CNRS research engineer

Responsible of the IT Infrastructure
Manager of the IT processus (quality norm NFX50-900 ISO 9001)
CNRS communications correspondent at CRMBM
Member of the communication work group at CRMBM

Research Engineer (PhD)

Detailed Activities

I obtained in 2006 my Ph.D. degree at the Systems and Information Engineering Laboratory (LSIS lab) from the University of Aix-Marseille-2.
Title : “Images and Models registration : application to 3D reconstruction of sports scenes videos”

My research field is related to algorithmic, image segmentation and image registration for medical applications, in particular human brain data analysis.

From 2006 to 2011, I was a research engineer in LSIS and has recently participated in the BrainMorph project dedicated to the development and validation of surface-based brain morphometrics methods. I developed the software tools necessary to use these methods, mostly within the BrainVisa software platform, in C++ and python programming languages.
Since 2012, I am CNRS research engineer in the CRMBM Lab, and works in the research field of the functional and structural organizations of brain networks, muscle and spinal cord segmentation.


  • Applied Mathematics
  • Artificial Intelligence
  • Brain Connectivity
  • Image Processing
  • Image Registration
  • Image Segmentation


Vacataire Master TSI, Traitement du Signal & Image , Aix-Marseille Université
Responsable UE Préparation parcours
– Méthodes avancées du traitement des signaux et des images
– Application biomédicales
– Segmentation pour l’analyse d’images

Grant Supports

SATT Sud Est – Sociéte Accélération Transfert de Technologies – 2017
Co-PI du Projet SuperSeg : Segmentation Supervisée d’Images IRM Musculaires : aide au Suivi longitudinal des maladies musculaires et de la sarcopénie

Research Projects


Déposée le 10 juillet 2017, sous le n° 1756499.
Titre : Procédé et dispositif de segmentation d’images par propagation automatique dans une (N+1)-ième dimension d’une segmentation d’images initialisée en dimension N
Déposant(s) : Université d’Aix Marseille et Centre National de la Recherche Scientifique
Inventeurs : Arnaud Le Troter, Augustin Ogier, David Bendahan

Publications :

Brun, Gilles, Benoit Testud, Olivier M. Girard, Pierre Lehmann, Ludovic de Rochefort, Pierre Besson, Aurélien Massire, et al. “Automatic Segmentation of Deep Grey Nuclei Using a High-Resolution 7T Magnetic Resonance Imaging Atlas—Quantification of T1 Values in Healthy Volunteers.” European Journal of Neuroscience 55, no. 2 (2022): 438–60. https://doi.org/10.1111/ejn.15575.
Hertanu, Andreea, Lucas Soustelle, Arnaud Le Troter, Julie Buron, Julie Le Priellec, Victor N. D. Carvalho, Myriam Cayre, et al. “T1D-Weighted IhMT Imaging – Part I. Isolation of Long- and Short-T1D Components by T1D-Filtering.” Magnetic Resonance in Medicine 87, no. 5 (2022): 2313–28. https://doi.org/10.1002/mrm.29139.
Hertanu, Andreea, Lucas Soustelle, Julie Buron, Julie Le Priellec, Myriam Cayre, Arnaud Le Troter, Gopal Varma, et al. “T1D-Weighted IhMT Imaging – Part II. Investigating the Long- and Short-T1D Components Correlation with Myelin Content. Comparison with R1 and the Macromolecular Proton Fraction.” Magnetic Resonance in Medicine 87, no. 5 (2022): 2329–46. https://doi.org/10.1002/mrm.29140.
Makhalova, Julia, Arnaud Le Troter, Sandrine Aubert-Conil, Bernard Giusiano, Aileen McGonigal, Agnès Trebuchon, Romain Carron, et al. “Epileptogenic Networks in Drug-Resistant Epilepsy with Amygdala Enlargement: Assessment with Stereo-EEG and 7 T MRI.” Clinical Neurophysiology: Official Journal of the International Federation of Clinical Neurophysiology 133 (November 10, 2021): 94–103. https://doi.org/10.1016/j.clinph.2021.10.012.
Testud, B., G. Brun, A. Varoquaux, J. F. Hak, R. Appay, A. Le Troter, N. Girard, and J. P. Stellmann. “Perfusion-Weighted Techniques in MRI Grading of Pediatric Cerebral Tumors: Efficiency of Dynamic Susceptibility Contrast and Arterial Spin Labeling.” Neuroradiology 63, no. 8 (August 1, 2021): 1353–66. https://doi.org/10.1007/s00234-021-02640-y.
Wang, Huifang E., Julia Scholly, Paul Triebkorn, Viktor Sip, Samuel Medina Villalon, Marmaduke M. Woodman, Arnaud Le Troter, Maxime Guye, Fabrice Bartolomei, and Viktor Jirsa. “VEP Atlas: An Anatomic and Functional Human Brain Atlas Dedicated to Epilepsy Patients.” Journal of Neuroscience Methods 348 (January 15, 2021): 108983. https://doi.org/10.1016/j.jneumeth.2020.108983.
Jourdan, Arthur, Arnaud Le Troter, Pierre Daude, Stanislas Rapacchi, Catherine Masson, Thierry Bège, and David Bendahan. “Semiautomatic Quantification of Abdominal Wall Muscles Deformations Based on Dynamic MRI Image Registration.” NMR in Biomedicine 34, no. 4 (2021): e4470. https://doi.org/10.1002/nbm.4470.
Soustelle, Lucas, Julien Lamy, Arnaud Le Troter, Andreea Hertanu, Maxime Guye, Jean-Philippe Ranjeva, Gopal Varma, et al. “A Motion Correction Strategy for Multi-Contrast Based 3D Parametric Imaging: Application to Inhomogeneous Magnetization Transfer (IhMT).” Preprint. Neuroscience, September 13, 2020. http://biorxiv.org/lookup/doi/10.1101/2020.09.11.292649. preprint. https://doi.org/10.1101/2020.09.11.292649.
Lombardo, Diego, Catherine Cassé-Perrot, Jean-Philippe Ranjeva, Arnaud Le Troter, Maxime Guye, Jonathan Wirsich, Pierre Payoux, et al. “Modular Slowing of Resting-State Dynamic Functional Connectivity as a Marker of Cognitive Dysfunction Induced by Sleep Deprivation.” NeuroImage 222 (July 29, 2020): 117155. https://doi.org/10.1016/j.neuroimage.2020.117155.
Ogier, Augustin C., Linda Heskamp, Constance P. Michel, Alexandre Fouré, Marc-Emmanuel Bellemare, Arnaud Le Troter, Arend Heerschap, and David Bendahan. “A Novel Segmentation Framework Dedicated to the Follow-up of Fat Infiltration in Individual Muscles of Patients with Neuromuscular Disorders.” Magnetic Resonance in Medicine 83, no. 5 (May 2020): 1825–36. https://doi.org/10.1002/mrm.28030.
Bas, Joachim, Augustin C. Ogier, Arnaud Le Troter, Emilien Delmont, Benjamin Leporq, Lauriane Pini, Maxime Guye, et al. “Fat Fraction Distribution in Lower Limb Muscles of Patients with CMT1A: A Quantitative MRI Study.” Neurology 94, no. 14 (07 2020): e1480–87. https://doi.org/10.1212/WNL.0000000000009013.
Benacchio, Simon, Olivier Doutres, Arthur Varoquaux, Éric Wagnac, Arnaud Le Troter, Virginie Callot, and Franck Sgard. “Use of Magnetic Resonance Image Registration to Estimate Displacement in the Human Earcanal Due to the Insertion of In-Ear Devices.” The Journal of the Acoustical Society of America 146, no. 4 (October 2019): 2452. https://doi.org/10.1121/1.5126857.
Fouré, Alexandre, Arnaud Le Troter, Augustin C. Ogier, Maxime Guye, Julien Gondin, and David Bendahan. “Spatial Difference Can Occur between Activated and Damaged Muscle Areas Following Electrically-Induced Isometric Contractions.” The Journal of Physiology 597, no. 16 (August 2019): 4227–36. https://doi.org/10.1113/JP278205.
Cammilleri, Serge, Sophie Gabriel, Arnaud Le Troter, Christophe Chagnaud, Jean Pierre Mattei, David Bendahan, and Sandrine Guis. “Knee Psoriatic Enthesitis Assessed Using Positron Emission Tomography (PET) - FNa Merged to Ultrahigh Field Magnetic Resonance Imaging (UHF-MRI).” Joint Bone Spine 86, no. 3 (May 2019): 387–88. https://doi.org/10.1016/j.jbspin.2019.01.002.
Fortanier, Etienne, Aude-Marie Grapperon, Arnaud Le Troter, Annie Verschueren, Ben Ridley, Maxime Guye, Shahram Attarian, Jean-Philippe Ranjeva, and Wafaa Zaaraoui. “Structural Connectivity Alterations in Amyotrophic Lateral Sclerosis: A Graph Theory Based Imaging Study.” Frontiers in Neuroscience 13 (2019): 1044. https://doi.org/10.3389/fnins.2019.01044.
Benacchio, S., O. Doutres, A. Le Troter, A. Varoquaux, E. Wagnac, V. Callot, and F. Sgard. “Estimation of the Ear Canal Displacement Field Due to In-Ear Device Insertion Using a Registration Method on a Human-like Artificial Ear.” Hearing Research 365 (June 2, 2018): 16–27. https://doi.org/10.1016/j.heares.2018.05.019.
Mchinda, Samira, Gopal Varma, Valentin H. Prevost, Arnaud Le Troter, Stanislas Rapacchi, Maxime Guye, Jean Pelletier, et al. “Whole Brain Inhomogeneous Magnetization Transfer (IhMT) Imaging: Sensitivity Enhancement within a Steady-State Gradient Echo Sequence.” Magnetic Resonance in Medicine 79, no. 5 (May 2018): 2607–19. https://doi.org/10.1002/mrm.26907.
Van Obberghen, E., S. Mchinda, A. le Troter, V. H. Prevost, P. Viout, M. Guye, G. Varma, et al. “Evaluation of the Sensitivity of Inhomogeneous Magnetization Transfer (IhMT) MRI for Multiple Sclerosis.” AJNR. American Journal of Neuroradiology 39, no. 4 (April 2018): 634–41. https://doi.org/10.3174/ajnr.A5563.
Fouré, Alexandre, Augustin C. Ogier, Arnaud Le Troter, Christophe Vilmen, Thorsten Feiweier, Maxime Guye, Julien Gondin, Pierre Besson, and David Bendahan. “Diffusion Properties and 3D Architecture of Human Lower Leg Muscles Assessed with Ultra-High-Field-Strength Diffusion-Tensor MR Imaging and Tractography: Reproducibility and Sensitivity to Sex Difference and Intramuscular Variability.” Radiology 287, no. 2 (2018): 592–607. https://doi.org/10.1148/radiol.2017171330.
Ogier, Augustin, Michael Sdika, Alexandre Foure, Arnaud Le Troter, and David Bendahan. “Individual Muscle Segmentation in MR Images: A 3D Propagation through 2D Non-Linear Registration Approaches.” Conference Proceedings: ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference 2017 (July 2017): 317–20. https://doi.org/10.1109/EMBC.2017.8036826.
Dupont, Sara M., Benjamin De Leener, Manuel Taso, Arnaud Le Troter, Sylvie Nadeau, Nikola Stikov, Virginie Callot, and Julien Cohen-Adad. “Fully-Integrated Framework for the Segmentation and Registration of the Spinal Cord White and Gray Matter.” NeuroImage 150 (April 15, 2017): 358–72. https://doi.org/10.1016/j.neuroimage.2016.09.026.
Boutière, Clémence, Caroline Rey, Wafaa Zaaraoui, Arnaud Le Troter, Audrey Rico, Lydie Crespy, Sophie Achard, et al. “Improvement of Spasticity Following Intermittent Theta Burst Stimulation in Multiple Sclerosis Is Associated with Modulation of Resting-State Functional Connectivity of the Primary Motor Cortices.” Multiple Sclerosis (Houndmills, Basingstoke, England) 23, no. 6 (2017): 855–63. https://doi.org/10.1177/1352458516661640.
Wybrecht, D., F. Reuter, F. Pariollaud, W. Zaaraoui, A. Le Troter, A. Rico, S. Confort-Gouny, et al. “New Brain Lesions with No Impact on Physical Disability Can Impact Cognition in Early Multiple Sclerosis: A Ten-Year Longitudinal Study.” PloS One 12, no. 11 (2017): e0184650. https://doi.org/10.1371/journal.pone.0184650.
Fatehi, Farzad, Emmanuelle Salort-Campana, Arnaud Le Troter, Emilie Lareau-Trudel, Mark Bydder, Alexandre Fouré, Maxime Guye, David Bendahan, and Shahram Attarian. “Long-Term Follow-up of MRI Changes in Thigh Muscles of Patients with Facioscapulohumeral Dystrophy: A Quantitative Study.” PloS One 12, no. 8 (2017): e0183825. https://doi.org/10.1371/journal.pone.0183825.
Faivre, Anthony, Emmanuelle Robinet, Maxime Guye, Celia Rousseau, Adil Maarouf, Arnaud Le Troter, Wafaa Zaaraoui, et al. “Depletion of Brain Functional Connectivity Enhancement Leads to Disability Progression in Multiple Sclerosis: A Longitudinal Resting-State FMRI Study.” Multiple Sclerosis (Houndmills, Basingstoke, England) 22, no. 13 (November 2016): 1695–1708. https://doi.org/10.1177/1352458516628657.
Fatehi, F., E. Salort-Campana, A. Le Troter, D. Bendahan, and S. Attarian. “Muscle MRI of Facioscapulohumeral Dystrophy (FSHD): A Growing Demand and a Promising Approach.” Revue Neurologique 172, no. 10 (October 2016): 566–71. https://doi.org/10.1016/j.neurol.2016.08.002.
Taso, Manuel, Olivier M. Girard, Guillaume Duhamel, Arnaud Le Troter, Thorsten Feiweier, Maxime Guye, Jean-Philippe Ranjeva, and Virginie Callot. “Tract-Specific and Age-Related Variations of the Spinal Cord Microstructure: A Multi-Parametric MRI Study Using Diffusion Tensor Imaging (DTI) and Inhomogeneous Magnetization Transfer (IhMT).” NMR in Biomedicine 29, no. 6 (June 2016): 817–32. https://doi.org/10.1002/nbm.3530.
Donadieu, Maxime, Yann Le Fur, Sylviane Confort-Gouny, Arnaud Le Troter, Maxime Guye, and Jean-Philippe Ranjeva. “Evidencing Different Neurochemical Profiles between Thalamic Nuclei Using High Resolution 2D-PRESS Semi-LASER (1)H-MRSI at 7 T.” Magma (New York, N.Y.) 29, no. 3 (June 2016): 491–501. https://doi.org/10.1007/s10334-016-0556-1.
Le Troter, Arnaud, Alexandre Fouré, Maxime Guye, Sylviane Confort-Gouny, Jean-Pierre Mattei, Julien Gondin, Emmanuelle Salort-Campana, and David Bendahan. “Volume Measurements of Individual Muscles in Human Quadriceps Femoris Using Atlas-Based Segmentation Approaches.” Magma (New York, N.Y.) 29, no. 2 (April 2016): 245–57. https://doi.org/10.1007/s10334-016-0535-6.
Maarouf, Adil, Jean-Christophe Ferré, Wafaa Zaaraoui, Arnaud Le Troter, Elise Bannier, Isabelle Berry, Maxime Guye, et al. “Ultra-Small Superparamagnetic Iron Oxide Enhancement Is Associated with Higher Loss of Brain Tissue Structure in Clinically Isolated Syndrome.” Multiple Sclerosis (Houndmills, Basingstoke, England) 22, no. 8 (2016): 1032–39. https://doi.org/10.1177/1352458515607649.
Ridley, Ben, Marion Beltramone, Jonathan Wirsich, Arnaud Le Troter, Eve Tramoni, Sandrine Aubert, Sophie Achard, Jean-Philippe Ranjeva, Maxime Guye, and Olivier Felician. “Alien Hand, Restless Brain: Salience Network and Interhemispheric Connectivity Disruption Parallel Emergence and Extinction of Diagonistic Dyspraxia.” Frontiers in Human Neuroscience 10 (2016): 307. https://doi.org/10.3389/fnhum.2016.00307.
Ridley, Ben Gendon Yeshe, Celia Rousseau, Jonathan Wirsich, Arnaud Le Troter, Elisabeth Soulier, Sylvianne Confort-Gouny, Fabrice Bartolomei, Jean-Philippe Ranjeva, Sophie Achard, and Maxime Guye. “Nodal Approach Reveals Differential Impact of Lateralized Focal Epilepsies on Hub Reorganization.” NeuroImage 118 (September 2015): 39–48. https://doi.org/10.1016/j.neuroimage.2015.05.096.
Taso, Manuel, Arnaud Le Troter, Michaël Sdika, Julien Cohen-Adad, Pierre-Jean Arnoux, Maxime Guye, Jean-Philippe Ranjeva, and Virginie Callot. “A Reliable Spatially Normalized Template of the Human Spinal Cord - Applications to Automated White Matter/Gray Matter Segmentation and Tensor-Based Morphometry (TBM) Mapping of Gray Matter Alterations Occurring with Age.” NeuroImage 117 (August 15, 2015): 20–28. https://doi.org/10.1016/j.neuroimage.2015.05.034.
Lecocq, Angèle, Yann Le Fur, Andrew A. Maudsley, Arnaud Le Troter, Sulaiman Sheriff, Mohamad Sabati, Maxime Donadieu, et al. “Whole-Brain Quantitative Mapping of Metabolites Using Short Echo Three-Dimensional Proton MRSI.” Journal of Magnetic Resonance Imaging: JMRI 42, no. 2 (August 2015): 280–89. https://doi.org/10.1002/jmri.24809.
Fouré, Alexandre, Guillaume Duhamel, Jennifer Wegrzyk, Hélène Boudinet, Jean-Pierre Mattei, Arnaud Le Troter, David Bendahan, and Julien Gondin. “Heterogeneity of Muscle Damage Induced by Electrostimulation: A Multimodal MRI Study.” Medicine and Science in Sports and Exercise 47, no. 1 (January 2015): 166–75. https://doi.org/10.1249/MSS.0000000000000397.
Lareau-Trudel, Emilie, Arnaud Le Troter, Badih Ghattas, Jean Pouget, Shahram Attarian, David Bendahan, and Emmanuelle Salort-Campana. “Muscle Quantitative MR Imaging and Clustering Analysis in Patients with Facioscapulohumeral Muscular Dystrophy Type 1.” PloS One 10, no. 7 (2015): e0132717. https://doi.org/10.1371/journal.pone.0132717.
Fouré, Alexandre, Arnaud Le Troter, Maxime Guye, Jean-Pierre Mattei, David Bendahan, and Julien Gondin. “Localization and Quantification of Intramuscular Damage Using Statistical Parametric Mapping and Skeletal Muscle Parcellation.” Scientific Reports 5 (2015): 18580. https://doi.org/10.1038/srep18580.
Fonov, V. S., A. Le Troter, M. Taso, B. De Leener, G. Lévêque, M. Benhamou, M. Sdika, et al. “Framework for Integrated MRI Average of the Spinal Cord White and Gray Matter: The MNI-Poly-AMU Template.” NeuroImage 102 Pt 2 (November 15, 2014): 817–27. https://doi.org/10.1016/j.neuroimage.2014.08.057.
Wirsich, Jonathan, Christian Bénar, Jean-Philippe Ranjeva, Médéric Descoins, Elisabeth Soulier, Arnaud Le Troter, Sylviane Confort-Gouny, Catherine Liégeois-Chauvel, and Maxime Guye. “Single-Trial EEG-Informed FMRI Reveals Spatial Dependency of BOLD Signal on Early and Late IC-ERP Amplitudes during Face Recognition.” NeuroImage 100 (October 15, 2014): 325–36. https://doi.org/10.1016/j.neuroimage.2014.05.075.
Taso, Manuel, Arnaud Le Troter, Michaël Sdika, Jean-Philippe Ranjeva, Maxime Guye, Monique Bernard, and Virginie Callot. “Construction of an in Vivo Human Spinal Cord Atlas Based on High-Resolution MR Images at Cervical and Thoracic Levels: Preliminary Results.” Magma (New York, N.Y.) 27, no. 3 (June 2014): 257–67. https://doi.org/10.1007/s10334-013-0403-6.
Fouré, Alexandre, Kazunori Nosaka, Jennifer Wegrzyk, Guillaume Duhamel, Arnaud Le Troter, Hélène Boudinet, Jean-Pierre Mattei, et al. “Time Course of Central and Peripheral Alterations after Isometric Neuromuscular Electrical Stimulation-Induced Muscle Damage.” PloS One 9, no. 9 (2014): e107298. https://doi.org/10.1371/journal.pone.0107298.
Conductier, Grégory, Angèle Viola, Arnaud le Troter, Jean-Louis Nahon, and Alice Guyon. “[Beating frequency of motile cilia lining the third cerebral ventricle is finely tuned by the hypothalamic peptide MCH].” Médecine sciences: M/S 29, no. 11 (November 2013): 943–45. https://doi.org/10.1051/medsci/20132911004.
Coulon, Olivier, Guillaume Auzias, Arnaud Le Troter, Grégory Operto, and Denis Rivière. “Cortical Surface : A BrainVisa Toolbox for Surface-Based Processing of Neuroimaging Data.” Seattle, WA, USA, 2013.
Auzias, G, J Lefevre, A Le Troter, C Fischer, M Perrot, J Regis, and O Coulon. “Model-Driven Harmonic Parameterization of the Cortical Surface: HIP-HOP.” IEEE Transactions on Medical Imaging 32, no. 5 (May 2013): 873–87. https://doi.org/10.1109/TMI.2013.2241651.
Leporq, Benjamin, Arnaud Le Troter, Yann Le Fur, Emmanuelle Salort-Campana, Patrick Cozzone, Olivier Beuf, and David Bendahan. “Combination of a Fat Volume Fraction Quantification Method with a Dedicated Automatic Segmentation Algorithm for Simultaneous Measurement of Infiltrated Fatty Tissue Fraction and Muscle Relaxation Times.” Salt Lake City, Utah, USA, 2013.