilit{\'e} anatomique},
    TYPE = {Theses},
    PDF = {https://tel.archives-ouvertes.fr/tel-01609910/file/2017AZUR4052.pdf},
    HAL_ID = {tel-01609910},
    HAL_VERSION = {v1},
    
    }
    


  2. Loïc Devilliers. Consistency of statistics in infinite dimensional quotient spaces. Theses, Université Côte d'Azur, November 2017. Keyword(s): Frechet mean, Quotient space, Template estimation, Moyenne de Fréchet, Espace quotient, Estimation de template.
    @phdthesis{devilliers:tel-01683607,
    TITLE = {{Consistency of statistics in infinite dimensional quotient spaces}},
    AUTHOR = {Devilliers, Loïc},
    url-hal= {https://hal.inria.fr/tel-01683607},
    NUMBER = {2017AZUR4103},
    SCHOOL = {{Universit{\'e} C{\^o}te d'Azur}},
    YEAR = {2017},
    MONTH = Nov,
    KEYWORDS = {Frechet mean ; Quotient space ; Template estimation ; Moyenne de Fr{\'e}chet ; Espace quotient ; Estimation de template},
    TYPE = {Theses},
    PDF = {https://hal.inria.fr/tel-01683607/file/2017AZUR4103.pdf},
    HAL_ID = {tel-01683607},
    HAL_VERSION = {v2},
    
    }
    


  3. Sophie Giffard-Roisin. Non-invasive Personalisation of Cardiac Electrophysiological Models from Surface Electrograms. Theses, Université côte d'azur, December 2017. Keyword(s): ECG Imaging, Personalisation, Cardiac Electrophysiology Model, Machine learning, Simulated database, Inverse problem, Imagerie ECG, Personnalisation, Modèle electrophysiologique cardique, Apprentissage machine, Base de données simulée, Problème inverse.
    @phdthesis{giffardroisin:tel-01658489,
    TITLE = {{Non-invasive Personalisation of Cardiac Electrophysiological Models from Surface Electrograms}},
    AUTHOR = {Giffard-Roisin, Sophie},
    url-hal= {https://hal.inria.fr/tel-01658489},
    SCHOOL = {{Universit{\'e} c{\^o}te d'azur}},
    YEAR = {2017},
    MONTH = Dec,
    KEYWORDS = {ECG Imaging ; Personalisation ; Cardiac Electrophysiology Model ; Machine learning ; Simulated database ; Inverse problem ; Imagerie ECG ; Personnalisation ; Mod{\`e}le electrophysiologique cardique ; Apprentissage machine ; Base de donn{\'e}es simul{\'e}e ; Probl{\`e}me inverse},
    TYPE = {Theses},
    PDF = {https://hal.inria.fr/tel-01658489/file/Thesis_english.pdf},
    HAL_ID = {tel-01658489},
    HAL_VERSION = {v1},
    
    }
    


  4. Sophie Giffard-Roisin. Non-invasive personalisation of cardiac electrophysiological models from surface electrograms. Theses, Université Côte d'Azur, December 2017. Keyword(s): ECG imaging, Personalisation, Cardiac Electro-physiology Model, Machine learning, Simulated database, Inverse problem, Imagerie ECG, Personnalisation, Modèle électrophysiologique cardiaque, Apprentissage machine, Base de données simulée, Problème inverse.
    @phdthesis{giffardroisin:tel-01771476,
    TITLE = {{Non-invasive personalisation of cardiac electrophysiological models from surface electrograms}},
    AUTHOR = {Giffard-Roisin, Sophie},
    url-hal= {https://tel.archives-ouvertes.fr/tel-01771476},
    NUMBER = {2017AZUR4092},
    SCHOOL = {{Universit{\'e} C{\^o}te d'Azur}},
    YEAR = {2017},
    MONTH = Dec,
    KEYWORDS = {ECG imaging ; Personalisation ; Cardiac Electro-physiology Model ; Machine learning ; Simulated database ; Inverse problem ; Imagerie ECG ; Personnalisation ; Mod{\`e}le {\'e}lectrophysiologique cardiaque ; Apprentissage machine ; Base de donn{\'e}es simul{\'e}e ; Probl{\`e}me inverse},
    TYPE = {Theses},
    PDF = {https://tel.archives-ouvertes.fr/tel-01771476/file/2017AZUR4092.pdf},
    HAL_ID = {tel-01771476},
    HAL_VERSION = {v1},
    
    }
    


  5. Roch Mollero. Robust personalisation of 3D electromechanical cardiac models. Application to heterogeneous and longitudinal clinical databases. Theses, Université Côte d'Azur, December 2017. Keyword(s): Prior probabilities, Multifidelity methods, Parameter estimation, Cardiax modelling, Probabilités a priori, Modélisation cardiaque, Estimation de paramètres, Méthodes multi-échelles.
    @phdthesis{mollero:tel-01737200,
    TITLE = {{Robust personalisation of 3D electromechanical cardiac models. Application to heterogeneous and longitudinal clinical databases}},
    AUTHOR = {Mollero, Roch},
    url-hal= {https://tel.archives-ouvertes.fr/tel-01737200},
    NUMBER = {2017AZUR4106},
    SCHOOL = {{Universit{\'e} C{\^o}te d'Azur}},
    YEAR = {2017},
    MONTH = Dec,
    KEYWORDS = {Prior probabilities ; Multifidelity methods ; Parameter estimation ; Cardiax modelling ; Probabilit{\'e}s a priori ; Mod{\'e}lisation cardiaque ; Estimation de param{\`e}tres ; M{\'e}thodes multi-{\'e}chelles},
    TYPE = {Theses},
    PDF = {https://tel.archives-ouvertes.fr/tel-01737200/file/2017AZUR4106.pdf},
    HAL_ID = {tel-01737200},
    HAL_VERSION = {v1},
    
    }
    


  6. Marc-Michel Rohe. Reduced representation of segmentation and tracking in cardiac images for group-wise longitudinal analysis. Theses, Université Côte d'Azur, July 2017. Keyword(s): Longitudinal analysis, Medical image analysis, Non-rigid registration, Deep learning, Statistical model reduction, Analyse d'images médicales, Recalage non-rigide, Apprentissage profond, Réduction statistique de modèle, Analyse longitudinale.
    @phdthesis{rohe:tel-01575292,
    TITLE = {{Reduced representation of segmentation and tracking in cardiac images for group-wise longitudinal analysis}},
    AUTHOR = {Rohe, Marc-Michel},
    url-hal= {https://hal.inria.fr/tel-01575292},
    NUMBER = {2017AZUR4051},
    SCHOOL = {{Universit{\'e} C{\^o}te d'Azur}},
    YEAR = {2017},
    MONTH = Jul,
    KEYWORDS = {Longitudinal analysis ; Medical image analysis ; Non-rigid registration ; Deep learning ; Statistical model reduction ; Analyse d'images m{\'e}dicales ; Recalage non-rigide ; Apprentissage profond ; R{\'e}duction statistique de mod{\`e}le ; Analyse longitudinale},
    TYPE = {Theses},
    PDF = {https://hal.inria.fr/tel-01575292/file/2017AZUR4051.pdf},
    HAL_ID = {tel-01575292},
    HAL_VERSION = {v2},
    
    }
    


Articles in journal, book chapters

  1. Jan L. Bruse, Elena Cervi, Kristin Mcleod, Giovanni Biglino, Maxime Sermesant, Xavier Pennec, Andrew Taylor, Silvia Schievano, and Tain-Yen Hsia. Looks Do Matter! Aortic Arch Shape After Hypoplastic Left Heart Syndrome Palliation Correlates With Cavopulmonary Outcomes. Annals of Thoracic Surgery, 103(2):645 - 654, February 2017.
    @article{bruse:hal-01880221,
    TITLE = {{Looks Do Matter! Aortic Arch Shape After Hypoplastic Left Heart Syndrome Palliation Correlates With Cavopulmonary Outcomes}},
    AUTHOR = {Bruse, Jan L. and Cervi, Elena and Mcleod, Kristin and Biglino, Giovanni and Sermesant, Maxime and Pennec, Xavier and Taylor, Andrew and Schievano, Silvia and Hsia, Tain-Yen},
    url-hal= {https://hal.inria.fr/hal-01880221},
    JOURNAL = {{Annals of Thoracic Surgery}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {103},
    NUMBER = {2},
    PAGES = {645 - 654},
    YEAR = {2017},
    MONTH = Feb,
    DOI = {10.1016/j.athoracsur.2016.06.041},
    HAL_ID = {hal-01880221},
    HAL_VERSION = {v1},
    
    }
    


  2. Jan L. Bruse, Abbas Khushnood, Kristin Mcleod, Giovanni Biglino, Maxime Sermesant, Xavier Pennec, Andrew M. Taylor, Tain-Yen Hsia, and Silvia Schievano. How successful is successful? Aortic arch shape after successful aortic coarctation repair correlates with left ventricular function. Journal of Thoracic and Cardiovascular Surgery, 153(2):418 - 427, February 2017.
    @article{bruse:hal-01387297,
    TITLE = {{How successful is successful? Aortic arch shape after successful aortic coarctation repair correlates with left ventricular function}},
    AUTHOR = {Bruse, Jan L. and Khushnood, Abbas and Mcleod, Kristin and Biglino, Giovanni and Sermesant, Maxime and Pennec, Xavier and Taylor, Andrew M. and Hsia, Tain-Yen and Schievano, Silvia},
    url-hal= {https://hal.inria.fr/hal-01387297},
    JOURNAL = {{Journal of Thoracic and Cardiovascular Surgery}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {153},
    NUMBER = {2},
    PAGES = {418 - 427},
    YEAR = {2017},
    MONTH = Feb,
    DOI = {10.1016/j.jtcvs.2016.09.018},
    HAL_ID = {hal-01387297},
    HAL_VERSION = {v1},
    
    }
    


  3. Jan L. Bruse, Maria A. Zuluaga, Abbas Khushnood, Kristin Mcleod, Hopewell N. Ntsinjana, Tain-Yen Hsia, Maxime Sermesant, Xavier Pennec, Andrew M. Taylor, and Silvia Schievano. Detecting clinically meaningful shape clusters in medical image data: metrics analysis for hierarchical clustering applied to healthy and pathological aortic arches. IEEE Transactions on Biomedical Engineering, pp 1 - 13, February 2017.
    @article{bruse:hal-01421202,
    TITLE = {{Detecting clinically meaningful shape clusters in medical image data: metrics analysis for hierarchical clustering applied to healthy and pathological aortic arches}},
    AUTHOR = {Bruse, Jan L. and Zuluaga, Maria A. and Khushnood, Abbas and Mcleod, Kristin and Ntsinjana, Hopewell N. and Hsia, Tain-Yen and Sermesant, Maxime and Pennec, Xavier and Taylor, Andrew M. and Schievano, Silvia},
    url-hal= {https://hal.inria.fr/hal-01421202},
    JOURNAL = {{IEEE Transactions on Biomedical Engineering}},
    PUBLISHER = {{Institute of Electrical and Electronics Engineers}},
    PAGES = {1 - 13},
    YEAR = {2017},
    MONTH = Feb,
    DOI = {10.1109/TBME.2017.2655364},
    PDF = {https://hal.inria.fr/hal-01421202/file/07857751.pdf},
    HAL_ID = {hal-01421202},
    HAL_VERSION = {v2},
    
    }
    


  4. Thomas Demarcy, Clair Vandersteen, Nicolas Guevara, Charles Raffaelli, Dan Gnansia, Nicholas Ayache, and Hervé Delingette. Automated analysis of human cochlea shape variability from segmented $\mu$CT images. Computerized Medical Imaging and Graphics, 59(July 2017):1 - 12, 2017. Keyword(s): modiolar axis, shape variability, anatomy, cochlear implant, human cochlea.
    @article{demarcy:hal-01528489,
    TITLE = {{Automated analysis of human cochlea shape variability from segmented $\mu$CT images}},
    AUTHOR = {Demarcy, Thomas and Vandersteen, Clair and Guevara, Nicolas and Raffaelli, Charles and Gnansia, Dan and Ayache, Nicholas and Delingette, Herv{\'e}},
    url-hal= {https://hal.inria.fr/hal-01528489},
    JOURNAL = {{Computerized Medical Imaging and Graphics}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {59},
    NUMBER = {July 2017},
    PAGES = {1 - 12},
    YEAR = {2017},
    DOI = {10.1016/j.compmedimag.2017.04.002},
    KEYWORDS = {modiolar axis ; shape variability ; anatomy ; cochlear implant ; human cochlea},
    PDF = {https://hal.inria.fr/hal-01528489/file/DemarcyCMIG_1503.pdf},
    HAL_ID = {hal-01528489},
    HAL_VERSION = {v1},
    
    }
    


  5. Loïc Devilliers, Stéphanie Allassonnière, Alain Trouvé, and Xavier Pennec. Inconsistency of template estimation by minimizing of the variance/pre-variance in the quotient space. Entropy, 19(6):28, June 2017. Keyword(s): inconsistency, template estimation, regularization, deformable model, Hilbert space, Fréchet mean, quotient space.
    @article{devilliers:hal-01543616,
    TITLE = {{Inconsistency of template estimation by minimizing of the variance/pre-variance in the quotient space}},
    AUTHOR = {Devilliers, Lo{\"i}c and Allassonni{\`e}re, St{\'e}phanie and Trouv{\'e}, Alain and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-01543616},
    JOURNAL = {{Entropy}},
    PUBLISHER = {{MDPI}},
    VOLUME = {19},
    NUMBER = {6},
    PAGES = {28},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.3390/e19060288},
    KEYWORDS = { inconsistency ; template estimation ; regularization ; deformable model ; Hilbert space ; Fr{\'e}chet mean ; quotient space},
    PDF = {https://hal.inria.fr/hal-01543616/file/entropyHal.pdf},
    HAL_ID = {hal-01543616},
    HAL_VERSION = {v1},
    
    }
    


  6. Loïc Devilliers, Stéphanie Allassonnière, Alain Trouvé, and Xavier Pennec. Template estimation in computational anatomy: Fréchet means in top and quotient spaces are not consistent. SIAM Journal on Imaging Sciences, 10(3):1139-1169, August 2017. Keyword(s): Hilbert space, empirical Fréchet mean, manifold, inconsistency, Fréchet mean, quotient space, Template, consistency bias, group action.
    @article{devilliers:hal-01352707,
    TITLE = {{Template estimation in computational anatomy: Fr{\'e}chet means in top and quotient spaces are not consistent}},
    AUTHOR = {Devilliers, Lo{\"i}c and Allassonni{\`e}re, St{\'e}phanie and Trouv{\'e}, Alain and Pennec, Xavier},
    url-hal= {https://hal.archives-ouvertes.fr/hal-01352707},
    JOURNAL = {{SIAM Journal on Imaging Sciences}},
    PUBLISHER = {{Society for Industrial and Applied Mathematics}},
    VOLUME = {10},
    NUMBER = {3},
    PAGES = {1139-1169},
    YEAR = {2017},
    MONTH = Aug,
    DOI = {10.1137/16M1083931},
    KEYWORDS = {Hilbert space ; empirical Fr{\'e}chet mean ; manifold ; inconsistency ; Fr{\'e}chet mean ; quotient space ; Template ; consistency bias ; group action},
    PDF = {https://hal.archives-ouvertes.fr/hal-01352707/file/InconsistencySIIMSDevilliers.pdf},
    HAL_ID = {hal-01352707},
    HAL_VERSION = {v4},
    
    }
    


  7. Sophie Giffard-Roisin, Thomas Jackson, Lauren Fovargue, Jack Lee, Hervé Delingette, Reza Razavi, Nicholas Ayache, and Maxime Sermesant. Non-Invasive Personalisation of a Cardiac Electrophysiology Model from Body Surface Potential Mapping. IEEE Transactions on Biomedical Engineering, 64(9):2206 - 2218, September 2017. Note: Selected for the TBME highlights, sept. 2017rlhttps://tbme.embs.org/2017/08/24/non-invasive-personalisation-cardiac-electrophysiology-model-body-surface-potential-mapping/. Keyword(s): Parameter estimation, ECG Imaging, Personalisation, Cardiac Electrophysiology, In- verse Problem of ECG.
    @article{giffardroisin:hal-01397393,
    TITLE = {{Non-Invasive Personalisation of a Cardiac Electrophysiology Model from Body Surface Potential Mapping}},
    AUTHOR = {Giffard-Roisin, Sophie and Jackson, Thomas and Fovargue, Lauren and Lee, Jack and Delingette, Herv{\'e} and Razavi, Reza and Ayache, Nicholas and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-01397393},
    NOTE = {Selected for the TBME highlights, sept. 2017\url{https://tbme.embs.org/2017/08/24/non-invasive-personalisation-cardiac-electrophysiology-model-body-surface-potential-mapping/}},
    JOURNAL = {{IEEE Transactions on Biomedical Engineering}},
    PUBLISHER = {{Institute of Electrical and Electronics Engineers}},
    SERIES = { IEEE Transactions on Biomedical Engineering},
    VOLUME = {64},
    NUMBER = {9},
    PAGES = {2206 - 2218},
    YEAR = {2017},
    MONTH = Sep,
    DOI = {10.1109/TBME.2016.2629849},
    KEYWORDS = {Parameter estimation ; ECG Imaging ; Personalisation ; Cardiac Electrophysiology ; In- verse Problem of ECG},
    PDF = {https://hal.inria.fr/hal-01397393/file/TBME_acceptedversion.pdf},
    HAL_ID = {hal-01397393},
    HAL_VERSION = {v1},
    
    }
    


  8. Pietro Gori, Olivier Colliot, Linda Marrakchi-Kacem, Yulia Worbe, Cyril Poupon, Andreas Hartmann, Nicholas Ayache, and Stanley Durrleman. A Bayesian Framework for Joint Morphometry of Surface and Curve meshes in Multi-Object Complexes. Medical Image Analysis, 35:458-474, January 2017. Keyword(s): atlas, varifolds, Bayesian, shape, morphometry, fiber bundle, complex, multi - object.
    @article{gori:hal-01359423,
    TITLE = {{A Bayesian Framework for Joint Morphometry of Surface and Curve meshes in Multi-Object Complexes}},
    AUTHOR = {Gori, Pietro and Colliot, Olivier and Marrakchi-Kacem, Linda and Worbe, Yulia and Poupon, Cyril and Hartmann, Andreas and Ayache, Nicholas and Durrleman, Stanley},
    url-hal= {https://hal.inria.fr/hal-01359423},
    JOURNAL = {{Medical Image Analysis}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {35},
    PAGES = {458-474},
    YEAR = {2017},
    MONTH = Jan,
    DOI = {10.1016/j.media.2016.08.011},
    KEYWORDS = {atlas ; varifolds ; Bayesian ; shape ; morphometry ; fiber bundle ; complex ; multi - object},
    PDF = {https://hal.inria.fr/hal-01359423/file/Articolo_Bayesian_LAST.pdf},
    HAL_ID = {hal-01359423},
    HAL_VERSION = {v1},
    
    }
    


  9. Bishesh Khanal, Nicholas Ayache, and Xavier Pennec. Simulating Longitudinal Brain MRIs with known Volume Changes and Realistic Variations in Image Intensity. Frontiers in Neuroscience, 11(Article 132):18, February 2017. Keyword(s): synthetic images, Neurodegeneration, biophysical modelling, simulated database, biomechanical simulation, synthetic.
    @article{khanal:hal-01348959,
    TITLE = {{Simulating Longitudinal Brain MRIs with known Volume Changes and Realistic Variations in Image Intensity}},
    AUTHOR = {Khanal, Bishesh and Ayache, Nicholas and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-01348959},
    JOURNAL = {{Frontiers in Neuroscience}},
    PUBLISHER = {{Frontiers}},
    VOLUME = {11},
    NUMBER = {Article 132},
    PAGES = {18},
    YEAR = {2017},
    MONTH = Feb,
    DOI = {10.3389/fnins.2017.00132},
    KEYWORDS = {synthetic images ; Neurodegeneration ; biophysical modelling ; simulated database ; biomechanical simulation ; synthetic},
    PDF = {https://hal.inria.fr/hal-01348959/file/fnins-11-00132.pdf},
    HAL_ID = {hal-01348959},
    HAL_VERSION = {v3},
    
    }
    


  10. Loïc Le Folgoc, Hervé Delingette, Antonio Criminisi, and Nicholas Ayache. Sparse Bayesian registration of medical images for self-tuning of parameters and spatially adaptive parametrization of displacements. Medical Image Analysis, 36:79 - 97, February 2017. Keyword(s): Registration, Sparse, Cardiac Imaging, Automatic Relevance Determination, Bayesian modelling.
    @article{lefolgoc:hal-01149544,
    TITLE = {{Sparse Bayesian registration of medical images for self-tuning of parameters and spatially adaptive parametrization of displacements}},
    AUTHOR = {Le Folgoc, Lo{\"i}c and Delingette, Herv{\'e} and Criminisi, Antonio and Ayache, Nicholas},
    url-hal= {https://hal.inria.fr/hal-01149544},
    JOURNAL = {{Medical Image Analysis}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {36},
    PAGES = {79 - 97},
    YEAR = {2017},
    MONTH = Feb,
    DOI = {10.1016/j.media.2016.09.008},
    KEYWORDS = {Registration ; Sparse ; Cardiac Imaging ; Automatic Relevance Determination ; Bayesian modelling},
    PDF = {https://hal.inria.fr/hal-01149544/file/lefolgoc2016MedIA-accepted-HAL-version.pdf},
    HAL_ID = {hal-01149544},
    HAL_VERSION = {v2},
    
    }
    


  11. 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.
    @article{lorenzi:hal-01617750,
    TITLE = {{Probabilistic disease progression modeling to characterize diagnostic uncertainty: application to staging and prediction in Alzheimer's disease}},
    AUTHOR = {Lorenzi, Marco and Filippone, Maurizio and Frisoni, Giovanni and Alexander, Daniel C and Ourselin, S{\'e}bastien},
    url-hal= {https://hal.archives-ouvertes.fr/hal-01617750},
    JOURNAL = {{NeuroImage}},
    PUBLISHER = {{Elsevier}},
    YEAR = {2017},
    MONTH = Oct,
    PDF = {https://hal.archives-ouvertes.fr/hal-01617750/file/time_series_journal.pdf},
    HAL_ID = {hal-01617750},
    HAL_VERSION = {v1},
    
    }
    


  12. 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.
    @article{mendelson:hal-01843390,
    TITLE = {{Selection bias in the reported performances of AD classification pipelines}},
    AUTHOR = {Mendelson, Alex F. and Zuluaga, Maria A. and Lorenzi, Marco and Hutton, Brian F. and Ourselin, S{\'e}bastien},
    url-hal= {https://hal.inria.fr/hal-01843390},
    JOURNAL = {{Neuroimage-Clinical}},
    PUBLISHER = {{ Elsevier}},
    VOLUME = {14},
    PAGES = {400 - 416},
    YEAR = {2017},
    DOI = {10.1016/j.nicl.2016.12.018},
    KEYWORDS = {Alzheimer's disease ; Classification ; Cross validation ; Selection bias ; Overfitting ; ADNI},
    PDF = {https://hal.inria.fr/hal-01843390/file/1-s2.0-S221315821630256X-main.pdf},
    HAL_ID = {hal-01843390},
    HAL_VERSION = {v1},
    
    }
    


  13. Nina Miolane. Les maths de l'espace-temps qui décrivent et dépassent le cerveau. Interstices, February 2017. Keyword(s): anatomie cérébrale, anatomie numérique, modélisation mathématique, géométrie riemannienne, cortex visuel, neuroimagerie, image 3D, perception visuelle.
    @article{miolane:hal-01503822,
    TITLE = {{Les maths de l'espace-temps qui d{\'e}crivent et d{\'e}passent le cerveau}},
    AUTHOR = {Miolane, Nina},
    url-hal= {https://hal.inria.fr/hal-01503822},
    JOURNAL = {{Interstices}},
    PUBLISHER = {{INRIA}},
    YEAR = {2017},
    MONTH = Feb,
    KEYWORDS = {anatomie c{\'e}r{\'e}brale ; anatomie num{\'e}rique ; mod{\'e}lisation math{\'e}matique ; g{\'e}om{\'e}trie riemannienne ; cortex visuel ; neuroimagerie ; image 3D ; perception visuelle},
    HAL_ID = {hal-01503822},
    HAL_VERSION = {v1},
    
    }
    


  14. Nina Miolane, Susan Holmes, and Xavier Pennec. Template Shape Estimation: Correcting an Asymptotic Bias. SIAM Journal on Imaging Sciences, 10(2):808 - 844, 2017. Keyword(s): geometry, quotient space, manifold, template, consistency, shape, bias.
    @article{miolane:hal-01350508,
    TITLE = {{Template Shape Estimation: Correcting an Asymptotic Bias}},
    AUTHOR = {Miolane, Nina and Holmes, Susan and Pennec, Xavier},
    url-hal= {https://hal.archives-ouvertes.fr/hal-01350508},
    JOURNAL = {{SIAM Journal on Imaging Sciences}},
    PUBLISHER = {{Society for Industrial and Applied Mathematics}},
    VOLUME = {10},
    NUMBER = {2},
    PAGES = {808 - 844},
    YEAR = {2017},
    DOI = {10.1137/16M1084493},
    KEYWORDS = {geometry ; quotient space ; manifold ; template ; consistency ; shape ; bias},
    PDF = {https://hal.archives-ouvertes.fr/hal-01350508/file/siims_article_black.pdf},
    HAL_ID = {hal-01350508},
    HAL_VERSION = {v2},
    
    }
    


  15. Roch Molléro, Xavier Pennec, Hervé Delingette, Alan Garny, Nicholas Ayache, and Maxime Sermesant. Multifidelity-CMA: a multifidelity approach for efficient personalisation of 3D cardiac electromechanical models. Biomechanics and Modeling in Mechanobiology, pp 1-16, September 2017. Keyword(s): Parameter Estimation, Finite Element Mechanical modeling, Cardiac Electromechanical Modeling, Reduced Model, Multi-fidelity Modeling.
    @article{mollero:hal-01656008,
    TITLE = {{Multifidelity-CMA: a multifidelity approach for efficient personalisation of 3D cardiac electromechanical models}},
    AUTHOR = {Moll{\'e}ro, Roch and Pennec, Xavier and Delingette, Herv{\'e} and Garny, Alan and Ayache, Nicholas and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-01656008},
    JOURNAL = {{Biomechanics and Modeling in Mechanobiology}},
    PUBLISHER = {{Springer Verlag}},
    PAGES = {1-16},
    YEAR = {2017},
    MONTH = Sep,
    DOI = {10.1007/s10237-017-0960-0},
    KEYWORDS = {Parameter Estimation ; Finite Element Mechanical modeling ; Cardiac Electromechanical Modeling ; Reduced Model ; Multi-fidelity Modeling},
    PDF = {https://hal.inria.fr/hal-01656008/file/BMMB_Paper___Multifidelity_CMA___Camera_Ready.pdf},
    HAL_ID = {hal-01656008},
    HAL_VERSION = {v1},
    
    }
    


  16. Naiara Rodriguez-Florez, Jan L. Bruse, Alessandro Borghi, Herman Vercruysse, Juling Ong, Greg James, Xavier Pennec, David J. Dunaway, Owase Jeelani, and Silvia Schievano. Statistical shape modelling to aid surgical planning: associations between surgical parameters and head shapes following spring-assisted cranioplasty. International Journal of Computer Assisted Radiology and Surgery, pp 1-11, May 2017.
    @article{rodriguezflorez:hal-01540631,
    TITLE = {{Statistical shape modelling to aid surgical planning: associations between surgical parameters and head shapes following spring-assisted cranioplasty}},
    AUTHOR = {Rodriguez-Florez, Naiara and Bruse, Jan L. and Borghi, Alessandro and Vercruysse, Herman and Ong, Juling and James, Greg and Pennec, Xavier and Dunaway, David J. and Jeelani, Owase and Schievano, Silvia},
    url-hal= {https://hal.inria.fr/hal-01540631},
    JOURNAL = {{International Journal of Computer Assisted Radiology and Surgery}},
    PUBLISHER = {{Springer Verlag}},
    PAGES = {1-11},
    YEAR = {2017},
    MONTH = May,
    DOI = {10.1007/s11548-017-1614-5},
    PDF = {https://hal.inria.fr/hal-01540631/file/Rodriguez-Florez_et_al-2017-International_Journal_of_Computer_Assisted_Radiology_and_Surgery.pdf},
    HAL_ID = {hal-01540631},
    HAL_VERSION = {v1},
    
    }
    


  17. Sergio Sanchez-Martinez, Nicolas Duchateau, Tamas Erdei, Alan Fraser, Bart Bijnens, and Gemma Piella. Characterization of myocardial motion patterns by unsupervised multiple kernel learning. Medical Image Analysis, 35:70-82, 2017. Keyword(s): echocardiography, pattern analysis, multiple kernel learning, Myocardial motion.
    @article{sanchezmartinez:hal-01331550,
    TITLE = {{Characterization of myocardial motion patterns by unsupervised multiple kernel learning}},
    AUTHOR = {Sanchez-Martinez, Sergio and Duchateau, Nicolas and Erdei, Tamas and Fraser, Alan and Bijnens, Bart and Piella, Gemma},
    url-hal= {https://hal.inria.fr/hal-01331550},
    JOURNAL = {{Medical Image Analysis}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {35},
    PAGES = {70--82},
    YEAR = {2017},
    DOI = {10.1016/j.media.2016.06.007},
    KEYWORDS = {echocardiography ; pattern analysis ; multiple kernel learning ; Myocardial motion},
    PDF = {https://hal.inria.fr/hal-01331550/file/jsanchezmartinez_media_2016_finalok.pdf},
    HAL_ID = {hal-01331550},
    HAL_VERSION = {v1},
    
    }
    


  18. Walther Schulze, Zhong Chen, Jatin Relan, Danila Potyagaylo, Martin W. Krueger, Rashed Karim, Manav Sohal, Anoop Shetty, Yingliang Ma, Nicholas Ayache, Maxime Sermesant, Hervé Delingette, Julian Bostock, Reza Razavi, Kawal S. Rhode, and Christopher A. Rinaldi. ECG imaging of ventricular tachycardia: evaluation against simultaneous non-contact mapping and CMR-derived grey zone. Medical and Biological Engineering and Computing, 55(6):979 - 990, June 2017. Keyword(s): Inverse problem of ECG, Clinical validation, Ventricular tachycardia, Non-contact mapping, ECG imaging.
    @article{schulze:hal-01598299,
    TITLE = {{ECG imaging of ventricular tachycardia: evaluation against simultaneous non-contact mapping and CMR-derived grey zone}},
    AUTHOR = {Schulze, Walther and Chen, Zhong and Relan, Jatin and Potyagaylo, Danila and Krueger, Martin W. and Karim, Rashed and Sohal, Manav and Shetty, Anoop and Ma, Yingliang and Ayache, Nicholas and Sermesant, Maxime and Delingette, Herv{\'e} and Bostock, Julian and Razavi, Reza and Rhode, Kawal S. and Rinaldi, Christopher A.},
    url-hal= {https://hal.inria.fr/hal-01598299},
    JOURNAL = {{Medical and Biological Engineering and Computing}},
    PUBLISHER = {{Springer Verlag}},
    VOLUME = {55},
    NUMBER = {6},
    PAGES = {979 - 990},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/s11517-016-1566-x},
    KEYWORDS = {Inverse problem of ECG ; Clinical validation ; Ventricular tachycardia ; Non-contact mapping ; ECG imaging},
    PDF = {https://hal.inria.fr/hal-01598299/file/10.1007-s11517-016-1566-x.pdf},
    HAL_ID = {hal-01598299},
    HAL_VERSION = {v1},
    
    }
    


  19. David Soto-Iglesias, Nicolas Duchateau, Constantine Butakoff, David Andreu, Juan Fernández-Armenta, Bart Bijnens, Antonio Berruezo, Marta Sitges, and Oscar Camara. Quantitative analysis of electro-anatomical maps: application to an experimental model of LBBB/CRT. IEEE Journal of Translational Engineering in Health and Medicine, 5:1900215, 2017. Keyword(s): subject - specific 2D and 3D data representation, Cardiac resynchronization therapy, electro - anatomical mapping system, quantitative pattern analysis, left bundle branch block, lead placement.
    @article{sotoiglesias:hal-01398828,
    TITLE = {{Quantitative analysis of electro-anatomical maps: application to an experimental model of LBBB/CRT}},
    AUTHOR = {Soto-Iglesias, David and Duchateau, Nicolas and Butakoff, Constantine and Andreu, David and Fern{\'a}ndez-Armenta, Juan and Bijnens, Bart and Berruezo, Antonio and Sitges, Marta and Camara, Oscar},
    url-hal= {https://hal.inria.fr/hal-01398828},
    JOURNAL = {{IEEE Journal of Translational Engineering in Health and Medicine}},
    PUBLISHER = {{IEEE}},
    VOLUME = {5},
    PAGES = {1900215},
    YEAR = {2017},
    DOI = {10.1109/JTEHM.2016.2634006},
    KEYWORDS = {subject - specific 2D and 3D data representation ; Cardiac resynchronization therapy ; electro - anatomical mapping system ; quantitative pattern analysis ; left bundle branch block ; lead placement},
    PDF = {https://hal.inria.fr/hal-01398828/file/jSoto_JTEHM_2017_FINAL.pdf},
    HAL_ID = {hal-01398828},
    HAL_VERSION = {v1},
    
    }
    


  20. Zhiyu Tian and Chenyang Xu. Finiteness of fundamental groups. Compositio Mathematica, 153(02):257-273, February 2017.
    @article{tian:hal-01975531,
    TITLE = {{Finiteness of fundamental groups}},
    AUTHOR = {Tian, Zhiyu and Xu, Chenyang},
    url-hal= {https://hal.archives-ouvertes.fr/hal-01975531},
    JOURNAL = {{Compositio Mathematica}},
    HAL_LOCAL_REFERENCE = {AG},
    PUBLISHER = {{Foundation Compositio Mathematica}},
    VOLUME = {153},
    NUMBER = {02},
    PAGES = {257-273},
    YEAR = {2017},
    MONTH = Feb,
    HAL_ID = {hal-01975531},
    HAL_VERSION = {v1},
    
    }
    


  21. Stéphanie Marchesseau, Simon Chatelin, and Hervé Delingette. Non linear Biomechanical Model of the Liver. In Yohan Payan and Jacques Ohayon, editors, Biomechanics of Living Organs, pages 602. Elsevier, June 2017. Keyword(s): Finite element method, Liver, Biomechanics, Rheology.
    @incollection{marchesseau:hal-01536406,
    TITLE = {{Non linear Biomechanical Model of the Liver}},
    AUTHOR = {Marchesseau, St{\'e}phanie and Chatelin, Simon and Delingette, Herv{\'e}},
    url-hal= {https://hal.inria.fr/hal-01536406},
    BOOKTITLE = {{Biomechanics of Living Organs}},
    EDITOR = {Yohan Payan and Jacques Ohayon},
    PUBLISHER = {{Elsevier}},
    PAGES = {602},
    YEAR = {2017},
    MONTH = Jun,
    KEYWORDS = {Finite element method ; Liver ; Biomechanics ; Rheology},
    PDF = {https://hal.inria.fr/hal-01536406/file/LiverHyperElasticity.pdf},
    HAL_ID = {hal-01536406},
    HAL_VERSION = {v1},
    
    }
    


  22. Stéphanie Marchesseau, Simon Chatelin, and Hervé Delingette. Nonlinear Biomechanical Model of the Liver. In Biomechanics of Living Organs, pages 243-265. Elsevier, 2017.
    @incollection{marchesseau:hal-02324773,
    TITLE = {{Nonlinear Biomechanical Model of the Liver}},
    AUTHOR = {Marchesseau, St{\'e}phanie and Chatelin, Simon and Delingette, Herv{\'e}},
    url-hal= {https://hal.archives-ouvertes.fr/hal-02324773},
    BOOKTITLE = {{Biomechanics of Living Organs}},
    PUBLISHER = {{Elsevier}},
    PAGES = {243-265},
    YEAR = {2017},
    DOI = {10.1016/B978-0-12-804009-6.00011-0},
    HAL_ID = {hal-02324773},
    HAL_VERSION = {v1},
    
    }
    


Conference articles

  1. Nicolas Cedilnik, Josselin Duchateau, Rémi Dubois, Pierre Jaïs, Hubert Cochet, and Maxime Sermesant. VT Scan: Towards an Efficient Pipeline from Computed Tomography Images to Ventricular Tachycardia Ablation. In Functional Imaging and Modelling of the Heart, Functional Imaging and Modelling of the Heart, Toronto, Canada, pages 271-279, June 2017. Springer International Publishing. Keyword(s): Catheter ablation, Ventricular tachycardia, Heart imaging, Electrophysiological modelling.
    @inproceedings{cedilnik:hal-01498672,
    TITLE = {{VT Scan: Towards an Efficient Pipeline from Computed Tomography Images to Ventricular Tachycardia Ablation}},
    AUTHOR = {Cedilnik, Nicolas and Duchateau, Josselin and Dubois, R{\'e}mi and Ja{\"i}s, Pierre and Cochet, Hubert and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-01498672},
    BOOKTITLE = {{Functional Imaging and Modelling of the Heart}},
    ADDRESS = {Toronto, Canada},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Functional Imaging and Modelling of the Heart},
    PAGES = {271-279},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/978-3-319-59448-4\_26},
    KEYWORDS = {Catheter ablation ; Ventricular tachycardia ; Heart imaging ; Electrophysiological modelling},
    PDF = {https://hal.inria.fr/hal-01498672/file/vtscan.pdf},
    HAL_ID = {hal-01498672},
    HAL_VERSION = {v2},
    
    }
    


  2. Loïc Devilliers, Xavier Pennec, and Stéphanie Allassonnière. Inconsistency of Template Estimation with the Fréchet mean in Quotient Space. In Information Processing in Medical Imaging 2017, Information Processing in Medical Imaging: 25th International Conference, IPMI 2017, Boone, NC, USA, June 25-30, 2017, Proceedings, Boone, United States, pages 12, June 2017. Martin Styner and Marc Niethammer and Dinggang Shen and Stephen Aylward and Ipek Oguz and Hongtu Zhu.
    @inproceedings{devilliers:hal-01481074,
    TITLE = {{Inconsistency of Template Estimation with the Fr{\'e}chet mean in Quotient Space}},
    AUTHOR = {Devilliers, Lo{\"i}c and Pennec, Xavier and Allassonni{\`e}re, St{\'e}phanie},
    url-hal= {https://hal.inria.fr/hal-01481074},
    BOOKTITLE = {{Information Processing in Medical Imaging 2017}},
    ADDRESS = {Boone, United States},
    ORGANIZATION = {{Martin Styner and Marc Niethammer and Dinggang Shen and Stephen Aylward and Ipek Oguz and Hongtu Zhu}},
    SERIES = {Information Processing in Medical Imaging: 25th International Conference, IPMI 2017, Boone, NC, USA, June 25-30, 2017, Proceedings},
    PAGES = {12},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/978-3-319-59050-9\_2},
    PDF = {https://hal.inria.fr/hal-01481074/file/IPMIversionHAL.pdf},
    HAL_ID = {hal-01481074},
    HAL_VERSION = {v2},
    
    }
    


  3. Rubén Doste, David Soto-Iglesias, Gabriel Bernardino, Rafael Sebastian, Sophie Giffard-Roisin, Rocìo Cabrera-Lozoya, Maxime Sermesant, Antonio Berruezo, Damián Sánchez-Quintana, and Oscar Camara. A Rule-Based Method to Model Myocardial Fiber Orientation for Simulating Ventricular Outflow Tract Arrhythmias. In Lecture Notes in Computer Science, editor, Functional imaging and modelling of the heart 2017, volume 10263 of Functional imaging and modelling of the heart 2017 Proceedings, Toronto, Canada, June 2017. Keyword(s): Fiber orientation, Rule-based method, Electrophysiological simulations, Arrhythmias, Outflow tracts.
    @inproceedings{doste:hal-01533389,
    TITLE = {{A Rule-Based Method to Model Myocardial Fiber Orientation for Simulating Ventricular Outflow Tract Arrhythmias}},
    AUTHOR = {Doste, Rub{\'e}n and Soto-Iglesias, David and Bernardino, Gabriel and Sebastian, Rafael and Giffard-Roisin, Sophie and Cabrera-Lozoya, Roc{\'i}o and Sermesant, Maxime and Berruezo, Antonio and S{\'a}nchez-Quintana, Dami{\'a}n and Camara, Oscar},
    url-hal= {https://hal.inria.fr/hal-01533389},
    BOOKTITLE = {{Functional imaging and modelling of the heart 2017}},
    ADDRESS = {Toronto, Canada},
    EDITOR = {Lecture Notes in Computer Science},
    SERIES = {Functional imaging and modelling of the heart 2017 Proceedings},
    VOLUME = {10263},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/978-3-319-59448-4\_33},
    KEYWORDS = {Fiber orientation ; Rule-based method ; Electrophysiological simulations ; Arrhythmias ; Outflow tracts},
    HAL_ID = {hal-01533389},
    HAL_VERSION = {v1},
    
    }
    


  4. Sophie Giffard-Roisin, Hervé Delingette, Thomas Jackson, Lauren Fovargue, Jack Lee, Aldo Rinaldi, Nicholas Ayache, Reza Razavi, and Maxime Sermesant. Sparse Bayesian Non-linear Regression for Multiple Onsets Estimation in Non-invasive Cardiac Electrophysiology. In Mihaela Pop, editor, Functional imaging and modelling of the heart 2017, Functional imaging and modelling of the heart 2017, Toronto, Canada, pages 230-238, June 2017. Springer International Publishing. Note: Best paper award FIMH 2017, category: Electrophysiology. Keyword(s): ECG Imaging, Personalisation, Relevance Vector Machine, Cardiac Electrophysiology.
    @inproceedings{giffardroisin:hal-01498602,
    TITLE = {{Sparse Bayesian Non-linear Regression for Multiple Onsets Estimation in Non-invasive Cardiac Electrophysiology}},
    AUTHOR = {Giffard-Roisin, Sophie and Delingette, Herv{\'e} and Jackson, Thomas and Fovargue, Lauren and Lee, Jack and Rinaldi, Aldo and Ayache, Nicholas and Razavi, Reza and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-01498602},
    NOTE = {Best paper award FIMH 2017, category: Electrophysiology},
    BOOKTITLE = {{Functional imaging and modelling of the heart 2017}},
    ADDRESS = {Toronto, Canada},
    EDITOR = {Mihaela Pop},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Functional imaging and modelling of the heart 2017},
    PAGES = {230-238},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/978-3-319-59448-4\_22},
    KEYWORDS = {ECG Imaging ; Personalisation ; Relevance Vector Machine ; Cardiac Electrophysiology},
    PDF = {https://hal.inria.fr/hal-01498602/file/FIMH_2017_cameraready.pdf},
    HAL_ID = {hal-01498602},
    HAL_VERSION = {v1},
    
    }
    


  5. Shuman Jia, Claudia Camaioni, Marc-Michel Rohé, Pierre Jaïs, Xavier Pennec, Hubert Cochet, and Maxime Sermesant. Prediction of Post-Ablation Outcome in Atrial Fibrillation Using Shape Parameterization and Partial Least Squares Regression. In FIMH 2017 - International Conference on Functional Imaging and Modeling of the Heart, volume 10263 of Lecture Notes in Computer Science, Toronto, Canada, pages 314 - 321, June 2017. Keyword(s): atrial fibrillation, catheter ablation, post-ablation outcome, left atrial remodeling, statistical shape analysis, partial least squares, regression.
    @inproceedings{jia:hal-01574831,
    TITLE = {{Prediction of Post-Ablation Outcome in Atrial Fibrillation Using Shape Parameterization and Partial Least Squares Regression}},
    AUTHOR = {Jia, Shuman and Camaioni, Claudia and Roh{\'e}, Marc-Michel and Ja{\"i}s, Pierre and Pennec, Xavier and Cochet, Hubert and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-01574831},
    BOOKTITLE = {{FIMH 2017 - International Conference on Functional Imaging and Modeling of the Heart}},
    ADDRESS = {Toronto, Canada},
    SERIES = {Lecture Notes in Computer Science},
    VOLUME = {10263},
    PAGES = {314 - 321},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/978-3-319-59448-4\_30},
    KEYWORDS = {atrial fibrillation ; catheter ablation ; post-ablation outcome ; left atrial remodeling ; statistical shape analysis ; partial least squares ; regression},
    PDF = {https://hal.inria.fr/hal-01574831/file/FIMH_ShapePLS-1.pdf},
    HAL_ID = {hal-01574831},
    HAL_VERSION = {v1},
    
    }
    


  6. Julian Krebs, Tommaso Mansi, Hervé Delingette, Li Zhang, Florin C Ghesu, Shun Miao, Andreas Maier, Nicholas Ayache, Rui Liao, and Ali Kamen. Robust non-rigid registration through agent-based action learning. In Medical Image Computing and Computer Assisted Interventions (MICCAI), Medical Image Computing and Computer Assisted Intervention -- MICCAI 2017, Quebec, Canada, pages 344-352, September 2017. Springer International Publishing. Keyword(s): Image registration, reinforcement learning.
    @inproceedings{krebs:hal-01569447,
    TITLE = {{Robust non-rigid registration through agent-based action learning}},
    AUTHOR = {Krebs, Julian and Mansi, Tommaso and Delingette, Herv{\'e} and Zhang, Li and Ghesu, Florin C and Miao, Shun and Maier, Andreas and Ayache, Nicholas and Liao, Rui and Kamen, Ali},
    url-hal= {https://hal.inria.fr/hal-01569447},
    BOOKTITLE = {{Medical Image Computing and Computer Assisted Interventions (MICCAI)}},
    ADDRESS = {Quebec, Canada},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Medical Image Computing and Computer Assisted Intervention -- MICCAI 2017},
    PAGES = {344-352},
    YEAR = {2017},
    MONTH = Sep,
    DOI = {10.1007/978-3-319-66182-7\_40},
    KEYWORDS = {Image registration ; reinforcement learning},
    PDF = {https://hal.inria.fr/hal-01569447/file/miccai17-2.pdf},
    HAL_ID = {hal-01569447},
    HAL_VERSION = {v1},
    
    }
    


  7. Eric Lluch, Rubén Doste, Sophie Giffard-Roisin, Alexandre This, Maxime Sermesant, Oscar Camara, Mathieu De Craene, and Hernán G Morales. Smoothed Particle Hydrodynamics for Electrophysiological Modeling: An Alternative to Finite Element Methods. In FIMH 2017 - 9th International Conference on Functional Imaging and Modelling of the Heart, volume 141 of Functional imaging and modelling of the heart 2017 Proceedings, Toronto, Canada, pages 333-343, June 2017. Springer International Publishing. Keyword(s): Meshless, FEM, Cardiac electrophysiology, SPH.
    @inproceedings{lluch:hal-01533371,
    TITLE = {{Smoothed Particle Hydrodynamics for Electrophysiological Modeling: An Alternative to Finite Element Methods}},
    AUTHOR = {Lluch, Eric and Doste, Rub{\'e}n and Giffard-Roisin, Sophie and This, Alexandre and Sermesant, Maxime and Camara, Oscar and De Craene, Mathieu and Morales, Hern{\'a}n G},
    url-hal= {https://hal.inria.fr/hal-01533371},
    BOOKTITLE = {{FIMH 2017 - 9th International Conference on Functional Imaging and Modelling of the Heart}},
    ADDRESS = {Toronto, Canada},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Functional imaging and modelling of the heart 2017 Proceedings},
    VOLUME = {141},
    PAGES = {333-343},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/978-3-319-59448-4\_32},
    KEYWORDS = {Meshless ; FEM ; Cardiac electrophysiology ; SPH},
    PDF = {https://hal.inria.fr/hal-01533371/file/paperFIMH.pdf},
    HAL_ID = {hal-01533371},
    HAL_VERSION = {v1},
    
    }
    


  8. R azvan Valentin Marinescu, Arman Esaghi, Marco Lorenzi, Alexandra L. Young, Neil P. Oxtoby, Sara Garbarino, Timothy J. Shakespeare, Sebastian Crutch, and Daniel C Alexander. A Vertex Clustering Model for Disease Progression: Application to Cortical Thickness Images. In International Conference on Information Processing in Medical Imaging (IPMI), Boone, United States, July 2017.
    @inproceedings{marinescu:hal-01843387,
    TITLE = {{A Vertex Clustering Model for Disease Progression: Application to Cortical Thickness Images}},
    AUTHOR = {Marinescu, R{\u a}zvan Valentin and Esaghi, Arman and Lorenzi, Marco and Young, Alexandra L. and Oxtoby, Neil P. and Garbarino, Sara and Shakespeare, Timothy J. and Crutch, Sebastian and Alexander, Daniel C},
    url-hal= {https://hal.inria.fr/hal-01843387},
    BOOKTITLE = {{International Conference on Information Processing in Medical Imaging (IPMI)}},
    ADDRESS = {Boone, United States},
    YEAR = {2017},
    MONTH = Jul,
    HAL_ID = {hal-01843387},
    HAL_VERSION = {v1},
    
    }
    


  9. Kristin Mcleod, Maxime Sermesant, and Xavier Pennec. Improving Understanding of Long-Term Cardiac Functional Remodelling via Cross-Sectional Analysis of Polyaffine Motion Parameters. In FIMH 2017 - 9th International Conference on Functional Imaging and Modeling of the Heart, volume 10263 of Lecture Notes in Computer Science, Toronto, Canada, pages 51 - 59, June 2017. Springer.
    @inproceedings{mcleod:hal-01574837,
    TITLE = {{Improving Understanding of Long-Term Cardiac Functional Remodelling via Cross-Sectional Analysis of Polyaffine Motion Parameters}},
    AUTHOR = {Mcleod, Kristin and Sermesant, Maxime and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-01574837},
    BOOKTITLE = {{FIMH 2017 - 9th International Conference on Functional Imaging and Modeling of the Heart}},
    ADDRESS = {Toronto, Canada},
    PUBLISHER = {{Springer}},
    SERIES = {Lecture Notes in Computer Science},
    VOLUME = {10263},
    PAGES = {51 - 59},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/978-3-319-59448-4\_6},
    PDF = {https://hal.inria.fr/hal-01574837/file/MeanMotionEvolutionFIMH-1.pdf},
    HAL_ID = {hal-01574837},
    HAL_VERSION = {v1},
    
    }
    


  10. Pamela Moceri, Nicolas Duchateau, Delphine Baudouy, Elie-Dan Schouver, P Bouvier, S Leroy, P Cerboni, P Gibelin, Maxime Sermesant, and Emile Ferrari. Three-dimensional speckle tracking of the right ventricle : implications on survival. In Journées Européennes de la Société Française de Cardiologie, Paris, France, 2017.
    @inproceedings{moceri:hal-02161690,
    TITLE = {{Three-dimensional speckle tracking of the right ventricle : implications on survival}},
    AUTHOR = {Moceri, Pamela and Duchateau, Nicolas and Baudouy, Delphine and Schouver, Elie-Dan and Bouvier, P and Leroy, S and Cerboni, P and Gibelin, P and Sermesant, Maxime and Ferrari, Emile},
    url-hal= {https://hal.archives-ouvertes.fr/hal-02161690},
    BOOKTITLE = {{Journ{\'e}es Europ{\'e}ennes de la Soci{\'e}t{\'e} Fran{\c c}aise de Cardiologie}},
    ADDRESS = {Paris, France},
    YEAR = {2017},
    HAL_ID = {hal-02161690},
    HAL_VERSION = {v1},
    
    }
    


  11. P Moceri, M Sermesant, D Baudouy, E. Ferrari, and Nicolas Duchateau. 3D right ventricular strain: comparative analysis of Tetralogy of Fallot and atrial septal defect. In Euroecho-Imaging 2017 - Twenty-First Annual Meeting of the European Association of Echocardiography, Lisbon, Portugal, December 2017.
    @inproceedings{moceri:hal-01994491,
    TITLE = {{3D right ventricular strain: comparative analysis of Tetralogy of Fallot and atrial septal defect}},
    AUTHOR = {Moceri, P and Sermesant, M and Baudouy, D and Ferrari, E. and Duchateau, Nicolas},
    url-hal= {https://hal.archives-ouvertes.fr/hal-01994491},
    BOOKTITLE = {{Euroecho-Imaging 2017 - Twenty-First Annual Meeting of the European Association of Echocardiography}},
    ADDRESS = {Lisbon, Portugal},
    YEAR = {2017},
    MONTH = Dec,
    HAL_ID = {hal-01994491},
    HAL_VERSION = {v1},
    
    }
    


  12. Roch Molléro, Hervé Delingette, Manasi Datar, Tobias Heimann, Jakob Hauser, Dilveer Panesar, Alexander Jones, Andrew Taylor, Marcus Kelm, Titus Kuehne, Marcello Chinali, Gabriele Rinelli, Nicholas Ayache, Xavier Pennec, and Maxime Sermesant. Longitudinal Analysis using Personalised 3D Cardiac Models with Population-Based Priors: Application to Paediatric Cardiomyopathies. In Medical Image Computing and Computer Assisted Intervention (MICCAI), Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2017, Québec City, Canada, pages 350-358, September 2017. Springer International Publishing.
    @inproceedings{mollero:hal-01569735,
    TITLE = {{Longitudinal Analysis using Personalised 3D Cardiac Models with Population-Based Priors: Application to Paediatric Cardiomyopathies}},
    AUTHOR = {Moll{\'e}ro, Roch and Delingette, Herv{\'e} and Datar, Manasi and Heimann, Tobias and Hauser, Jakob and Panesar, Dilveer and Jones, Alexander and Taylor, Andrew and Kelm, Marcus and Kuehne, Titus and Chinali, Marcello and Rinelli, Gabriele and Ayache, Nicholas and Pennec, Xavier and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-01569735},
    BOOKTITLE = {{Medical Image Computing and Computer Assisted Intervention (MICCAI)}},
    ADDRESS = {Qu{\'e}bec City, Canada},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2017},
    PAGES = {350-358},
    YEAR = {2017},
    MONTH = Sep,
    DOI = {10.1007/978-3-319-66185-8\_40},
    PDF = {https://hal.inria.fr/hal-01569735/file/paper729.pdf},
    HAL_ID = {hal-01569735},
    HAL_VERSION = {v1},
    
    }
    


  13. Roch Molléro, Jakob Hauser, Xavier Pennec, Manasi Datar, Hervé Delingette, Alexander Jones, Nicholas Ayache, Tobias Heimann, and Maxime Sermesant. Longitudinal Parameter Estimation in 3D Electromechanical Models: Application to Cardiovascular Changes in Digestion. In FIMH 2017 - 9th international conference on Functional Imaging and Modeling of the Heart, Functional Imaging and Modelling of the Heart, Toronto, Canada, pages 432-440, June 2017. Springer International Publishing.
    @inproceedings{mollero:hal-01522598,
    TITLE = {{Longitudinal Parameter Estimation in 3D Electromechanical Models: Application to Cardiovascular Changes in Digestion}},
    AUTHOR = {Moll{\'e}ro, Roch and Hauser, Jakob and Pennec, Xavier and Datar, Manasi and Delingette, Herv{\'e} and Jones, Alexander and Ayache, Nicholas and Heimann, Tobias and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-01522598},
    BOOKTITLE = {{FIMH 2017 - 9th international conference on Functional Imaging and Modeling of the Heart}},
    ADDRESS = {Toronto, Canada},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Functional Imaging and Modelling of the Heart},
    PAGES = {432-440},
    YEAR = {2017},
    MONTH = Jun,
    DOI = {10.1007/978-3-319-59448-4\_41},
    PDF = {https://hal.inria.fr/hal-01522598/file/FIMH_2017_Camera_Ready.pdf},
    HAL_ID = {hal-01522598},
    HAL_VERSION = {v1},
    
    }
    


  14. Xavier Pennec. Sample-limited L p Barycentric Subspace Analysis on Constant Curvature Spaces. In Geometric Sciences of Information (GSI 2017), Geometric Science of Information, Paris, France, pages 20-28, November 2017. Springer International Publishing.
    @inproceedings{pennec:hal-01574895,
    TITLE = {{Sample-limited L p Barycentric Subspace Analysis on Constant Curvature Spaces}},
    AUTHOR = {Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-01574895},
    BOOKTITLE = {{Geometric Sciences of Information (GSI 2017)}},
    ADDRESS = {Paris, France},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Geometric Science of Information},
    PAGES = {20-28},
    YEAR = {2017},
    MONTH = Nov,
    DOI = {10.1007/978-3-319-68445-1\_3},
    PDF = {https://hal.inria.fr/hal-01574895/file/62-Pennec.pdf},
    HAL_ID = {hal-01574895},
    HAL_VERSION = {v1},
    
    }
    


  15. Marc-Michel Rohé, Manasi Datar, Tobias Heimann, Maxime Sermesant, and Xavier Pennec. SVF-Net: Learning Deformable Image Registration Using Shape Matching. In MICCAI 2017 - the 20th International Conference on Medical Image Computing and Computer Assisted Intervention, Medical Image Computing and Computer Assisted Intervention -- MICCAI 2017, Québec, Canada, pages 266-274, September 2017. Springer International Publishing. Keyword(s): Deep Learning, Cardiac Imaging, Registration.
    @inproceedings{rohe:hal-01557417,
    TITLE = {{SVF-Net: Learning Deformable Image Registration Using Shape Matching}},
    AUTHOR = {Roh{\'e}, Marc-Michel and Datar, Manasi and Heimann, Tobias and Sermesant, Maxime and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-01557417},
    BOOKTITLE = {{MICCAI 2017 - the 20th International Conference on Medical Image Computing and Computer Assisted Intervention}},
    ADDRESS = {Qu{\'e}bec, Canada},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Medical Image Computing and Computer Assisted Intervention -- MICCAI 2017},
    PAGES = {266-274},
    YEAR = {2017},
    MONTH = Sep,
    DOI = {10.1007/978-3-319-66182-7\_31},
    KEYWORDS = {Deep Learning ; Cardiac Imaging ; Registration},
    PDF = {https://hal.inria.fr/hal-01557417/file/paper_324.pdf},
    HAL_ID = {hal-01557417},
    HAL_VERSION = {v1},
    
    }
    


  16. Marc-Michel Rohé, Maxime Sermesant, and Xavier Pennec. Automatic Multi-Atlas Segmentation of Myocardium with SVF-Net. In Statistical Atlases and Computational Modeling of the Heart (STACOM) workshop, Québec, Canada, September 2017.
    @inproceedings{rohe:hal-01575297,
    TITLE = {{Automatic Multi-Atlas Segmentation of Myocardium with SVF-Net}},
    AUTHOR = {Roh{\'e}, Marc-Michel and Sermesant, Maxime and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-01575297},
    BOOKTITLE = {{Statistical Atlases and Computational Modeling of the Heart (STACOM) workshop}},
    ADDRESS = {Qu{\'e}bec, Canada},
    YEAR = {2017},
    MONTH = Sep,
    PDF = {https://hal.inria.fr/hal-01575297/file/stacom_seg_v2.pdf},
    HAL_ID = {hal-01575297},
    HAL_VERSION = {v1},
    
    }
    


Patents, standards

  1. Hubert Cochet, Pierre Jaïs, and Maxime Sermesant. Méthode de segmentation d'une image tridimensionnelle pour la génération d'un modèle de paroi du myocarde pour la détection d'au moins une zone de circulation électrique singulière. FR1754107, France, May 2017.
    @patent{cochet:hal-01576064,
    TITLE = {{M{\'e}thode de segmentation d'une image tridimensionnelle pour la g{\'e}n{\'e}ration d'un mod{\`e}le de paroi du myocarde pour la d{\'e}tection d'au moins une zone de circulation {\'e}lectrique singuli{\`e}re}},
    AUTHOR = {Cochet, Hubert and Ja{\"i}s, Pierre and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-01576064},
    NUMBER = {FR1754107},
    ADDRESS = {France},
    YEAR = {2017},
    MONTH = May,
    HAL_ID = {hal-01576064},
    HAL_VERSION = {v1},
    
    }
    


Miscellaneous

  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.
    @misc{guignard:hal-01919187,
    TITLE = {{Contact-dependent cell communications drive morphological invariance during ascidian embryogenesis}},
    AUTHOR = {Guignard, L{\'e}o and Fiuza, Ulla-Maj and Leggio, Bruno and Faure, Emmanuel and Laussu, Julien and Hufnagel, Lars and Malandain, Gr{\'e}goire and Godin, Christophe and Lemaire, Patrick},
    URL = {https://hal.archives-ouvertes.fr/hal-01919187},
    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.},
    YEAR = {2017},
    MONTH = Dec,
    DOI = {10.1101/238741},
    PDF = {https://hal.archives-ouvertes.fr/hal-01919187/file/238741.full-3.pdf},
    HAL_ID = {hal-01919187},
    HAL_VERSION = {v1},
    
    }
    



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