Publications
2025
A. Pelissier, M. Slav, N. Beerenwinkel and M. R. Martinez. Practical and Scalabale Simulations of Non-Markovian Stochastic Processes. Proceedings of the National Academy of Sciences (under review). (2025)
10.48550/arXiv.2212.05059
A. Pelissier*, K. Hashimoto*, K. Mochizuki*, J. N. Taylor, JE. Clement, Y. Kumamoto, Y. Harada, K. Fujita and T. Komatsuzaki. Beyond the Nucleus: Cytoplasmic Dominance in Follicular Thyroid Carcinoma Detection Using Single-Cell Raman Imaging Across Multiple Devices. Analytical Chemistery (under review) (2025).
arxiv.org/abs/1904.05675
A. Pelissier*, T. Laragione*, Carolyn Harris, M. R. Martinez and P. S. Gulko. BACH1 as a key driver in rheumatoid arthritis fibroblast-like synoviocytes identified through gene network analysis. Life Science Alliance 8(1). (2025)
10.26508/lsa.202402808
2024
M. Nielsen, A. Eugster, M.F. Jensen, M. Goel, A. Mayer, A. Pelissier, S. Valkiers, M.R. Martínez, B. Piganeeau, V. Greiff, T. Mora, A. Walczak, G. Croce, D. Moreno, D. Gfeller, P. Meysman, J. Barton. Lessons learned from the IMMREP23 TCR-epitope prediction challenge ImmunoInformatics. (2024)
10.1016/j.immuno.2024.100045
A. Weber, A. Pelissier and M. R. Martinez. T-cell receptor binding prediction: A machine learning revolution ImmunoInformatics. (2024)
10.1016/j.immuno.2024.100036
N. Deutschmann*, A. Pelissier*, A. Weber, S. Gao, J. Bogojeska and M. R. Martinez. Do domain-specific protein language models outperform general models on immunology-related tasks? ImmunoInformatics. (2024)
10.1016/j.immuno.2024.100036
A. Pelissier, T. Laragione, P. S. Gulko and M. R. Martinez. Cell-specific gene networks and drivers in rheumatoid arthritis synovial tissues. Frontiers in Immunology 15. (2024)
10.3389/fimmu.2024.1428773
2023
J. Taylor, A. Pélissier, K. Mochizuki, K. Hashimoto, Y. Kumamoto, Y. Harada, K. Fujita, T. Bocklitz, and T. Komatsuzaki. Correction for Extrinsic Background in Raman Hyperspectral Images. Analytical Chemistry. (2023)
10.1021/acs.analchem.3c01406
A. Pelissier*, M. Stratigopoulou*, N. Donner, E. Dimitriadis, R. J. Bende, J. E. Guikema, M. R. Martinez, and C. J. van Noesel. Convergent Evolution and B-Cell Recirculation in Germinal Centers in a Human Lymph Node. Life Science Alliance 6(11). (2023)
10.26508/lsa.202301959
A. Pelissier*, S. Luo*, M. Stratigopoulou, J. E. Guikema, and M. R. Martinez. Exploring the impact of clonal definition on B-cell diversity: implications for the analysis of immune repertoires. Frontiers in Immunology. (2023)
10.3389/fimmu.2023.1123968
2020
A. Pelissier, Y. Akrout, K. Jahn, J. Kuipers, U. Klein, N. Beerenwinkel and M. Rodríguez Martínez, Computational Model Reveals a Stochastic Mechanism behind Germinal Center Clonal Bursts. Cells, 9.6 (2020).
10.3390/cells9061448
2019
A. Pelissier, A. Nakamura, K. Tabata. Feature selection as Monte-Carlo Search in Growing Single Rooted Directed Acyclic Graph by Best Leaf Identification. Proceedings of the 2019 SIAM International Conference on Data Mining, 450-458. (2019).
10.1137/1.9781611975673.51
arxiv.org/abs/1811.07531
Theses
Stochastic Modeling of the Humoral Immune Response: A Multi-scale Challenge – Supervised by Maria Rodriguez Martinez and Niko Beerenwinkel
PhD Thesis, IBM Research & ETH Zurich, Switzerland (June 2023)
Feature Selection as Reinforcement Learning Applied to Raman Spectra for Cancer Diagnosis – Supervised by Atsuyoshi Nakamura
M. S. Thesis (2nd year), Imperial University of Hokkaido, Sapporo, Japan (June 2018)
Study of High Harmonic Generation in High Repetition Rate Systems – Supervised by David Jones
Predoctoral Research Program Thesis, University of British Columbia, Vancouver, Canada (June 2017)
Impact of Piezoelectric Effects on Nitride-III Nanobeam Optical Properties – Supervised by Ian Michael Rousseau, Directed by Raphael Butte and Nicolas Grandjean
M. S. Thesis (1rst year), École Polytechnique Fédérale de Lausanne, Switzerland (July 2016)