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Publications of year 2021

Thesis

  1. Clement Abi Nader. Modelling and simulating the progression of Alzheimer's disease through the analysis of multi-modal neuroimages and clinical data. Theses, Université Côte d'Azur, June 2021. Keyword(s): Gaussian processes, Variational autoencoder, Machine learning, Positron emission tomography, Magnetic resonance imaging, Alzheimer's disease, Clinical trials, Dynamical systems, Systèmes dynamiques, Auto-encodeur variationnel, Processus gaussiens, Apprentissage automatique, Tomographie par émission de positons, Imagerie par résonance magnétique, Essais cliniques, Maladie d'Alzheimer.
    @phdthesis{abinader:tel-03377153,
    TITLE = {{Modelling and simulating the progression of Alzheimer's disease through the analysis of multi-modal neuroimages and clinical data}},
    AUTHOR = {Abi Nader, Clement},
    url-hal= {https://tel.archives-ouvertes.fr/tel-03377153},
    NUMBER = {2021COAZ4033},
    SCHOOL = {{Universit{\'e} C{\^o}te d'Azur}},
    YEAR = {2021},
    MONTH = Jun,
    KEYWORDS = {Gaussian processes ; Variational autoencoder ; Machine learning ; Positron emission tomography ; Magnetic resonance imaging ; Alzheimer's disease ; Clinical trials ; Dynamical systems ; Syst{\`e}mes dynamiques ; Auto-encodeur variationnel ; Processus gaussiens ; Apprentissage automatique ; Tomographie par {\'e}mission de positons ; Imagerie par r{\'e}sonance magn{\'e}tique ; Essais cliniques ; Maladie d'Alzheimer},
    TYPE = {Theses},
    PDF = {https://tel.archives-ouvertes.fr/tel-03377153v2/file/2021COAZ4033.pdf},
    HAL_ID = {tel-03377153},
    HAL_VERSION = {v2},
    
    }
    


  2. Luigi Antelmi. Statistical Learning on Heterogeneous Medical Data with Bayesian Latent Variable Models: Application to Neuroimaging Dementia Studies. Theses, INRIA Sophia Antipolis - Méditerranée ; Université Côte d'Azur, July 2021. Keyword(s): Alzheimer ' s disease, Neuroimaging, Mri, Positron emission tomography - PET, Variational auto-encoder, Multi-task Learning, High dimensional Data, Alzheimer - Maladie d, Neuroimagerie, Irm, Tomographie à Emission de Positons TEP, auto-encodeur variationnel, Apprentissage multi-Tâche, données de haute dimension.
    @phdthesis{antelmi:tel-03289782,
    TITLE = {{Statistical Learning on Heterogeneous Medical Data with Bayesian Latent Variable Models: Application to Neuroimaging Dementia Studies}},
    AUTHOR = {Antelmi, Luigi},
    url-hal= {https://hal.archives-ouvertes.fr/tel-03289782},
    SCHOOL = {{INRIA Sophia Antipolis - M{\'e}diterran{\'e}e ; Universit{\'e} C{\^o}te d'Azur}},
    YEAR = {2021},
    MONTH = Jul,
    KEYWORDS = {Alzheimer ' s disease ; Neuroimaging ; Mri ; Positron emission tomography - PET ; Variational auto-encoder ; Multi-task Learning ; High dimensional Data ; Alzheimer - Maladie d ; Neuroimagerie ; Irm ; Tomographie {\`a} Emission de Positons TEP ; auto-encodeur variationnel ; Apprentissage multi-T{\^a}che ; donn{\'e}es de haute dimension},
    TYPE = {Theses},
    PDF = {https://hal.archives-ouvertes.fr/tel-03289782/file/main.pdf},
    HAL_ID = {tel-03289782},
    HAL_VERSION = {v1},
    
    }
    


  3. Jaume Banus. Heart \& Brain: Linking Cardiovascular Pathologies and Neurodegeneration with a Combined Biophysical and Statistical Methodology. Theses, Université Côte d'Azur, May 2021. Keyword(s): personalisation, Gaussian process, variational autoencoder, machine learning, lumped models, neurodegeneration, cardiovascular modelling, medical imaging, apprentissage automatique, modèles regroupés, neurodégénérescence, modélisation cardiovasculaire, imagerie médicale, personnalisation, processus Gaussien, autoencodeur variationnel.
    @phdthesis{banus:tel-03242796,
    TITLE = {{Heart \\& Brain: Linking Cardiovascular Pathologies and Neurodegeneration with a Combined Biophysical and Statistical Methodology}},
    AUTHOR = {Banus, Jaume},
    url-hal= {https://hal.inria.fr/tel-03242796},
    SCHOOL = {{Universit{\'e} C{\^o}te d'Azur}},
    YEAR = {2021},
    MONTH = May,
    KEYWORDS = {personalisation ; Gaussian process ; variational autoencoder ; machine learning ; lumped models ; neurodegeneration ; cardiovascular modelling ; medical imaging ; apprentissage automatique ; mod{\`e}les regroup{\'e}s ; neurod{\'e}g{\'e}n{\'e}rescence ; mod{\'e}lisation cardiovasculaire ; imagerie m{\'e}dicale ; personnalisation ; processus Gaussien ; autoencodeur variationnel},
    TYPE = {Theses},
    PDF = {https://hal.inria.fr/tel-03242796v2/file/thesis.pdf},
    HAL_ID = {tel-03242796},
    HAL_VERSION = {v2},
    
    }
    


Articles in journal, book chapters

  1. Clément Abi Nader, Nicholas Ayache, Giovanni B Frisoni, Philippe Robert, and Marco Lorenzi. Simulating the outcome of amyloid treatments in Alzheimer's Disease from multi-modal imaging and clinical data. Brain Communications, February 2021. Keyword(s): Alzheimer's Disease, Clinical trials, Disease progression, Amyloid hypothesis, Mental State Examination, FAQ = Functional Assessment Questionnaire, RAVLT = Rey Auditory Verbal Learning Test, CDRSB = Clinical Dementia Rating Scale Sum of Boxes.
    @article{abinader:hal-02968724,
    TITLE = {{Simulating the outcome of amyloid treatments in Alzheimer's Disease from multi-modal imaging and clinical data}},
    AUTHOR = {Abi Nader, Cl{\'e}ment and Ayache, Nicholas and Frisoni, Giovanni B and Robert, Philippe and Lorenzi, Marco},
    url-hal= {https://hal.archives-ouvertes.fr/hal-02968724},
    JOURNAL = {{Brain Communications}},
    PUBLISHER = {{Oxford University Press on behalf of the Guarantors of Brain}},
    YEAR = {2021},
    MONTH = Feb,
    KEYWORDS = {Alzheimer's Disease ; Clinical trials ; Disease progression ; Amyloid hypothesis ; Mental State Examination ; FAQ = Functional Assessment Questionnaire ; RAVLT = Rey Auditory Verbal Learning Test ; CDRSB = Clinical Dementia Rating Scale Sum of Boxes},
    PDF = {https://hal.archives-ouvertes.fr/hal-02968724v4/file/revised_manuscript.pdf},
    HAL_ID = {hal-02968724},
    HAL_VERSION = {v4},
    
    }
    


  2. Tania Bacoyannis, Buntheng Ly, Nicolas Cedilnik, Hubert Cochet, and Maxime Sermesant. Deep Learning Formulation of ECGI Integrating Image \& Signal Information with Data-driven Regularisation. EP-Europace, 23(Supplement_1):i55-i62, March 2021. Keyword(s): Deep learning, Computational Modelling, Electrocardiographic Imaging, Inverse Problem, Generative Model.
    @article{bacoyannis:hal-03268015,
    TITLE = {{Deep Learning Formulation of ECGI Integrating Image \\& Signal Information with Data-driven Regularisation}},
    AUTHOR = {Bacoyannis, Tania and Ly, Buntheng and Cedilnik, Nicolas and Cochet, Hubert and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-03268015},
    JOURNAL = {{EP-Europace}},
    PUBLISHER = {{Oxford University Press (OUP): Policy B}},
    VOLUME = {23},
    NUMBER = {Supplement\_1},
    PAGES = {i55-i62},
    YEAR = {2021},
    MONTH = Mar,
    DOI = {10.1093/europace/euaa391},
    KEYWORDS = {Deep learning ; Computational Modelling ; Electrocardiographic Imaging ; Inverse Problem ; Generative Model},
    PDF = {https://hal.inria.fr/hal-03268015/file/europace_2021.pdf},
    HAL_ID = {hal-03268015},
    HAL_VERSION = {v1},
    
    }
    


  3. Irene Balelli, Santiago Silva, and Marco Lorenzi. A Probabilistic Framework for Modeling the Variability Across Federated Datasets of Heterogeneous Multi-View Observations. Information processing in medical imaging : proceedings of the ... conference., 2021. Keyword(s): Federated Learning, Hierarchical Generative Model, Heterogeneity.
    @article{balelli:hal-03152886,
    TITLE = {{A Probabilistic Framework for Modeling the Variability Across Federated Datasets of Heterogeneous Multi-View Observations}},
    AUTHOR = {Balelli, Irene and Silva, Santiago and Lorenzi, Marco},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03152886},
    JOURNAL = {{Information processing in medical imaging : proceedings of the ... conference.}},
    PUBLISHER = {{Springer-Verlag}},
    YEAR = {2021},
    KEYWORDS = {Federated Learning ; Hierarchical Generative Model ; Heterogeneity},
    PDF = {https://hal.archives-ouvertes.fr/hal-03152886v2/file/Balelli_IPMI2021_CameraReady.pdf},
    HAL_ID = {hal-03152886},
    HAL_VERSION = {v2},
    
    }
    


  4. Jaume Banus, Marco Lorenzi, Oscar Camara, and Maxime Sermesant. Biophysics-based statistical learning: Application to heart and brain interactions. Medical Image Analysis, 72, August 2021. Keyword(s): Lumped model, Cardiovascular modelling, Personalisation, White matter damage, Atrial fibrillation, Heart-Brain interaction.
    @article{banus:hal-03231513,
    TITLE = {{Biophysics-based statistical learning: Application to heart and brain interactions}},
    AUTHOR = {Banus, Jaume and Lorenzi, Marco and Camara, Oscar and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-03231513},
    JOURNAL = {{Medical Image Analysis}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {72},
    YEAR = {2021},
    MONTH = Aug,
    DOI = {10.1016/j.media.2021.102089},
    KEYWORDS = {Lumped model ; Cardiovascular modelling ; Personalisation ; White matter damage ; Atrial fibrillation ; Heart-Brain interaction},
    PDF = {https://hal.inria.fr/hal-03231513/file/main.pdf},
    HAL_ID = {hal-03231513},
    HAL_VERSION = {v1},
    
    }
    


  5. Paul Blanc-Durand, Simon Jégou, Salim Kanoun, Alina Berriolo-Riedinger, Caroline M Bodet-Milin, Françoise Kraeber-Bodéré, Thomas Carlier, Steven Le Gouill, René-Olivier Casasnovas, Michel Meignan, and Emmanuel Itti. Fully automatic segmentation of diffuse large B cell lymphoma lesions on 3D FDG-PET/CT for total metabolic tumour volume prediction using a convolutional neural network. European Journal of Nuclear Medicine and Molecular Imaging, pp 1362-1370, 2021. Keyword(s): U-net, Total metabolic tumour volume, Segmentation, Positron emission tomography, Lymphoma, Convolutional neural network, Deep learning.
    @article{blancdurand:inserm-03006852,
    TITLE = {{Fully automatic segmentation of diffuse large B cell lymphoma lesions on 3D FDG-PET/CT for total metabolic tumour volume prediction using a convolutional neural network}},
    AUTHOR = {Blanc-Durand, Paul and J{\'e}gou, Simon and Kanoun, Salim and Berriolo-Riedinger, Alina and Bodet-Milin, Caroline M and Kraeber-Bod{\'e}r{\'e}, Fran{\c c}oise and Carlier, Thomas and Le Gouill, Steven and Casasnovas, Ren{\'e}-Olivier and Meignan, Michel and Itti, Emmanuel},
    url-hal= {https://www.hal.inserm.fr/inserm-03006852},
    JOURNAL = {{European Journal of Nuclear Medicine and Molecular Imaging}},
    PUBLISHER = {{Springer Verlag (Germany)}},
    SERIES = {48},
    PAGES = {1362-1370},
    YEAR = {2021},
    DOI = {10.1007/s00259-020-05080-7},
    KEYWORDS = {U-net ; Total metabolic tumour volume ; Segmentation ; Positron emission tomography ; Lymphoma ; Convolutional neural network ; Deep learning},
    PDF = {https://www.hal.inserm.fr/inserm-03006852/file/Blanc-Durand2020Eq13.pdf},
    HAL_ID = {inserm-03006852},
    HAL_VERSION = {v1},
    
    }
    


  6. Adrià Casamitjana, Marco Lorenzi, Sebastiano Ferraris, Loïc Peter, Marc Modat, Allison Stevens, Bruce Fischl, Tom Vercauteren, and Juan Eugenio Iglesias. Robust joint registration of multiple stains and MRI for multimodal 3D histology reconstruction: Application to the Allen human brain atlas. Medical Image Analysis, October 2021. Keyword(s): histology, nonlinear registration, 3D reconstruction, linear programming, ex vivo MRI.
    @article{casamitjana:hal-03374516,
    TITLE = {{Robust joint registration of multiple stains and MRI for multimodal 3D histology reconstruction: Application to the Allen human brain atlas}},
    AUTHOR = {Casamitjana, Adri{\`a} and Lorenzi, Marco and Ferraris, Sebastiano and Peter, Lo{\"i}c and Modat, Marc and Stevens, Allison and Fischl, Bruce and Vercauteren, Tom and Iglesias, Juan Eugenio},
    url-hal= {https://hal.inria.fr/hal-03374516},
    JOURNAL = {{Medical Image Analysis}},
    PUBLISHER = {{Elsevier}},
    YEAR = {2021},
    MONTH = Oct,
    KEYWORDS = {histology ; nonlinear registration ; 3D reconstruction ; linear programming ; ex vivo MRI},
    PDF = {https://hal.inria.fr/hal-03374516/file/2104.14873.pdf},
    HAL_ID = {hal-03374516},
    HAL_VERSION = {v1},
    
    }
    


  7. Nicolas Guigui and Xavier Pennec. Numerical Accuracy of Ladder Schemes for Parallel Transport on Manifolds. Foundations of Computational Mathematics, June 2021.
    @article{guigui:hal-02894783,
    TITLE = {{Numerical Accuracy of Ladder Schemes for Parallel Transport on Manifolds}},
    AUTHOR = {Guigui, Nicolas and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-02894783},
    JOURNAL = {{Foundations of Computational Mathematics}},
    PUBLISHER = {{Springer Verlag}},
    YEAR = {2021},
    MONTH = Jun,
    DOI = {10.1007/s10208-021-09515-x},
    PDF = {https://hal.inria.fr/hal-02894783v3/file/Guigui_et_al-2021-Foundations_of_Computational_Mathematics.pdf},
    HAL_ID = {hal-02894783},
    HAL_VERSION = {v3},
    
    }
    


  8. Julian Krebs, Hervé Delingette, Nicholas Ayache, and Tommaso Mansi. Learning a Generative Motion Model from Image Sequences based on a Latent Motion Matrix. IEEE Transactions on Medical Imaging, February 2021. Keyword(s): motion model, deformable registration, conditional variational autoencoder, gaussian process, latent variable model, motion interpolation, motion simulation, tracking.
    @article{krebs:hal-03126419,
    TITLE = {{Learning a Generative Motion Model from Image Sequences based on a Latent Motion Matrix}},
    AUTHOR = {Krebs, Julian and Delingette, Herv{\'e} and Ayache, Nicholas and Mansi, Tommaso},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03126419},
    JOURNAL = {{IEEE Transactions on Medical Imaging}},
    PUBLISHER = {{Institute of Electrical and Electronics Engineers}},
    YEAR = {2021},
    MONTH = Feb,
    KEYWORDS = {motion model ; deformable registration ; conditional variational autoencoder ; gaussian process ; latent variable model ; motion interpolation ; motion simulation ; tracking},
    PDF = {https://hal.archives-ouvertes.fr/hal-03126419/file/krebs_final.pdf},
    HAL_ID = {hal-03126419},
    HAL_VERSION = {v1},
    
    }
    


  9. Alice Le Brigant, Nicolas Guigui, Sana Rebbah, and Stéphane Puechmorel. Classifying histograms of medical data using information geometry of beta distributions. IFAC-PapersOnLine, June 2021. Keyword(s): histogram analysis, clustering, medical imaging, Information geometry, classification.
    @article{lebrigant:hal-02671122,
    TITLE = {{Classifying histograms of medical data using information geometry of beta distributions}},
    AUTHOR = {Le Brigant, Alice and Guigui, Nicolas and Rebbah, Sana and Puechmorel, St{\'e}phane},
    url-hal= {https://hal.archives-ouvertes.fr/hal-02671122},
    JOURNAL = {{IFAC-PapersOnLine}},
    PUBLISHER = {{Elsevier}},
    YEAR = {2021},
    MONTH = Jun,
    KEYWORDS = {histogram analysis ; clustering ; medical imaging ; Information geometry ; classification},
    PDF = {https://hal.archives-ouvertes.fr/hal-02671122v2/file/info-geom-beta.pdf},
    HAL_ID = {hal-02671122},
    HAL_VERSION = {v2},
    
    }
    


  10. Sarah Montagne, Dimitri Hamzaoui, Alexandre Allera, Malek Ezziane, Anna Luzurier, Raphaële Quint, Mehdi Kalai, Nicholas Ayache, Hervé Delingette, and Raphaele Renard Penna. Challenge of prostate MRI segmentation on T2-weighted images: inter-observer variability and impact of prostate morphology. Insights into Imaging, 12(1), June 2021. Keyword(s): Prostate, MRI, Segmentation, Zones, Atlas.
    @article{montagne:hal-03221227,
    TITLE = {{Challenge of prostate MRI segmentation on T2-weighted images: inter-observer variability and impact of prostate morphology}},
    AUTHOR = {Montagne, Sarah and Hamzaoui, Dimitri and Allera, Alexandre and Ezziane, Malek and Luzurier, Anna and Quint, Rapha{\"e}le and Kalai, Mehdi and Ayache, Nicholas and Delingette, Herv{\'e} and Renard Penna, Raphaele},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03221227},
    JOURNAL = {{Insights into Imaging}},
    PUBLISHER = {{Springer}},
    VOLUME = {12},
    NUMBER = {1},
    YEAR = {2021},
    MONTH = Jun,
    DOI = {10.1186/s13244-021-01010-9.},
    KEYWORDS = {Prostate ; MRI ; Segmentation ; Zones ; Atlas},
    HAL_ID = {hal-03221227},
    HAL_VERSION = {v1},
    
    }
    


  11. Talia M Nir, Jean-Paul Fouche, Jintanat Ananworanich, Beau M Ances, Jasmina Boban, Bruce J Brew, Joga R Chaganti, Linda Chang, Christopher R K Ching, Lucette A Cysique, Thomas Ernst, Joshua Faskowitz, Vikash Gupta, Jaroslaw Harezlak, Jodi M Heaps-Woodruff, Charles H Hinkin, Jacqueline Hoare, John A Joska, Kalpana J Kallianpur, Taylor Kuhn, Hei Y Lam, Meng Law, Christine Lebrun-Frénay, Andrew J Levine, Lydiane Mondot, Beau K Nakamoto, Bradford A Navia, Xavier Pennec, Eric C Porges, Lauren E Salminen, Cecilia M Shikuma, Wesley Surento, April D Thames, Victor Valcour, Matteo Vassallo, Adam J Woods, Paul M Thompson, Ronald A Cohen, Robert Paul, Dan J Stein, and Neda Jahanshad. Association of Immunosuppression and Viral Load With Subcortical Brain Volume in an International Sample of People Living With HIV. JAMA Network Open, 4(1):e2031190, January 2021.
    @article{nir:hal-03241929,
    TITLE = {{Association of Immunosuppression and Viral Load With Subcortical Brain Volume in an International Sample of People Living With HIV}},
    AUTHOR = {Nir, Talia M and Fouche, Jean-Paul and Ananworanich, Jintanat and Ances, Beau M and Boban, Jasmina and Brew, Bruce J and Chaganti, Joga R and Chang, Linda and Ching, Christopher R K and Cysique, Lucette A and Ernst, Thomas and Faskowitz, Joshua and Gupta, Vikash and Harezlak, Jaroslaw and Heaps-Woodruff, Jodi M and Hinkin, Charles H and Hoare, Jacqueline and Joska, John A and Kallianpur, Kalpana J and Kuhn, Taylor and Lam, Hei Y and Law, Meng and Lebrun-Fr{\'e}nay, Christine and Levine, Andrew J and Mondot, Lydiane and Nakamoto, Beau K and Navia, Bradford A and Pennec, Xavier and Porges, Eric C and Salminen, Lauren E and Shikuma, Cecilia M and Surento, Wesley and Thames, April D and Valcour, Victor and Vassallo, Matteo and Woods, Adam J and Thompson, Paul M and Cohen, Ronald A and Paul, Robert and Stein, Dan J and Jahanshad, Neda},
    url-hal= {https://hal.inria.fr/hal-03241929},
    JOURNAL = {{JAMA Network Open}},
    PUBLISHER = {{American Medical Association}},
    VOLUME = {4},
    NUMBER = {1},
    PAGES = {e2031190},
    YEAR = {2021},
    MONTH = Jan,
    DOI = {10.1001/jamanetworkopen.2020.31190},
    PDF = {https://hal.inria.fr/hal-03241929/file/nir_2021_oi_200975_1610549581.70404%282%29.pdf},
    HAL_ID = {hal-03241929},
    HAL_VERSION = {v1},
    
    }
    


  12. Maxime Sermesant, Hervé Delingette, Hubert Cochet, Pierre Jaïs, and Nicholas Ayache. Applications of artificial intelligence in cardiovascular imaging. Nature Reviews Cardiology, March 2021.
    @article{sermesant:hal-03171141,
    TITLE = {{Applications of artificial intelligence in cardiovascular imaging}},
    AUTHOR = {Sermesant, Maxime and Delingette, Herv{\'e} and Cochet, Hubert and Ja{\"i}s, Pierre and Ayache, Nicholas},
    url-hal= {https://hal.inria.fr/hal-03171141},
    JOURNAL = {{Nature Reviews Cardiology}},
    PUBLISHER = {{Nature Publishing Group}},
    YEAR = {2021},
    MONTH = Mar,
    DOI = {10.1038/s41569-021-00527-2},
    HAL_ID = {hal-03171141},
    HAL_VERSION = {v1},
    
    }
    


  13. Zihao Wang, Thomas Demarcy, Clair Vandersteen, Dan Gnansia, Charles Raffaelli, Nicolas Guevara, and Hervé Delingette. Bayesian Logistic Shape Model Inference: application to cochlear image segmentation. Medical Image Analysis, October 2021. Keyword(s): Shape Modeling, Image Segmentation, Bayesian Inference.
    @article{wang:hal-03372777,
    TITLE = {{Bayesian Logistic Shape Model Inference: application to cochlear image segmentation}},
    AUTHOR = {Wang, Zihao and Demarcy, Thomas and Vandersteen, Clair and Gnansia, Dan and Raffaelli, Charles and Guevara, Nicolas and Delingette, Herv{\'e}},
    url-hal= {https://hal.inria.fr/hal-03372777},
    JOURNAL = {{Medical Image Analysis}},
    PUBLISHER = {{Elsevier}},
    YEAR = {2021},
    MONTH = Oct,
    KEYWORDS = {Shape Modeling ; Image Segmentation ; Bayesian Inference},
    PDF = {https://hal.inria.fr/hal-03372777/file/2105.02045.pdf},
    HAL_ID = {hal-03372777},
    HAL_VERSION = {v1},
    
    }
    


  14. Zihao Wang, Clair Vandersteen, Thomas Demarcy, Dan Gnansia, Charles Raffaelli, Nicolas Guevara, and Hervé Delingette. Inner-ear Augmented Metal Artifact Reduction with Simulation-based 3D Generative Adversarial Networks. Computerized Medical Imaging and Graphics, October 2021. Keyword(s): Artifact Reduction, Deep Learning, GAN.
    @article{wang:hal-03351225,
    TITLE = {{Inner-ear Augmented Metal Artifact Reduction with Simulation-based 3D Generative Adversarial Networks}},
    AUTHOR = {Wang, Zihao and Vandersteen, Clair and Demarcy, Thomas and Gnansia, Dan and Raffaelli, Charles and Guevara, Nicolas and Delingette, Herv{\'e}},
    url-hal= {https://hal.inria.fr/hal-03351225},
    JOURNAL = {{Computerized Medical Imaging and Graphics}},
    PUBLISHER = {{Elsevier}},
    YEAR = {2021},
    MONTH = Oct,
    KEYWORDS = {Artifact Reduction ; Deep Learning ; GAN},
    PDF = {https://hal.inria.fr/hal-03351225/file/Margan_Clean_Latex%20%281%29.pdf},
    HAL_ID = {hal-03351225},
    HAL_VERSION = {v1},
    
    }
    


  15. Zhifei Xu, Zihao Wang, Yin Sun, Chulsoon Hwang, Hervé Delingette, and Jun Fan. Jitter Aware Economic PDN Optimization with a Genetic Algorithm. IEEE Transactions on Microwave Theory and Techniques, June 2021. Note: Corresponding authors: Zihao Wang; Chulsoon Hwang. Keyword(s): PDN, Jitter, PSIJ, Decoupling capacitor, Genetic algorithm, Power integrity.
    @article{xu:hal-03219748,
    TITLE = {{Jitter Aware Economic PDN Optimization with a Genetic Algorithm}},
    AUTHOR = {Xu, Zhifei and Wang, Zihao and Sun, Yin and Hwang, Chulsoon and Delingette, Herv{\'e} and Fan, Jun},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03219748},
    NOTE = {Corresponding authors: Zihao Wang; Chulsoon Hwang.},
    JOURNAL = {{IEEE Transactions on Microwave Theory and Techniques}},
    PUBLISHER = {{Institute of Electrical and Electronics Engineers}},
    YEAR = {2021},
    MONTH = Jun,
    DOI = {10.1109/TMTT.2021.3087188},
    KEYWORDS = {PDN ; Jitter ; PSIJ ; Decoupling capacitor ; Genetic algorithm ; Power integrity},
    PDF = {https://hal.archives-ouvertes.fr/hal-03219748/file/IEEE_Journal_Submission_JItter_aware_PDN_study%20%283%29.pdf},
    HAL_ID = {hal-03219748},
    HAL_VERSION = {v1},
    
    }
    


  16. S. Kevin Zhou, Hoang Ngan Le, Khoa Luu, Hien V Nguyen, and Nicholas Ayache. Deep reinforcement learning in medical imaging: A literature review. Medical Image Analysis, 73:102193, October 2021.
    @article{zhou:hal-03375000,
    TITLE = {{Deep reinforcement learning in medical imaging: A literature review}},
    AUTHOR = {Zhou, S. Kevin and Le, Hoang Ngan and Luu, Khoa and V Nguyen, Hien and Ayache, Nicholas},
    url-hal= {https://hal.inria.fr/hal-03375000},
    JOURNAL = {{Medical Image Analysis}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {73},
    PAGES = {102193},
    YEAR = {2021},
    MONTH = Oct,
    DOI = {10.1016/j.media.2021.102193},
    HAL_ID = {hal-03375000},
    HAL_VERSION = {v1},
    
    }
    


  17. Nicholas Ayache. Foreword. In Jean-François Uhl, Joaquim Jorge, Daniel Simoes Lopes, and Pedro F Campos, editors, Digital Anatomy - Applications of Virtual, Mixed and Augmented Reality, Human--Computer Interaction Series. Springer Nature, May 2021.
    @incollection{ayache:hal-03374760,
    TITLE = {{Foreword}},
    AUTHOR = {Ayache, Nicholas},
    url-hal= {https://hal.inria.fr/hal-03374760},
    BOOKTITLE = {{Digital Anatomy - Applications of Virtual, Mixed and Augmented Reality}},
    EDITOR = {Jean-Fran{\c c}ois Uhl and Joaquim Jorge and Daniel Simoes Lopes and Pedro F Campos},
    PUBLISHER = {{Springer Nature}},
    SERIES = {Human--Computer Interaction Series},
    YEAR = {2021},
    MONTH = May,
    DOI = {10.1007/978-3-030-61905-3},
    PDF = {https://hal.inria.fr/hal-03374760/file/Foreword%20-%20Digital%20Anatomy.pdf},
    HAL_ID = {hal-03374760},
    HAL_VERSION = {v1},
    
    }
    


  18. Xavier Pennec. Statistical analysis of organs' shapes and deformations: the Riemannian and the affine settings in computational anatomy. In Jean-François Uhl, Joaquim Jorge, Daniel Simoes Lopes, and Pedro F Campos, editors, Digital Anatomy - Applications of Virtual, Mixed and Augmented Reality, Human--Computer Interaction Series. Springer Nature, May 2021.
    @incollection{pennec:hal-02925156,
    TITLE = {{Statistical analysis of organs' shapes and deformations: the Riemannian and the affine settings in computational anatomy}},
    AUTHOR = {Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-02925156},
    BOOKTITLE = {{Digital Anatomy - Applications of Virtual, Mixed and Augmented Reality}},
    EDITOR = {Jean-Fran{\c c}ois Uhl and Joaquim Jorge and Daniel Simoes Lopes and Pedro F Campos},
    PUBLISHER = {{Springer Nature}},
    SERIES = {Human--Computer Interaction Series},
    YEAR = {2021},
    MONTH = May,
    DOI = {10.1007/978-3-030-61905-3\_9},
    PDF = {https://hal.inria.fr/hal-02925156/file/2020_CompAnat_Pennec.pdf},
    HAL_ID = {hal-02925156},
    HAL_VERSION = {v1},
    
    }
    


Conference articles

  1. Hind Dadoun, Hervé Delingette, Anne-Laure Rousseau, Eric De Kerviler, and Nicholas Ayache. Combining Bayesian and Deep Learning Methods for the Delineation of the Fan in Ultrasound Images. In ISBI 2021 - International Symposium on Biomedical Imaging, Nice, France, April 2021. Keyword(s): pre-processing, Ultrasound fan area detection, Deep Learning, Ultrasound imaging.
    @inproceedings{dadoun:hal-03127809,
    TITLE = {{Combining Bayesian and Deep Learning Methods for the Delineation of the Fan in Ultrasound Images}},
    AUTHOR = {Dadoun , Hind and Delingette, Herv{\'e} and Rousseau, Anne-Laure and De Kerviler, Eric and Ayache, Nicholas},
    url-hal= {https://hal.inria.fr/hal-03127809},
    BOOKTITLE = {{ISBI 2021 - International Symposium on Biomedical Imaging}},
    ADDRESS = {Nice, France},
    YEAR = {2021},
    MONTH = Apr,
    KEYWORDS = {pre-processing ; Ultrasound fan area detection ; Deep Learning ; Ultrasound imaging},
    PDF = {https://hal.inria.fr/hal-03127809/file/root.pdf},
    HAL_ID = {hal-03127809},
    HAL_VERSION = {v1},
    
    }
    


  2. Gaëtan Desrues, Delphine Feuerstein, Thierry Legay, Serge Cazeau, and Maxime Sermesant. Personal-by-design: a 3D Electromechanical Model of the Heart Tailored for Personalisation. In Functional Imaging and Modeling of the Heart, Stanford, CA, United States, June 2021. Keyword(s): Personalisation, Digital twin, Cardiac electromechanical model, Electrophysiology, Electrocardiogram.
    @inproceedings{desrues:hal-03369345,
    TITLE = {{Personal-by-design: a 3D Electromechanical Model of the Heart Tailored for Personalisation}},
    AUTHOR = {Desrues, Ga{\"e}tan and Feuerstein, Delphine and Legay, Thierry and Cazeau, Serge and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-03369345},
    BOOKTITLE = {{Functional Imaging and Modeling of the Heart}},
    ADDRESS = {Stanford, CA, United States},
    YEAR = {2021},
    MONTH = Jun,
    KEYWORDS = {Personalisation ; Digital twin ; Cardiac electromechanical model ; Electrophysiology ; Electrocardiogram},
    PDF = {https://hal.inria.fr/hal-03369345/file/fimh_2021.pdf},
    HAL_ID = {hal-03369345},
    HAL_VERSION = {v1},
    
    }
    


  3. M Di Folco, Nicolas Guigui, Patrick Clarysse, Pamela Moceri, and Nicolas Duchateau. Investigation of the impact of normalization on the study of interactions between myocardial shape and deformation. In FIMH 2021 - 11th International Conference on Functional Imaging and Modeling of the Heart, Stanford, United States, pages In press, June 2021. Keyword(s): Cardiac imaging, manifold learning, myocardial strain, heart shape.
    @inproceedings{difolco:hal-03203378,
    TITLE = {{Investigation of the impact of normalization on the study of interactions between myocardial shape and deformation}},
    AUTHOR = {Di Folco, M and Guigui, Nicolas and Clarysse, Patrick and Moceri, Pamela and Duchateau, Nicolas},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03203378},
    BOOKTITLE = {{FIMH 2021 - 11th International Conference on Functional Imaging and Modeling of the Heart}},
    ADDRESS = {Stanford, United States},
    PAGES = {In press},
    YEAR = {2021},
    MONTH = Jun,
    KEYWORDS = {Cardiac imaging ; manifold learning ; myocardial strain ; heart shape},
    PDF = {https://hal.archives-ouvertes.fr/hal-03203378/file/Difolco_FIMH_2021.pdf},
    HAL_ID = {hal-03203378},
    HAL_VERSION = {v1},
    
    }
    


  4. Yann Fraboni, Richard Vidal, and Marco Lorenzi. Free-rider Attacks on Model Aggregation in Federated Learning. In AISTATS 2021 - 24th International Conference on Artificial Intelligence and Statistics, San Diego, United States, April 2021.
    @inproceedings{fraboni:hal-03123638,
    TITLE = {{Free-rider Attacks on Model Aggregation in Federated Learning}},
    AUTHOR = {Fraboni, Yann and Vidal, Richard and Lorenzi, Marco},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03123638},
    BOOKTITLE = {{AISTATS 2021 - 24th International Conference on Artificial Intelligence and Statistics}},
    ADDRESS = {San Diego, United States},
    YEAR = {2021},
    MONTH = Apr,
    PDF = {https://hal.archives-ouvertes.fr/hal-03123638/file/free_riding_AISTATS_vf.pdf},
    HAL_ID = {hal-03123638},
    HAL_VERSION = {v1},
    
    }
    


  5. Nicolas Guigui, Elodie Maignant, Alain Trouvé, and Xavier Pennec. Parallel Transport on Kendall Shape Spaces. In GSI 2021 - 5th conference on Geometric Science of Information, volume 12829 of Lecture Notes in Computer Science, Paris, France, pages 103-110, July 2021. Springer.
    @inproceedings{guigui:hal-03160677,
    TITLE = {{Parallel Transport on Kendall Shape Spaces}},
    AUTHOR = {Guigui, Nicolas and Maignant, Elodie and Trouv{\'e}, Alain and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-03160677},
    BOOKTITLE = {{GSI 2021 - 5th conference on Geometric Science of Information}},
    ADDRESS = {Paris, France},
    PUBLISHER = {{Springer}},
    SERIES = {Lecture Notes in Computer Science},
    VOLUME = {12829},
    PAGES = {103-110},
    YEAR = {2021},
    MONTH = Jul,
    DOI = {10.1007/978-3-030-80209-7\_12},
    PDF = {https://hal.inria.fr/hal-03160677/file/parallel_transport_shape.pdf},
    HAL_ID = {hal-03160677},
    HAL_VERSION = {v1},
    
    }
    


  6. Nicolas Guigui, Pamela Moceri, Maxime Sermesant, and Xavier Pennec. Cardiac Motion Modeling with Parallel Transport and Shape Splines. In IEEE 18th International Symposium on Biomedical Imaging (ISBI), 2021, IEEE 18th International Symposium on Biomedical Imaging (ISBI), 2021, Nice, France, pages pp. 1394-1397, April 2021. IEEE. Keyword(s): Shape Analysis, Cardiac Modelling, LDDMM.
    @inproceedings{guigui:hal-03142196,
    TITLE = {{Cardiac Motion Modeling with Parallel Transport and Shape Splines}},
    AUTHOR = {Guigui, Nicolas and Moceri, Pamela and Sermesant, Maxime and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-03142196},
    BOOKTITLE = {{IEEE 18th International Symposium on Biomedical Imaging (ISBI), 2021}},
    ADDRESS = {Nice, France},
    PUBLISHER = {{IEEE}},
    SERIES = {IEEE 18th International Symposium on Biomedical Imaging (ISBI), 2021},
    PAGES = {pp. 1394-1397},
    YEAR = {2021},
    MONTH = Apr,
    DOI = {10.1109/ISBI48211.2021.9433887},
    KEYWORDS = {Shape Analysis ; Cardiac Modelling ; LDDMM},
    PDF = {https://hal.inria.fr/hal-03142196/file/root.pdf},
    HAL_ID = {hal-03142196},
    HAL_VERSION = {v1},
    
    }
    


  7. Nicolas Guigui and Xavier Pennec. A reduced parallel transport equation on Lie Groups with a left-invariant metric. In GSI 2021 - 5th conference on Geometric Science of Information, volume 12829 of Lecture Notes in Computer Science, Paris, France, pages 119-126, July 2021. Springer, Cham.
    @inproceedings{guigui:hal-03154318,
    TITLE = {{A reduced parallel transport equation on Lie Groups with a left-invariant metric}},
    AUTHOR = {Guigui, Nicolas and Pennec, Xavier},
    url-hal= {https://hal.inria.fr/hal-03154318},
    BOOKTITLE = {{GSI 2021 - 5th conference on Geometric Science of Information}},
    ADDRESS = {Paris, France},
    PUBLISHER = {{Springer, Cham}},
    SERIES = {Lecture Notes in Computer Science},
    VOLUME = {12829},
    PAGES = {119-126},
    YEAR = {2021},
    MONTH = Jul,
    DOI = {10.1007/978-3-030-80209-7\_14},
    PDF = {https://hal.inria.fr/hal-03154318v2/file/parallel_transport_lie_group.pdf},
    HAL_ID = {hal-03154318},
    HAL_VERSION = {v2},
    
    }
    


  8. Josquin Harrison, Marco Lorenzi, Benoit Legghe, Xavier Iriart, Hubert Cochet, and Maxime Sermesant. Phase-independent Latent Representation for Cardiac Shape Analysis. In MICCAI 2021 24th International Conference, Proceedings, Part VI, volume 12906 of LNCS - Lecture Notes in Computer Science, Strasbourg, France, September 2021. Keyword(s): Shape Analysis, Atrial Fibrillation, Thrombosis, Graph Representation, Latent Space Model, Multi-Task Learning, Meta-Learning.
    @inproceedings{harrison:hal-03375871,
    TITLE = {{Phase-independent Latent Representation for Cardiac Shape Analysis}},
    AUTHOR = {Harrison, Josquin and Lorenzi, Marco and Legghe, Benoit and Iriart, Xavier and Cochet, Hubert and Sermesant, Maxime},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03375871},
    BOOKTITLE = {{MICCAI 2021 24th International Conference, Proceedings, Part VI}},
    ADDRESS = {Strasbourg, France},
    SERIES = {LNCS - Lecture Notes in Computer Science},
    VOLUME = {12906},
    YEAR = {2021},
    MONTH = Sep,
    DOI = {10.1007/978-3-030-87231-1\_52},
    KEYWORDS = {Shape Analysis ; Atrial Fibrillation ; Thrombosis ; Graph Representation ; Latent Space Model ; Multi-Task Learning ; Meta-Learning},
    PDF = {https://hal.archives-ouvertes.fr/hal-03375871/file/paper1929.pdf},
    HAL_ID = {hal-03375871},
    HAL_VERSION = {v1},
    
    }
    


  9. Victoriya Kashtanova, Ibrahim Ayed, Nicolas Cedilnik, Patrick Gallinari, and Maxime Sermesant. EP-Net 2.0: Out-of-Domain Generalisation for Deep Learning Models of Cardiac Electrophysiology. In FIMH 2021: Functional Imaging and Modeling of the Heart, volume 12738 of Lecture Notes in Computer Science, Stanford, CA (virtual), United States, pages 482-492, June 2021. Springer International Publishing. Keyword(s): Electrophysiology, Deep learning, Simulation.
    @inproceedings{kashtanova:hal-03369201,
    TITLE = {{EP-Net 2.0: Out-of-Domain Generalisation for Deep Learning Models of Cardiac Electrophysiology}},
    AUTHOR = {Kashtanova, Victoriya and Ayed, Ibrahim and Cedilnik, Nicolas and Gallinari, Patrick and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-03369201},
    BOOKTITLE = {{FIMH 2021: Functional Imaging and Modeling of the Heart}},
    ADDRESS = {Stanford, CA (virtual), United States},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Lecture Notes in Computer Science},
    VOLUME = {12738},
    PAGES = {482-492},
    YEAR = {2021},
    MONTH = Jun,
    DOI = {10.1007/978-3-030-78710-3\_46},
    KEYWORDS = {Electrophysiology ; Deep learning ; Simulation},
    PDF = {https://hal.inria.fr/hal-03369201/file/FIMH_2021_final.pdf},
    HAL_ID = {hal-03369201},
    HAL_VERSION = {v1},
    
    }
    


  10. Buntheng Ly, Sonny Finsterbach, Marta Nuñez-Garcia, Hubert Cochet, and Maxime Sermesant. Scar-Related Ventricular Arrhythmia Prediction from Imaging Using Explainable Deep Learning. In FIMH 2021 - International Conference on Functional Imaging and Modeling of the Heart, volume 12738 of Lecture Notes in Computer Science, Stanford, United States, pages 461-470, June 2021. Springer International Publishing. Keyword(s): Conditional-VAE, Sustained Ventricular Arrhythmia, CTcardiac imaging, Myocardium thickness, Image Classification.
    @inproceedings{ly:hal-03378951,
    TITLE = {{Scar-Related Ventricular Arrhythmia Prediction from Imaging Using Explainable Deep Learning}},
    AUTHOR = {Ly, Buntheng and Finsterbach, Sonny and Nu{\~n}ez-Garcia, Marta and Cochet, Hubert and Sermesant, Maxime},
    url-hal= {https://hal.inria.fr/hal-03378951},
    BOOKTITLE = {{FIMH 2021 - International Conference on Functional Imaging and Modeling of the Heart}},
    ADDRESS = {Stanford, United States},
    PUBLISHER = {{Springer International Publishing}},
    SERIES = {Lecture Notes in Computer Science},
    VOLUME = {12738},
    PAGES = {461-470},
    YEAR = {2021},
    MONTH = Jun,
    DOI = {10.1007/978-3-030-78710-3\_44},
    KEYWORDS = {Conditional-VAE ; Sustained Ventricular Arrhythmia ; CTcardiac imaging ; Myocardium thickness ; Image Classification},
    PDF = {https://hal.inria.fr/hal-03378951/file/scar_related_va_pred__fimh2021_buntheng%20%281%29.pdf},
    HAL_ID = {hal-03378951},
    HAL_VERSION = {v1},
    
    }
    


  11. Yann Thanwerdas and Xavier Pennec. Geodesics and Curvature of the Quotient-Affine Metrics on Full-Rank Correlation Matrices. In GSI 2021 - 5th conference on Geometric Science of Information, volume 12829 of Proceedings of Geometric Science of Information, Paris, France, pages 93-102, July 2021. Springer, Cham. Keyword(s): Correlation matrices, SPD matrices, Quotient manifold, Quotient-affine metric, Riemannian geometry.
    @inproceedings{thanwerdas:hal-03157992,
    TITLE = {{Geodesics and Curvature of the Quotient-Affine Metrics on Full-Rank Correlation Matrices}},
    AUTHOR = {Thanwerdas, Yann and Pennec, Xavier},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03157992},
    BOOKTITLE = {{GSI 2021 - 5th conference on Geometric Science of Information}},
    ADDRESS = {Paris, France},
    PUBLISHER = {{Springer, Cham}},
    SERIES = {Proceedings of Geometric Science of Information},
    VOLUME = {12829},
    PAGES = {93-102},
    YEAR = {2021},
    MONTH = Jul,
    DOI = {10.1007/978-3-030-80209-7\_11},
    KEYWORDS = {Correlation matrices ; SPD matrices ; Quotient manifold ; Quotient-affine metric ; Riemannian geometry},
    PDF = {https://hal.archives-ouvertes.fr/hal-03157992v3/file/main.pdf},
    HAL_ID = {hal-03157992},
    HAL_VERSION = {v3},
    
    }
    


  12. Paul Tourniaire, Marius Ilie, Paul Hofman, Nicholas Ayache, and Hervé Delingette. Attention-based Multiple Instance Learning with Mixed Supervision on the Camelyon16 Dataset. In COMPAY 2021- 3rd MICCAI workshop on Computational Pathology, Strasbourg, France, September 2021. Keyword(s): Histopathology, Mixed Supervision, Attention Mechanism.
    @inproceedings{tourniaire:hal-03342963,
    TITLE = {{Attention-based Multiple Instance Learning with Mixed Supervision on the Camelyon16 Dataset}},
    AUTHOR = {Tourniaire, Paul and Ilie, Marius and Hofman, Paul and Ayache, Nicholas and Delingette, Herv{\'e}},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03342963},
    BOOKTITLE = {{COMPAY 2021- 3rd MICCAI workshop on Computational Pathology}},
    ADDRESS = {Strasbourg, France},
    YEAR = {2021},
    MONTH = Sep,
    KEYWORDS = {Histopathology ; Mixed Supervision ; Attention Mechanism},
    PDF = {https://hal.archives-ouvertes.fr/hal-03342963/file/Compay_hal.pdf},
    HAL_ID = {hal-03342963},
    HAL_VERSION = {v1},
    
    }
    


  13. Zihao Wang, Clair Vandersteen, Charles Raffaelli, Nicolas Guevara, François Patou, and Hervé Delingette. One-shot Learning Landmarks Detection. In The MICCAI workshop on Data Augmentation, Labeling, and Imperfections, volume 13003 of Lecture Notes in Computer Science (LNCS), strasbourg, France, pages 163-172, October 2021. Springer.
    @inproceedings{wang:hal-03024759,
    TITLE = {{One-shot Learning Landmarks Detection}},
    AUTHOR = {Wang, Zihao and Vandersteen, Clair and Raffaelli, Charles and Guevara, Nicolas and Patou, Fran{\c c}ois and Delingette, Herv{\'e}},
    url-hal= {https://hal.inria.fr/hal-03024759},
    BOOKTITLE = {{The MICCAI workshop on Data Augmentation, Labeling, and Imperfections}},
    ADDRESS = {strasbourg, France},
    PUBLISHER = {{Springer}},
    SERIES = {Lecture Notes in Computer Science (LNCS)},
    VOLUME = {13003},
    PAGES = {163-172},
    YEAR = {2021},
    MONTH = Oct,
    PDF = {https://hal.inria.fr/hal-03024759v2/file/Camera_Ready__MICCAI2021_Workshop_Landmarks_Detection.pdf},
    HAL_ID = {hal-03024759},
    HAL_VERSION = {v2},
    
    }
    


  14. Yingyu Yang and Maxime Sermesant. Shape Constraints in Deep Learning for Robust 2D Echocardiography Analysis. In Conference on Functional Imaging and Modeling of the Heart, Stanford, United States, June 2021. Keyword(s): Segmentation, Deep Learning, Deformation, Echocardiography.
    @inproceedings{yang:hal-03371358,
    TITLE = {{Shape Constraints in Deep Learning for Robust 2D Echocardiography Analysis}},
    AUTHOR = {Yang, Yingyu and Sermesant, Maxime},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03371358},
    BOOKTITLE = {{Conference on Functional Imaging and Modeling of the Heart}},
    ADDRESS = {Stanford, United States},
    YEAR = {2021},
    MONTH = Jun,
    KEYWORDS = {Segmentation ; Deep Learning ; Deformation ; Echocardiography},
    PDF = {https://hal.archives-ouvertes.fr/hal-03371358/file/FIMH_2021_YingyuYANG.pdf},
    HAL_ID = {hal-03371358},
    HAL_VERSION = {v1},
    
    }
    


Patents, standards

  1. Julian Krebs, Hiroshi Ashikaga, Tommaso Mansi, Bin Lou, Katherine Chih-ching Wu, and Henry Halperin. Risk prediction for sudden cardiac death from image derived cardiac motion and structure features. US20210059612A1, United States, March 2021.
    @patent{krebs:hal-03198828,
    TITLE = {{Risk prediction for sudden cardiac death from image derived cardiac motion and structure features}},
    AUTHOR = {Krebs, Julian and Ashikaga, Hiroshi and Mansi, Tommaso and Lou, Bin and Chih-ching Wu, Katherine and Halperin, Henry},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03198828},
    NUMBER = {US20210059612A1},
    ADDRESS = {United States},
    YEAR = {2021},
    MONTH = Mar,
    HAL_ID = {hal-03198828},
    HAL_VERSION = {v1},
    
    }
    


  2. Julian Krebs, Tommaso Mansi, and Bin Lou. Patient specific risk prediction of cardiac events from image-derived cardiac function features. US20210057104A1, United States, February 2021.
    @patent{krebs:hal-03198820,
    TITLE = {{Patient specific risk prediction of cardiac events from image-derived cardiac function features}},
    AUTHOR = {Krebs, Julian and Mansi, Tommaso and Lou, Bin},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03198820},
    NUMBER = {US20210057104A1},
    ADDRESS = {United States},
    YEAR = {2021},
    MONTH = Feb,
    HAL_ID = {hal-03198820},
    HAL_VERSION = {v1},
    
    }
    


Miscellaneous

  1. 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.
    @unpublished{antelmi:hal-03114888,
    TITLE = {{Combining Multi-Task Learning and Multi-Channel Variational Auto-Encoders to Exploit Datasets with Missing Observations -Application to Multi-Modal Neuroimaging Studies in Dementia}},
    AUTHOR = {Antelmi, Luigi and Ayache, Nicholas and Robert, Philippe and Ribaldi, Federica and Garibotto, Valentina and Frisoni, Giovanni B and Lorenzi, Marco},
    url-hal= {https://hal.inria.fr/hal-03114888},
    NOTE = {working paper or preprint},
    YEAR = {2021},
    MONTH = May,
    KEYWORDS = {Multi Task Learning ; Missing Data ; Variational Autoencoders ; Multimodal Data Analysis ; OPAL-Meso},
    PDF = {https://hal.inria.fr/hal-03114888v2/file/elsarticle-template-harv.pdf},
    HAL_ID = {hal-03114888},
    HAL_VERSION = {v2},
    
    }
    


  2. Quentin Clairon, Chloé Pasin, Irene Balelli, Rodolphe Thiébaut, and Mélanie Prague. Parameter estimation in nonlinear mixed effect models based on ordinary differential equations: An optimal control approach. Note: Working paper or preprint, September 2021. Keyword(s): Dynamic population models, Ordinary differential equations, Optimal control theory, Clinical trial analysis.
    @unpublished{clairon:hal-03335826,
    TITLE = {{Parameter estimation in nonlinear mixed effect models based on ordinary differential equations: An optimal control approach}},
    AUTHOR = {Clairon, Quentin and Pasin, Chlo{\'e} and Balelli, Irene and Thi{\'e}baut, Rodolphe and Prague, M{\'e}lanie},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03335826},
    NOTE = {working paper or preprint},
    YEAR = {2021},
    MONTH = Sep,
    KEYWORDS = {Dynamic population models ; Ordinary differential equations ; Optimal control theory ; Clinical trial analysis},
    PDF = {https://hal.archives-ouvertes.fr/hal-03335826/file/Manuscript_JSPI.pdf},
    HAL_ID = {hal-03335826},
    HAL_VERSION = {v1},
    
    }
    


  3. Yann Fraboni, Richard Vidal, Laetitia Kameni, and Marco Lorenzi. Clustered Sampling: Low-Variance and Improved Representativity for Clients Selection in Federated Learning. Note: Working paper or preprint, May 2021. Keyword(s): Client sampling, federated learning, sampling variance, data representativity.
    @unpublished{fraboni:hal-03232421,
    TITLE = {{Clustered Sampling: Low-Variance and Improved Representativity for Clients Selection in Federated Learning}},
    AUTHOR = {Fraboni, Yann and Vidal, Richard and Kameni, Laetitia and Lorenzi, Marco},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03232421},
    NOTE = {working paper or preprint},
    YEAR = {2021},
    MONTH = May,
    KEYWORDS = {Client sampling ; federated learning ; sampling variance ; data representativity},
    PDF = {https://hal.archives-ouvertes.fr/hal-03232421/file/ICML_clustered_sampling.pdf},
    HAL_ID = {hal-03232421},
    HAL_VERSION = {v1},
    
    }
    


  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.
    @unpublished{nir:hal-03063822,
    TITLE = {{Smaller limbic structures are associated with greater immunosuppression in over 1000 HIV-infected adults across five continents: Findings from the ENIGMA-HIV Working Group}},
    AUTHOR = {Nir, Talia and Fouche, Jean-Paul and Ananworanich, Jintanat and Ances, Beau and Boban, Jasmina and Brew, Bruce and Chang, Linda and Chaganti, Joga and Ching, Christopher R.K. and Cysique, Lucette and Ernst, Thomas and Faskowitz, Joshua and Gupta, Vikash and Harezlak, Jaroslaw and Heaps-Woodruff, Jodi and Hinkin, Charles and Hoare, Jacqueline and Joska, John and Kallianpur, Kalpana and Kuhn, Taylor and Lam, Hei and Law, Meng and Lebrun-Frenay, Christine and Levine, Andrew and Mondot, Lydiane and Nakamoto, Beau and Navia, Bradford and Pennec, Xavier and Porges, Eric and Shikuma, Cecilia and Thames, April and Valcour, Victor and Vassallo, Matteo and Woods, Adam and Thompson, Paul and Cohen, Ronald and Paul, Robert and Stein, Dan and Jahanshad, Neda},
    url-hal= {https://hal.inria.fr/hal-03063822},
    NOTE = {working paper or preprint},
    YEAR = {2021},
    MONTH = Jan,
    DOI = {10.1101/724583},
    PDF = {https://hal.inria.fr/hal-03063822/file/724583v1.full.pdf},
    HAL_ID = {hal-03063822},
    HAL_VERSION = {v1},
    
    }
    


  5. Yann Thanwerdas and Xavier Pennec. O(n)-invariant Riemannian metrics on SPD matrices. Note: Working paper or preprint, September 2021. Keyword(s): 58D17, 53C22, 15A63, 53B20, Symmetric Positive Definite matrices, Riemannian geometry, Invariance under orthogonal transformations, Families of metrics, Log-Euclidean metric, Affine-invariant metric, Bures-Wasserstein metric, Kernel metrics.
    @unpublished{thanwerdas:hal-03338601,
    TITLE = {{O(n)-invariant Riemannian metrics on SPD matrices}},
    AUTHOR = {Thanwerdas, Yann and Pennec, Xavier},
    url-hal= {https://hal.archives-ouvertes.fr/hal-03338601},
    NOTE = {working paper or preprint},
    YEAR = {2021},
    MONTH = Sep,
    KEYWORDS = {58D17 ; 53C22 ; 15A63 ; 53B20 ; Symmetric Positive Definite matrices ; Riemannian geometry ; Invariance under orthogonal transformations ; Families of metrics ; Log-Euclidean metric ; Affine-invariant metric ; Bures-Wasserstein metric ; Kernel metrics},
    PDF = {https://hal.archives-ouvertes.fr/hal-03338601v2/file/main.pdf},
    HAL_ID = {hal-03338601},
    HAL_VERSION = {v2},
    
    }
    


  6. 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.
    @unpublished{wang:hal-03202230,
    TITLE = {{Attention for Image Registration (AiR): an unsupervised Transformer approach}},
    AUTHOR = {Wang, Zihao and Delingette, Herv{\'e}},
    url-hal= {https://hal.inria.fr/hal-03202230},
    NOTE = {working paper or preprint},
    YEAR = {2021},
    MONTH = May,
    KEYWORDS = {Transformer ; Images Registration ; Deep Learning},
    PDF = {https://hal.inria.fr/hal-03202230v3/file/DRAFT__Attention_for_Image_Registration__A_Transformer%20%283%29.pdf},
    HAL_ID = {hal-03202230},
    HAL_VERSION = {v3},
    
    }
    


  7. Zihao Wang and Hervé Delingette. Quasi-Symplectic Langevin Variational Autoencoder. Note: Working paper or preprint, June 2021.
    @unpublished{wang:hal-03024748,
    TITLE = {{Quasi-Symplectic Langevin Variational Autoencoder}},
    AUTHOR = {Wang, Zihao and Delingette, Herv{\'e}},
    url-hal= {https://hal.inria.fr/hal-03024748},
    NOTE = {working paper or preprint},
    YEAR = {2021},
    MONTH = Jun,
    PDF = {https://hal.inria.fr/hal-03024748v4/file/V2_Langevin_VAE_Revision__Copy_.pdf},
    HAL_ID = {hal-03024748},
    HAL_VERSION = {v4},
    
    }
    



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