Center for Magnetic Resonance in Biology and Medicine
CRMBM-CEMEREM UMR 7339

LEVY-ROSETTI Simon

By arnaud le troter on 6 August 2018

Levy-Rosetti Simon

simon.levy@univ-amu.fr
Phone : +33491388465

iLab-Spine

PhD Student

at AMU

– Develop an MRI-based technique to quantify microperfusion within human spinal cord using ultra-high field MRI at CRMBM (Aix-Marseille University, Marseille, France).
– Investigate spinal cord compressions occurring in Cervical Spondylothic Myelopathy (CSM) patients through Finite Element Modeling simulations at LBA (Aix-Marseille University, Marseille, France).
– Teach 4 times a year to first-year medicine students

PhD Student

Download my Resume (EN)

Detailed Activities

Spinal cord compressions, such as those observed in traumatic injury or when intervertebral discs degenerate, impair tissue microperfusion. Consequently, tissue (axons, neurons, metabolism, etc.) deteriorate and symptoms (pain, weakness, paralysis, etc.) appear. A major and very invasive surgery is then necessary to decompress spinal cord.
My project aims at developing an MRI-based technique to quantify spinal cord microperfusion within human using ultra-high field MRI (7T) available at CRMBM. This would help detect tissue miroperfusion loss earlier. On the other hand, at LBA, I investigate such spinal cord compressions through Finite Element Modeling simulations using the Spine Model for Safety and Surgery (SM2S) developed within the iLab-Spine, international associate laboratory between Marseille (France) and Montreal (Canada). The final goal is to relate microperfusion maps to simulated constraint and stress maps within Cervical Spondylothic Myelopathy (CSM) patients.

Keywords

  • Image Processing
  • Microstructure/architecture
  • Perfusion Methods
  • Quantitative MRI
  • Ultra-high field MRI
  • MR signal modeling
  • Computer science

General Information

I am a fellow of the DOC2AMU PhD program funded by the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie grant agreement Nº713750. My project has also been carried out with the financial support of the Regional Council of Provence-Alpes-Côte-d’Azur and with the financial support of the A*MIDEX (n° ANR- 11-IDEX-0001-02), funded by the Investissements d’Avenir project funded by the French Government, managed by the French National Research Agency (ANR).

Publications :

180164 N8KKIHCD 1 harvard-cite-them-right-no-et-al 50 date desc year 2685 https://crmbm.univ-amu.fr/wp-content/plugins/zotpress/
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Lévy, S., Roche, P.-H., Guye, M. and Callot, V. (2021) “Feasibility of human spinal cord perfusion mapping using dynamic susceptibility contrast imaging at 7T: Preliminary results and identified guidelines,” Magnetic Resonance in Medicine, 85(3), pp. 1183–1194. Available at: https://doi.org/10.1002/mrm.28559.
Lévy, S., Baucher, G., Roche, P.-H., Evin, M., Callot, V. and Arnoux, P.-J. (2020) “Biomechanical comparison of spinal cord compression types occurring in Degenerative Cervical Myelopathy,” Clinical Biomechanics (Bristol, Avon), p. 105174. Available at: https://doi.org/10.1016/j.clinbiomech.2020.105174.
Lévy, S., Rapacchi, S., Massire, A., Troalen, T., Feiweier, T., Guye, M. and Callot, V. (2020) “Intravoxel Incoherent Motion at 7 Tesla to quantify human spinal cord perfusion: limitations and promises,” Magnetic Resonance in Medicine, 84(3), pp. 1198–1217. Available at: https://doi.org/10.1002/mrm.28195.
De Leener, B., Levy, S., Dupont, S.M., Fonov, V.S., Stikov, N., Collins, D.L., Callot, V. and Cohen-Adad, J. (2017) “SCT: Spinal Cord Toolbox, an open-source software for processing spinal cord MRI data,” Neuroimage, 145, pp. 24–43. Available at: https://doi.org/10.1016/j.neuroimage.2016.10.009.
Lévy, S., Benhamou, M., Naaman, C., Rainville, P., Callot, V. and Cohen-Adad, J. (2015) “White matter atlas of the human spinal cord with estimation of partial volume effect,” NeuroImage, 119, pp. 262–271. Available at: https://doi.org/10.1016/j.neuroimage.2015.06.040.
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