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Publications of year 2023

Articles in journal, book chapters

  1. Arnaud Berenbaum, Hervé Delingette, Aurélien Maire, Cécile Poret, Claire Hassen-Khodja, Stéphane Bréant, Christel Daniel, Patricia Martel, Lamiae Grimaldi, Marie Frank, Emmanuel Durand, and Florent Besson. Performance of AI-Based Automated Classifications of Whole-Body FDG PET in Clinical Practice: The CLARITI Project. Applied Sciences, 13(9):5281, May 2023. Keyword(s): FDG PET, artificial intelligence, deep learning, convolutional neural network.
    @article{berenbaum:hal-04081046,
    TITLE = {{Performance of AI-Based Automated Classifications of Whole-Body FDG PET in Clinical Practice: The CLARITI Project}},
    AUTHOR = {Berenbaum, Arnaud and Delingette, Herv{\'e} and Maire, Aur{\'e}lien and Poret, C{\'e}cile and Hassen-Khodja, Claire and Br{\'e}ant, St{\'e}phane and Daniel, Christel and Martel, Patricia and Grimaldi, Lamiae and Frank, Marie and Durand, Emmanuel and Besson, Florent},
    url-hal= {https://inria.hal.science/hal-04081046},
    JOURNAL = {{Applied Sciences}},
    PUBLISHER = {{MDPI}},
    VOLUME = {13},
    NUMBER = {9},
    PAGES = {5281},
    YEAR = {2023},
    MONTH = May,
    DOI = {10.3390/app13095281},
    KEYWORDS = {FDG PET ; artificial intelligence ; deep learning ; convolutional neural network},
    HAL_ID = {hal-04081046},
    HAL_VERSION = {v1},
    
    }
    


  2. Hind Dadoun, Hervé Delingette, Anne-Laure Rousseau, Eric de Kerviler, and Nicholas Ayache. Deep Clustering for Abdominal Organ Classification in US imaging. Journal of Medical Imaging, 2023. Keyword(s): ultrasound imaging, representation learning, deep clustering, semi-supervised learning.
    @article{dadoun:hal-03773082,
    TITLE = {{Deep Clustering for Abdominal Organ Classification in US imaging}},
    AUTHOR = {Dadoun, Hind and Delingette, Herv{\'e} and Rousseau, Anne-Laure and de Kerviler, Eric and Ayache, Nicholas},
    url-hal= {https://inria.hal.science/hal-03773082},
    JOURNAL = {{Journal of Medical Imaging}},
    PUBLISHER = {{SPIE Digital Library}},
    YEAR = {2023},
    KEYWORDS = {ultrasound imaging ; representation learning ; deep clustering ; semi-supervised learning},
    PDF = {https://inria.hal.science/hal-03773082v3/file/soumission_jmi_dadoun_vf.pdf},
    HAL_ID = {hal-03773082},
    HAL_VERSION = {v3},
    
    }
    


  3. Nicolas Guigui, Nina Miolane, and Xavier Pennec. Introduction to Riemannian Geometry and Geometric Statistics: from basic theory to implementation with Geomstats. Foundations and Trends in Machine Learning, 16(3):329-493, February 2023. Keyword(s): Riemannian Geometry, Geometric Statistics, Python Library.
    @article{guigui:hal-03766900,
    TITLE = {{Introduction to Riemannian Geometry and Geometric Statistics: from basic theory to implementation with Geomstats}},
    AUTHOR = {Guigui, Nicolas and Miolane, Nina and Pennec, Xavier},
    url-hal= {https://inria.hal.science/hal-03766900},
    JOURNAL = {{Foundations and Trends in Machine Learning}},
    PUBLISHER = {{Now Publishers}},
    VOLUME = {16},
    NUMBER = {3},
    PAGES = {329-493},
    YEAR = {2023},
    MONTH = Feb,
    DOI = {10.1561/2200000098},
    KEYWORDS = {Riemannian Geometry ; Geometric Statistics ; Python Library},
    PDF = {https://inria.hal.science/hal-03766900v2/file/main-now.pdf},
    HAL_ID = {hal-03766900},
    HAL_VERSION = {v2},
    
    }
    


  4. Philipp Harms, Peter W. Michor, Xavier Pennec, and Stefan Sommer. Geometry of Sample Spaces. Differential Geometry and its Applications, 2023. Note: 29 pages, 1 figure.
    @article{harms:hal-02972385,
    TITLE = {{Geometry of Sample Spaces}},
    AUTHOR = {Harms, Philipp and Michor, Peter W. and Pennec, Xavier and Sommer, Stefan},
    url-hal= {https://inria.hal.science/hal-02972385},
    NOTE = {29 pages, 1 figure},
    JOURNAL = {{Differential Geometry and its Applications}},
    PUBLISHER = {{Elsevier}},
    YEAR = {2023},
    HAL_ID = {hal-02972385},
    HAL_VERSION = {v1},
    
    }
    


  5. Yann Thanwerdas and Xavier Pennec. O(n)-invariant Riemannian metrics on SPD matrices. Linear Algebra and its Applications, 661:163-201, March 2023. Keyword(s): 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.
    @article{thanwerdas:hal-03338601,
    TITLE = {{O(n)-invariant Riemannian metrics on SPD matrices}},
    AUTHOR = {Thanwerdas, Yann and Pennec, Xavier},
    url-hal= {https://hal.science/hal-03338601},
    JOURNAL = {{Linear Algebra and its Applications}},
    PUBLISHER = {{Elsevier}},
    VOLUME = {661},
    PAGES = {163-201},
    YEAR = {2023},
    MONTH = Mar,
    DOI = {10.1016/j.laa.2022.12.009},
    KEYWORDS = {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.science/hal-03338601v3/file/LAA_YT_XP_O_n_invariant_metrics_v3%20%282%29.pdf},
    HAL_ID = {hal-03338601},
    HAL_VERSION = {v3},
    
    }
    


  6. Paul Tourniaire, Marius Ilie, Paul Hofman, Nicholas Ayache, and Hervé Delingette. MS-CLAM: Mixed Supervision for the classification and localization of tumors in Whole Slide Images. Medical Image Analysis, 2023. Keyword(s): Digital Pathology, Mixed Supervision, Deep Learning, Camelyon16, DigestPath2019.
    @article{tourniaire:hal-03972289,
    TITLE = {{MS-CLAM: Mixed Supervision for the classification and localization of tumors in Whole Slide Images}},
    AUTHOR = {Tourniaire, Paul and Ilie, Marius and Hofman, Paul and Ayache, Nicholas and Delingette, Herv{\'e}},
    url-hal= {https://inria.hal.science/hal-03972289},
    JOURNAL = {{Medical Image Analysis}},
    PUBLISHER = {{Elsevier}},
    YEAR = {2023},
    KEYWORDS = {Digital Pathology ; Mixed Supervision ; Deep Learning ; Camelyon16 ; DigestPath2019},
    PDF = {https://inria.hal.science/hal-03972289/file/article_MedIA_hal_version.pdf},
    HAL_ID = {hal-03972289},
    HAL_VERSION = {v1},
    
    }
    


  7. Zihao Wang, Zhifei Xu, Jiayi He, Herve Delingette, and Jun Fan. Long Short-Term Memory Neural Equalizer. IEEE Transactions on Signal and Power Integrity, 2:13-22, 2023.
    @article{wang:hal-04042921,
    TITLE = {{Long Short-Term Memory Neural Equalizer}},
    AUTHOR = {Wang, Zihao and Xu, Zhifei and He, Jiayi and Delingette, Herve and Fan, Jun},
    url-hal= {https://hal.inria.fr/hal-04042921},
    JOURNAL = {{IEEE Transactions on Signal and Power Integrity}},
    VOLUME = {2},
    PAGES = {13-22},
    YEAR = {2023},
    DOI = {10.1109/TSIPI.2023.3242855},
    HAL_ID = {hal-04042921},
    HAL_VERSION = {v1},
    
    }
    


Conference articles

  1. Nicolas Cedilnik and Jean-Marc Peyrat. Weighted tissue thickness. In FIMH 2023 - 12th International Conference On Functional Imaging And Modeling Of The Heart, Lecture Notes in Computer Science, Lyon, France, June 2023. Springer. Keyword(s): Thickness, Thickness measurements, Medical image analysis.
    @inproceedings{cedilnik:hal-04111276,
    TITLE = {{Weighted tissue thickness}},
    AUTHOR = {Cedilnik, Nicolas and Peyrat, Jean-Marc},
    url-hal= {https://inria.hal.science/hal-04111276},
    BOOKTITLE = {{FIMH 2023 - 12th International Conference On Functional Imaging And Modeling Of The Heart}},
    ADDRESS = {Lyon, France},
    PUBLISHER = {{Springer}},
    SERIES = {Lecture Notes in Computer Science},
    YEAR = {2023},
    MONTH = Jun,
    KEYWORDS = {Thickness ; Thickness measurements ; Medical image analysis},
    PDF = {https://inria.hal.science/hal-04111276/file/article.pdf},
    HAL_ID = {hal-04111276},
    HAL_VERSION = {v1},
    
    }
    


  2. Hind Dadoun, Hervé Delingette, Anne-Laure Rousseau, Eric de Kerviler, and Nicholas Ayache. Joint representation learning from french radiological reports and ultrasound images. In IEEE ISBI 2023 - International Symposium on Biomedical Imaging, Cartagena de Indias, Colombia, April 2023. IEEE. Keyword(s): multimodal learning deep clustering natural language processing ultrasound examinations kidneys, multimodal learning, deep clustering, natural language processing, ultrasound examinations, kidneys.
    @inproceedings{dadoun:hal-03984528,
    TITLE = {{Joint representation learning from french radiological reports and ultrasound images}},
    AUTHOR = {Dadoun, Hind and Delingette, Herv{\'e} and Rousseau, Anne-Laure and de Kerviler, Eric and Ayache, Nicholas},
    url-hal= {https://inria.hal.science/hal-03984528},
    BOOKTITLE = {{IEEE ISBI 2023 - International Symposium on Biomedical Imaging}},
    ADDRESS = {Cartagena de Indias, Colombia},
    ORGANIZATION = {{IEEE}},
    YEAR = {2023},
    MONTH = Apr,
    KEYWORDS = {multimodal learning deep clustering natural language processing ultrasound examinations kidneys ; multimodal learning ; deep clustering ; natural language processing ; ultrasound examinations ; kidneys},
    PDF = {https://inria.hal.science/hal-03984528/file/HIND_DADOUN_ISBI_2023.pdf},
    HAL_ID = {hal-03984528},
    HAL_VERSION = {v1},
    
    }
    


  3. Morten Pedersen, Xavier Pennec, and Stefan Sommer. Tangent phylogenetic PCA. In Scandinavian Conference on Image Analysis 2023, Levi Ski Resort (Lapland), Finland, April 2023.
    @inproceedings{pedersen:hal-03842847,
    TITLE = {{Tangent phylogenetic PCA}},
    AUTHOR = {Pedersen, Morten and Pennec, Xavier and Sommer, Stefan},
    url-hal= {https://inria.hal.science/hal-03842847},
    BOOKTITLE = {{Scandinavian Conference on Image Analysis 2023}},
    ADDRESS = {Levi Ski Resort (Lapland), Finland},
    YEAR = {2023},
    MONTH = Apr,
    PDF = {https://inria.hal.science/hal-03842847/file/2208.12730.pdf},
    HAL_ID = {hal-03842847},
    HAL_VERSION = {v1},
    
    }
    


  4. Yingyu Yang and Maxime Sermesant. Unsupervised Polyaffine Transformation Learning for Echocardiography Motion Estimation. In FIMH 2023 - The 12th International Conference on Functional Imaging and Modeling of The Heart, Lyon, France, June 2023. Keyword(s): Motion Estimation Echocardiography Polyaffine Transformation, Motion Estimation, Echocardiography, Polyaffine Transformation.
    @inproceedings{yang:hal-04109721,
    TITLE = {{Unsupervised Polyaffine Transformation Learning for Echocardiography Motion Estimation}},
    AUTHOR = {Yang, Yingyu and Sermesant, Maxime},
    url-hal= {https://inria.hal.science/hal-04109721},
    BOOKTITLE = {{FIMH 2023 - The 12th International Conference on Functional Imaging and Modeling of The Heart}},
    ADDRESS = {Lyon, France},
    YEAR = {2023},
    MONTH = Jun,
    KEYWORDS = {Motion Estimation Echocardiography Polyaffine Transformation ; Motion Estimation ; Echocardiography ; Polyaffine Transformation},
    PDF = {https://inria.hal.science/hal-04109721/file/Unsupervised_Polyaffine_Motion_Model_for_Echocardiography_Analysis__final_-2.pdf},
    HAL_ID = {hal-04109721},
    HAL_VERSION = {v1},
    
    }
    


Internal reports

  1. Frédéric Blanqui, Anne Canteaut, Hidde de Jong, Sébastien Imperiale, Nathalie Mitton, Guillaume Pallez, Xavier Pennec, Xavier Rival, and Bertrand Thirion. Recommandations sur les `` éditeurs de la zone grise ''. Technical report, Inria, January 2023.
    @techreport{blanqui:hal-04001505,
    TITLE = {{Recommandations sur les `` {\'e}diteurs de la zone grise ''}},
    AUTHOR = {Blanqui, Fr{\'e}d{\'e}ric and Canteaut, Anne and de Jong, Hidde and Imperiale, S{\'e}bastien and Mitton, Nathalie and Pallez, Guillaume and Pennec, Xavier and Rival, Xavier and Thirion, Bertrand},
    url-hal= {https://inria.hal.science/hal-04001505},
    PAGES = {1-3},
    INSTITUTION = {{Inria}},
    YEAR = {2023},
    MONTH = Jan,
    PDF = {https://inria.hal.science/hal-04001505/file/CE_note-editeurs-douteux.pdf},
    HAL_ID = {hal-04001505},
    HAL_VERSION = {v1},
    
    }
    


Miscellaneous

  1. Safaa Al-Ali, Jordi Llopis-Lorente, Maria Teresa Mora, Maxime Sermesant, Beatriz Trénor, and Irene Balelli. A causal discovery approach for streamline ion channels selection to improve drug-induced TdP risk assessment. Note: Working paper or preprint, May 2023. Keyword(s): Causal discovery, Drug safety, Ions channel, TdP risk.
    @unpublished{alali:hal-04105144,
    TITLE = {{A causal discovery approach for streamline ion channels selection to improve drug-induced TdP risk assessment}},
    AUTHOR = {Al-Ali, Safaa and Llopis-Lorente, Jordi and Mora, Maria Teresa and Sermesant, Maxime and Tr{\'e}nor, Beatriz and Balelli, Irene},
    url-hal= {https://hal.science/hal-04105144},
    NOTE = {working paper or preprint},
    YEAR = {2023},
    MONTH = May,
    KEYWORDS = {Causal discovery ; Drug safety ; Ions channel ; TdP risk},
    PDF = {https://hal.science/hal-04105144/file/Draft_CMSB_Sept_2023-2.pdf},
    HAL_ID = {hal-04105144},
    HAL_VERSION = {v1},
    
    }
    


  2. Irene Balelli, Aude Sportisse, Francesco Cremonesi, Pierre-Alexandre Mattei, and Marco Lorenzi. Fed-MIWAE: Federated Imputation of Incomplete Data via Deep Generative Models. Note: Working paper or preprint, April 2023. Keyword(s): Missing data, Federated learning, Federated pre-processing, Variational autoencoders, Deep Learning.
    @unpublished{balelli:hal-04069795,
    TITLE = {{Fed-MIWAE: Federated Imputation of Incomplete Data via Deep Generative Models}},
    AUTHOR = {Balelli, Irene and Sportisse, Aude and Cremonesi, Francesco and Mattei, Pierre-Alexandre and Lorenzi, Marco},
    url-hal= {https://hal.science/hal-04069795},
    NOTE = {working paper or preprint},
    YEAR = {2023},
    MONTH = Apr,
    KEYWORDS = {Missing data ; Federated learning ; Federated pre-processing ; Variational autoencoders ; Deep Learning},
    PDF = {https://hal.science/hal-04069795/file/main_MICCAI.pdf},
    HAL_ID = {hal-04069795},
    HAL_VERSION = {v1},
    
    }
    


  3. Blanche Buet and Xavier Pennec. Flagfolds. Note: Working paper or preprint, 2023.
    @unpublished{buet:hal-04112465,
    TITLE = {{Flagfolds}},
    AUTHOR = {Buet, Blanche and Pennec, Xavier},
    url-hal= {https://inria.hal.science/hal-04112465},
    NOTE = {working paper or preprint},
    YEAR = {2023},
    HAL_ID = {hal-04112465},
    HAL_VERSION = {v1},
    
    }
    


  4. 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, January 2023. Keyword(s): Dynamic population models, Ordinary differential equations, Optimal control theory, Mechanistic models, Nonlinear mixed effects models, 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.science/hal-03335826},
    NOTE = {working paper or preprint},
    YEAR = {2023},
    MONTH = Jan,
    KEYWORDS = {Dynamic population models ; Ordinary differential equations ; Optimal control theory ; Mechanistic models ; Nonlinear mixed effects models ; Clinical trial analysis},
    PDF = {https://hal.science/hal-03335826v2/file/Manuscript_Estimation_NLMEODE_via_OCA_CompStat%20%281%29.pdf},
    HAL_ID = {hal-03335826},
    HAL_VERSION = {v2},
    
    }
    


  5. Francesco Cremonesi, Marc Vesin, Sergen Cansiz, Yannick Bouillard, Irene Balelli, Lucia Innocenti, Santiago Silva, Samy-Safwan Ayed, Riccardo Taiello, Laetita Kameni, Richard Vidal, Fanny Orlhac, Christophe Nioche, Nathan Lapel, Bastien Houis, Romain Modzelewski, Olivier Humbert, Melek Önen, and Marco Lorenzi. Fed-BioMed: Open, Transparent and Trusted Federated Learning for Real-world Healthcare Applications. Note: Working paper or preprint, April 2023. Keyword(s): Machine learning, Biomedical Application, Healthcare, Federated Learning Framework.
    @unpublished{cremonesi:hal-04081557,
    TITLE = {{Fed-BioMed: Open, Transparent and Trusted Federated Learning for Real-world Healthcare Applications}},
    AUTHOR = {Cremonesi, Francesco and Vesin, Marc and Cansiz, Sergen and Bouillard, Yannick and Balelli, Irene and Innocenti, Lucia and Silva, Santiago and Ayed, Samy-Safwan and Taiello, Riccardo and Kameni, Laetita and Vidal, Richard and Orlhac, Fanny and Nioche, Christophe and Lapel, Nathan and Houis, Bastien and Modzelewski, Romain and Humbert, Olivier and {\"O}nen, Melek and Lorenzi, Marco},
    url-hal= {https://inria.hal.science/hal-04081557},
    NOTE = {working paper or preprint},
    YEAR = {2023},
    MONTH = Apr,
    KEYWORDS = {Machine learning ; Biomedical Application ; Healthcare ; Federated Learning Framework},
    PDF = {https://inria.hal.science/hal-04081557/file/fedbiomed_paper-5.pdf},
    HAL_ID = {hal-04081557},
    HAL_VERSION = {v1},
    
    }
    


  6. Etrit Haxholli and Marco Lorenzi. Faster Training and Improved Performance of Diffusion Models via Parallel Score Matching. Note: Working paper or preprint, March 2023.
    @unpublished{haxholli:hal-04032669,
    TITLE = {{Faster Training and Improved Performance of Diffusion Models via Parallel Score Matching}},
    AUTHOR = {Haxholli, Etrit and Lorenzi, Marco},
    url-hal= {https://hal.inria.fr/hal-04032669},
    NOTE = {working paper or preprint},
    YEAR = {2023},
    MONTH = Mar,
    HAL_ID = {hal-04032669},
    HAL_VERSION = {v1},
    
    }
    


  7. Tom Szwagier and Xavier Pennec. Rethinking the Riemannian Logarithm on Flag Manifolds as an Orthogonal Alignment Problem. Note: Working paper or preprint, May 2023. Keyword(s): Flag manifolds, Riemannian logarithm, Orthogonal alignment, Procrustes analysis, Flag manifolds Riemannian logarithm Orthogonal alignment Procrustes analysis, Flag manifolds.
    @unpublished{szwagier:hal-04100534,
    TITLE = {{Rethinking the Riemannian Logarithm on Flag Manifolds as an Orthogonal Alignment Problem}},
    AUTHOR = {Szwagier, Tom and Pennec, Xavier},
    url-hal= {https://inria.hal.science/hal-04100534},
    NOTE = {working paper or preprint},
    YEAR = {2023},
    MONTH = May,
    KEYWORDS = {Flag manifolds ; Riemannian logarithm ; Orthogonal alignment ; Procrustes analysis ; Flag manifolds Riemannian logarithm Orthogonal alignment Procrustes analysis ; Flag manifolds},
    PDF = {https://inria.hal.science/hal-04100534/file/GSI-119.pdf},
    HAL_ID = {hal-04100534},
    HAL_VERSION = {v1},
    
    }
    



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Last modified: Wed Jun 7 00:30:07 2023
Author: epione-publi.

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