Technical Skills
- Languages: French (native), English (fluent), German, Spanish (notions)
- Programming: Python (PyTorch, Napari, Dask, Numba) (++), LaTeX/TikZ/Beamer (++), C, Java
- Dev Tools: Visual Studio Code, Git, cluster/HPC, Linux, LLM
- Other Tools: Fiji, Icy, QuPath, Inkscape, Photoshop/Gimp, Blender
Experience
2025 –
Postdoc in Bioimage Analysis, Institut Pasteur,
Paris, France
- ProteoVir: spatial single-cell proteomics of
neurons — segmentation methods, multi-flow instance-segmentation network (ISBI 2026) and
laser-microdissection pipeline
- Image-analysis pipelines with biology labs: 3D RNA spot counting, infection-chip dynamics, 3D vascular
networks; supervision of interns and teaching
2021 – 2024
PhD in Signal and Image processing
(thesis), Inria d’Université Côte d’Azur,
Sophia-Antipolis, France
Directed by Josiane Zerubia (AYANA team, Inria) and Mathias Ortner
(Airbus Defense and Space).
Learning Stochastic geometry models and convolutional neural networks. Application to multiple object
detection in aerospatial data sets.
2019 (6 months)
Research internship (post), EMBL-EBI, Uhlmann group, Cambridge, UK
Improving detection and tracking of individual Mycobacteria smegamtis in time lapse microscopy images of
growing colonies, using graphical models and convolutional neural networks.
2016 – 2019
Master’s degree in Engineering, Ecole Centrale de
Lille, Lille, France
- Common core: Aero/Hydrodynamics, Thermodynamics, Signal processing, Project management, Materials science
- DAD (Decision & Data Analysis) specialization: Probability and statistics optimization, machine
learning
- Applied Mathematics at Université de Lille: Functional analysis, Stochastic process, Itô integrals,
Statistical physics
Teaching and Supervision
- Taught Cellpose (segmentation, training, fine-tuning) at the Advanced BioImage Analysis with AI course,
Institut Pasteur, 2026
- Designed the internship project on 3D vascular network analysis and supervised two AMGEN Scholars interns
(Jul–Aug 2026); supervised a student project (Telecom Paris PRAT, 2025)
Publications
Journal Paper
Conference Papers
Full list at jmabon.fr/publications
- Improving Gradient Flow Methods for Instance
Segmentation of Crossing Objects, J. Mabon, J.-C. Olivo-Marin, IEEE ISBI, Apr 2026, London,
UK
- Apprentissage contrastif de
modèles de processus ponctuels pour la détection d’objets, J. Mabon, M. Ortner and J. Zerubia,
GRETSI, Aug 2023, Grenoble, France
Other
- Single Cell Symposium 2026, Vancouver: flash talk + poster on ProteoVir (competitive grant)
- Appose hackathon 2026: helped develop a Cellpose–Fiji plugin (Java–Python bridge in Fiji)
- NEUBIAS 2026: analyst track
- Member (2021-2022) then Secretary (2022-2023) of the ADSTIC: association of PhD students in the SophiaTech
campus, organizing social, sportive and scientific events, as well as acting as an intermediary with the
doctoral school