Brief bio

I had the oppportunity to work on various applications involving computer-science, machine-learning and statistics. My current works mainly focus on the development and assessment of image processing tools aiming at optimizing multiple sclerosis patients follow-up and experts decision making.

• Since Oct 2021: Inria Research Scientist in the Empenn Team.

• Sept 2020-Sept 2021: Post-doctoral fellow : « Développement, déploiement et validation de méthodes pour l’amélioration du suivi IRM de la sclérose en plaques ».

• Nov 2016-Août 2020: Post-doctoral fellow « Apports de l’imagerie de la moelle pour le pronostic dans la sclérose en plaques ».

• Nov 2014-Juin 2016: Post-doctoral fellow « Analyse de l’activité macrophagique par imagerie quantitative pour la sclérose en plaques ».

• Sept 2012-Août 2014: Post-doctoral fellow « Développement d’outils statistiques pour la modélisation chronologique ».

• Janv 2011-Juin 2012: Post-doctoral fellow « Estimation 3D et suivi de surfaces d’écoulements à partir de séquences d’images : applications à la mesure de la topographie des cours d’eau ».

• Oct 2007-Déc 2010: Doctorant à l’Irisa (Institut de recherche en informatique et systèmes aléatoires) au sein du projet Visages (spécialisé en imagerie médicale) financé par une bourse ministérielle. Sujet : « Efficient computational tools for the statistical analysis of shape and asymmetry of 3D point sets ».

Contact Information

Address

Centre Inria de l’Université de Rennes Campus universitaire de Beaulieu Avenue du Général Leclerc 35042 Rennes Cedex

Tel

Phone: +33 2 99 84 72 62

Office

C101 (building 12C), Inria Rennes Campus de Beaulieu 35042 Rennes, France

Mail

firstname.name@inria.fr

Publications

• See the list of my publications,

Supervisions & Collaborations

• See the list of my supervisions and collaborations,

List of Publications

Journal Articles

• 2023, Multiple Sclerosis and Related Disorders: Merkler, Blandine, Arthur Masson, Jean Christophe Ferré, Emma Bajeux, Gilles Edan, Laure Michel, Emmanuelle Le Page, et al. “Impact of automatic tools for detecting new lesions on therapeutic strategies offered to patients with ms by neurologists.”
• 2023, Frontiers in Neuroscience: Commowick, Olivier, Benoı̂t Combès, Frédéric Cervenansky, and Michel Dojat. “Automatic methods for multiple sclerosis new lesions detection and segmentation.”
• 2023, Journal of psychiatric research: Batail, Jean-Marie, Isabelle Corouge, Benoit Combès, Camille Conan, Muriel Guillery-Sollier, Marc Vérin, Paul Sauleau, et al. “Apathy in depression: An arterial spin labeling perfusion mri study.”
• 2021, Revue Neurologique: Leguy, Soizig, Benoı̂t Combès, Elise Bannier, and Anne Kerbrat. “Prognostic value of spinal cord mri in multiple sclerosis patients.”
• 2021, Frontiers in Medicine: Combès, Benoit, Anne Kerbrat, Guillaume Pasquier, Olivier Commowick, Brandon Le Bon, Francesca Galassi, Philippe L’Hostis, et al. “A clinically-compatible workflow for computer-aided assessment of brain disease activity in multiple sclerosis patients.”
• 2020, Brain: Kerbrat, Anne, Charley Gros, Atef Badji, Elise Bannier, Francesca Galassi, Benoı̂t Combès, Raphaël Chouteau, et al. “Multiple sclerosis lesions in motor tracts from brain to cervical cord: Spatial distribution and correlation with disability.”
• 2020, Journal of Open Source Software: Combès, Benoı̂t. “Miet: An r package for region of interest analysis from magnetic reasonance images.”
• 2020, Computer Vision and Image Understanding: Combès, Benoit, and Sylvain Prima. “An efficient em-icp algorithm for non-linear registration of large 3D point sets.”
• 2019, Journal of Magnetic Resonance Imaging: Combès, Benoit, Laureline Monteau, Elise Bannier, Virginie Callot, Pierre Labauge, Xavier Ayrignac, Clarisse Carra Dallière, et al. “Measurement of magnetization transfer ratio (mtr) from cervical spinal cord: Multicenter reproducibility and variability.”
• 2019, Multiple Sclerosis Journal: Combès, Benoı̂t, Anne Kerbrat, Jean Christophe Ferré, Virginie Callot, Josefina Maranzano, Atef Badji, Emmanuelle Le Page, et al. “Focal and diffuse cervical spinal cord damage in patients with early relapsing–remitting ms: A multicentre magnetisation transfer ratio study.”
• 2019, Journal of Neurology: Chouteau, Raphaël, Benoit Combès, Elise Bannier, Haykel Snoussi, Jean-Christophe Ferré, Christian Barillot, Gilles Edan, Paul Sauleau, and Anne Kerbrat. “Joint assessment of brain and spinal cord motor tract damage in patients with early rrms: Predominant impact of spinal cord lesions on motor function.”
• 2018, Multiple Sclerosis Journal: Kerbrat, Anne, Benoit Combès, Olivier Commowick, Adil Maarouf, Elise Bannier, Jean Christophe Ferré, Ayman Tourbah, Jean-Philippe Ranjeva, Christian Barillot, and Gilles Edan. “USPIO-positive ms lesions are associated with greater tissue damage than gadolinium-positive-only lesions during 3-year follow-up.”
• 2017, arXiv preprint arXiv:1710.10919: Héas, Patrick, Cédric Herzet, and Benoit Combès. “Non-linear reduced modeling by generalized kernel-based dynamic mode decomposition.”
• 2017, Quaternary Geochronology: Combès, Benoit, and Anne Philippe. “Bayesian analysis of individual and systematic multiplicative errors for estimating ages with stratigraphic constraints in optically stimulated luminescence dating.”
• 2015, Radiation Measurements: Guérin, Guillaume, Benoit Combès, Christelle Lahaye, Kristina J Thomsen, Chantal Tribolo, Petra Urbanova, Pierre Guibert, Norbert Mercier, and Hélène Valladas. “Testing the accuracy of a bayesian central-dose model for single-grain osl, using known-age samples.”
• 2015, Fluid Dynamics Research: Combés, Benoit, Dominique Heitz, Anthony Guibert, and Etienne Mémin. “A particle filter to reconstruct a free-surface flow from a depth camera.”
• 2015, Quaternary geochronology: Combès, Benoit, Anne Philippe, Philippe Lanos, Norbert Mercier, Chantal Tribolo, Guillaume Guerin, Pierre Guibert, and Christelle Lahaye. “A bayesian central equivalent dose model for optically stimulated luminescence dating.”
• 2013, Bull Mém Soc Anthropol Paris: Balzeau, Antoine, Dominique Grimaud-Hervé, Florent Détroit, Ralph L Holloway, Benoı̂t Combès, and Sylvain Prima. “First description of the cro-magnon 1 endocast and study of brain variation and evolution in anatomically modern homo sapiens.”

Proceedings

• 2023, IEEE cbms 2023-36th ieee international symposium on computer-based medical systems (cbms): Walsh, Ricky, Cédric Meurée, Anne Kerbrat, Arthur Masson, Burhan Rashid Hussein, Malo Gaubert, Francesca Galassi, and Benoit Combès. “Expert variability and deep learning performance in spinal cord lesion segmentation for multiple sclerosis patients.”
• 2023, 2023 ieee 20th international symposium on biomedical imaging (isbi): Hussein, Burhan Rashid, Cédric Meurée, Malo Gaubert, Arthur Masson, Anne Kerbrat, Benoı̂t Combès, and Francesca Galassi. “A study on loss functions and decision thresholds for the segmentation of multiple sclerosis lesions on spinal cord mri.”
• 2022, ECTRIMS 2022-38th congress of the european committee for treatment and research in multiple sclerosis: Gaubert, Malo, Elise Bannier, Raphael Chouteau, Virginie Callot, Jean-Christophe Ferré, Guillaume Hamon, Anne Kerbrat, and Benoit Combès. “Magnetization transfer imaging of the whole spinal cord in multiple sclerosis patients.”
• 2022, ECTRIMS 2022-38th congress of the european committee for treatment and research in multiple sclerosis: Gaubert, Malo, Benoit Combès, Elise Bannier, Virginie Callot, Jean-Christophe Ferré, Guillaume Hamon, Raphael Chouteau, and Anne Kerbrat. “Impact of lesion damages along the whole motor pathways on disability in multiple sclerosis.”
• 2021, ECTRIMS 2021: Leguy, Soizic, Anne Kerbrat, Elise Bannier, and Benoı̂t Combès. “Asymmetry of magnetization transfer ratio (mtr) measurements in the cervical spinal cord of ms patients.”
• 2020, ICASSP 2020-2020 ieee international conference on acoustics, speech and signal processing (icassp): Héas, Patrick, Cédric Herzet, and Benoit Combes. “Generalized kernel-based dynamic mode decomposition.”
• 2018, ISMRM annual meeting 2018: Chatterjee, Sudhanya, Olivier Commowick, Onur Afacan, Benoı̂t Combès, Anne Kerbrat, Simon K Warfield, and Christian Barillot. “A 3-year follow-up study of enhancing and non-enhancing multiple sclerosis (ms) lesions in ms patients demonstrating clinically isolated syndrome (cis) using a multi-compartment t2 relaxometry (mct2) model.”
• 2016, International conference on medical image computing and computer-assisted intervention: Combès, Benoit, Anne Kerbrat, Olivier Commowick, and Christian Barillot. “A bayesian model to assess values and their changes over time in quantitative mri.”
• 2014, 14th luminescence and electron spin resonance dating: Guérin, Guillaume, Benoı̂t Combès, Chantal Tribolo, Christelle Lahaye, Norbert Mercier, Pierre Guibert, and Kristina J Thomsen. “Testing the accuracy of a single grain osl bayesian central dose model with known-age samples.”
• 2013, Colloque annuel de la société d’anthropologie de paris-1838e réunion scientifique: Prima, Sylvain, Gérard Subsol, José Braga, Juan F Garamendi, Benoı̂t Combès, Jean Dumoncel, and Dean Falk. “VirtuaL reconstruction of the taung chiLd’s endocast.”
• 2013, Colloque annuel de la société d’anthropologie de paris 1838e réunion scientifique: Prima, Sylvain, Gérard Subsol, José Braga, Juan Garamendi, Benoı̂t Combès, Jean Dumoncel, and Dean Falk. “Reconstruction numérique de l’endocrâne de l’enfant de taung.”
• 2013, AAPA: American association of physical anthropologists: Prima, Sylvain, Gérard Subsol, José Braga, Juan Francisco Garamendi Bragado, Benoı̂t Combès, Jean Dumoncel, and Dean Falk. “Comparison of endocranial and ectocranial" symmetry planes" and application to the virtual reconstruction of hominid fossils.”
• 2011, AAPA: American association of physical anthropologists: Prima, Sylvain, Ralph Holloway, Gérard Subsol, Benoı̂t Combès, Tom Schoenemann, José Braga, and Janet Monge. “New 3D automatic methods for the analysis of the endocranial shape and its relationship with ectocranial structures: Assessment and preliminary experiments.”
• 2011, 2011 ieee international symposium on biomedical imaging: From nano to macro: Fournier, Marc, Benoı̂t Combès, Neil Roberts, Simon Keller, Tim J Crow, William D Hopkins, and Sylvain Prima. “Surface-based method to evaluate global brain shape asymmetries in human and chimpanzee brains.”
• 2011, Medical imaging 2011: Image processing: Fournier, Marc, Benoı̂t Combès, Neil Roberts, José Braga, and Sylvain Prima. “Mapping the distance between the brain and the inner surface of the skull and their global asymmetries.”
• 2011, Medical imaging 2011: Image processing: Fournier, Marc, Benoı̂t Combès, Neil Roberts, José Braga, and Sylvain Prima. “Mapping the distance between the brain and the inner surface of the skull and their global asymmetries.”
• 2011, AAPA: American association of physical anthropologists: Falk, Dean, José Braga, Benoı̂t Combès, Gérard Subsol, and Sylvain Prima. “First virtual reconstructions of the frontal lobe and temporal pole of the taung (australopithecus africanus) endocast.”
• 2011, MICCAI workshop on mesh processing in medical image analysis (meshmed’2011): Combès, Benoı̂t, Charles Garraud, Xavier Morandi, Sylvain Prima, and Pierre Hellier. “MRI-free neuronavigation for transcranial magnetic stimulation in severe depression.”
• 2011, 2011 ieee international symposium on biomedical imaging: From nano to macro: Combès, Benoı̂t, Marc Fournier, David N Kennedy, José Braga, Neil Roberts, and Sylvain Prima. “EM-icp strategies for joint mean shape and correspondences estimation: Applications to statistical analysis of shape and of asymmetry.”
• 2011, FVR2011: Combes, Benoit, Anthony Guibert, Etienne Mémin, and Dominique Heitz. “Free-surface flows from kinect: Feasibility and limits.”
• 2011, 80th annual meeting of the american association of physical anthropologists: Combès, Benoı̂t, Marc Fournier, José Braga, Antoine Balzeau, Emmanuel Gilissen, Francis Thackeray, and Sylvain Prima. “Automatic, landmark-free quantification of 3D endocranial asymmetries in extant and fossil species: New insights into paleoneurology.”
• 2011, 1836èmes journées de la société d’Anthropologie de paris (sap): Braga, José, Marc Fournier, Benoı̂t Combès, Didier Descouens, Gérard Subsol, and Sylvain Prima. “Imagerie tridimensionnelle à haute résolution des labyrinthes osseux de l’Homme, des chimpanzés et des babouins: Perspectives évolutives.”
• 2011, AAPA: American association of physical anthropologists: Braga, José, Marc Fournier, Benoı̂t Combès, Didier Descouens, Gérard Subsol, Veronica Pereda-Loth, and Sylvain Prima. “Evolutionary perspectives of high resolution three-dimensional comparisons of bony labyrinths in humans, chimpanzees and baboons.”
• 2011, AAPA: American association of physical anthropologists: Braga, José, Marc Fournier, Benoı̂t Combès, Didier Descouens, Gérard Subsol, Veronica Pereda-Loth, and Sylvain Prima. “Evolutionary perspectives of high resolution three-dimensional comparisons of bony labyrinths in humans, chimpanzees and baboons.”
• 2011, MICCAI workshop on mesh processing in medical image analysis (meshmed’2011): Abadie, Alexandre, Benoı̂t Combès, Claire Haegelen, and Sylvain Prima. “CLARCS, a c++ library for automated registration and comparison of surfaces: Medical applications.”
• 2010, Medical imaging 2010: Image processing: Münch, Daniel, Benoı̂t Combès, and Sylvain Prima. “A modified icp algorithm for normal-guided surface registration.”
• 2010, International conference on medical image computing and computer-assisted intervention: Combès, Benoı̂t, and Sylvain Prima. “An efficient em-icp algorithm for symmetric consistent non-linear registration of point sets.”
• 2010, 79th annual meeting of the american association of physical anthropologists (aapa): Combès, Benoı̂t, José Braga, Francis Thackeray, and Sylvain Prima. “3D automated quantification of asymmetries on fossil endocasts.”
• 2009, International conference on medical image computing and computer-assisted intervention: Combès, Benoı̂t, and Sylvain Prima. “Setting priors and enforcing constraints on matches for nonlinear registration of meshes.”
• 2009, 2009 ieee international symposium on biomedical imaging: From nano to macro: Combès, Benoı̂t, and Sylvain Prima. “Prior affinity measures on matches for icp-like nonlinear registration of free-form surfaces.”
• 2008, International conference on medical image computing and computer-assisted intervention: Combès, Benoı̂t, and Sylvain Prima. “New algorithms to map asymmetries of 3D surfaces.”
• 2008, 2008 ieee conference on computer vision and pattern recognition: Combès, Benoı̂t, Robin Hennessy, John Waddington, Neil Roberts, and Sylvain Prima. “Automatic symmetry plane estimation of bilateral objects in point clouds.”
• 2008, 2008 5th ieee international symposium on biomedical imaging: From nano to macro: Combès, Benoı̂t, Robin Hennessy, John Waddington, Neil Roberts, and Sylvain Prima. “An algorithm to map asymmetries of bilateral objects in point clouds.”

List of Supervisions and Collaborations

PhD students

In progress

• From 22-11-01: Ricky Walsh. Accurate and robust automated segmentation of multiple sclerosis lesions in spinal cord MRI.

Past

Postdoctoral fellows

In progress

• From 22-06-01: Burhan Hussein. Post doctoral fellow working on the design of machine learning method for spinal cord MS lesions segmentation.
• From 22-04-01: Cedric Meurée. Post doctoral fellow working on the design of machine learning method for spinal cord MS lesions segmentation.

Past

Engineers

In progress

• From 21-10-01: Malo Gaubert. Research Engineer working on the exploration and analysis of the Emisep, MapMS and MSTracts clinical MR study.

Past

• From 21-01-01 to 23-09-31: Arthur Masson. Research Engineer working for the Ofsep-Inria collaborative works.

Internships

In progress

Past

• From 23-02-09 to 23-07-31 : Gaelle Baudron (M2 physiques médicales (UR1)) Evaluation de l’impact du changement de machine IRM sur la qualité des images acquises [subject, -, -, -].
• From 23-02-01 to ? : Vivien Caron (M2 SIBM (UR1)) Spinal cord microstructural damage measured in recently diagnosed Relapsing Remitting MS patients: prognostic value at 5-year [-, report, -, -].
• From 22-06-01 to 22-07-30 : Clément Bion (ESIR2 option SI (UR1)) Développement et déploiement d’outils pour la visualisation et l’évaluation de segmentations automatiques de lésions dans des images médicales 3D [subject, -, -, -].
• From 22-02-07 to 22-07-07 : Thomas Leguay (M2 SIG (UR1)) Optimal transport Domain Adaptation for MS Lesion Segmentation in MRI of Spinal Cord [subject].
• From 21-02-01 to 21-08-01 : Quentin Frecelle (M2 SIBM (UR1)) Identification et étude des “Slowly evolving lesion” en IRM cérébral dans la sclérose en plaque [subject].
• From 20-04-01 to 20-09-30 : Soizic Leguy (M2SIBM (UR1)) Asymmetry of Magnetization Transfer Ratio (MTR) Measurements In the Cervical Spinal Cord of MS patients [subject, -, -].
• From 20-03-01 to 20-08-30 : Brandon Lebon (ESIR 3 (UR1)) Méthode d’apprentissage profond pour la détection de nouvelles lésions SEPs [subject].
• From 18-03-01 to 18-08-30 : Raphael Chouteau (M2 SIBM(UR1)) Quantification des anomalies du faisceau pyramidal encéphalique et médullaire dans la SEP rémittente débutante: association entre données IRM et conséquences fonctionnelles mesurées en clinique et en électrophysiologie [-, report, slides].