Fabien CRAUSTE
CNRS Senior Research Scientist
PhD in Applied Mathematics
Habilité à Diriger des Recherches MAP5 UMR 8541
Université Paris Cité
45 rue des Saints Pères
75270 Paris cedex 06, France
website
PhD in Applied Mathematics
Habilité à Diriger des Recherches MAP5 UMR 8541
Université Paris Cité
45 rue des Saints Pères
75270 Paris cedex 06, France
website
Member of the Program Committee of PEPR Maths-Vives. Member of the MAP5 laboratory initiative MAP1.5 of MAP5, workgroup devoted to the analysis of lab habits and their impact on the environment, relying on the Labos 1point5 initiative. DEI contact of MAP5.
- Mathematical Immunology (CD8 T cell response, B cell response)
- Modeling in Medicine (treatments of LLC, atopic dermatitis)
- Cell Population Dynamics
- Stochasticity and interindividual variability
- Parameter estimation anf experimental and medical data fitting Research Projects:
AI4scMED
Multiscale AI for single-cell based precision medicine
Funded by PEPR Santé Numérique and France 2030
Multiscale AI for single-cell based precision medicine
Funded by PEPR Santé Numérique and France 2030
Tom Matrat : PhD thesis (2026 - 2029, co-supervision with Chiara Villa and Emma Leschiera)
Perla Mallouk : PhD thesis (2025 - 2028, co-supervision with Chiara Villa)
Lucie Brolon : PhD thesis (2023 - 2026, co-supervised with Marie Perrot-Dockès)
Clémence Fournié : PhD thesis (2023 - 2026, co-supervised with Olivier Gandrillon)
Former supervisions:
Pawan Kumar : postdoc (2024 - 2026), AI4scMED.
Thi Nhu Thao Nguyen : postdoc (2024 - 2025), AI4scMED.
Thi Nhu Thao Nguyen : postdoc (2022 - 2024), ANR MEMOIRE.
Madge Martin : postdoc (2021), ANR MEMOIRE.
Alexey Koshkin : PhD thesis (2018 - 2021), Studying a stochastic gene regulatory network driving the germinal center B cell differentiation
Ronan Duchesne : PhD thesis (2016 - 2019), Erythroid differentiation in vitro under the lens of mathematical modelling
Simon Girel : PhD thesis (2015-2018), Modélisation de la Réponse Immunitaire T-CD8 : Analyse Mathématique et Modèles Multiéchelles
Chloé Audebert: postdoc (2017-2018)
Marine Jacquier: PhD thesis (2012-2016), Modélisation mathématique de la régulation hormonale de la prise alimentaire et de la prise de poids - Applications à la restriction calorique et la résistance à la leptine,
Xuefeng Gao: postdoc (2014-2015)
Sotiris Prokopiou: postdoc (2013-2014)
Floriane Lignet: postdoc (2013-2014)
Emmanuelle Terry: PhD thesis (2009-2012), Modélisation mathématique des dynamiques de la réponse immunitaire T CD8, aux échelles cellulaire et moléculaire
- L. Brolon, F. Crauste, M. Perrot-Dockes. Linear Modeling, Random Forests and Interpretability: SPLIM, Stable Piecewise Linear Interpretable Model. HAL preprint (2026).
HAL preprint - C. Fournié, E. Ventre, U. Herbach, A. Baradat, O. Gandrillon, F. Crauste. Cell trajectory inference based on Schrödinger problem and a mechanistic model of stochastic gene expression. npj Syst Biol Appl (2026).
HAL preprint article - T.N.T. Nguyen, C. Koering, E. Vallin, S. Gonin-Giraud, L. Broutier, S. Bernard, F. Crauste, O. Gandrillon. Multiscale modeling of the spatial structure of stem cells in neuroblastoma patient-derived tumoroids reveals a critical role for a short-range diffusive process. PLoS Comput Biol 22(3) : e1014137 (2026).
HAL preprint article - M. Adimy, F. Crauste, A. Ivanov, L. Pujo-Menjouet. Global stability and periodicity in a delay differential model. Journal of Mathematical Analysis and Applications, 561(1), 130555 (2026).
HAL preprint article - T.N.T. Nguyen, M. Martin, C. Arpin, S. Bernard, O. Gandrillon, F. Crauste. In silico modelling of CD8 T cell immune response links genetic regulation to population dynamics. ImmunoInformatics, 15, 100043 (2024).
HAL preprint article - S. Cadot, C. Audebert, C. Dion, S. Ken, L. Dupré, L. Largeaud, C. Laurent, L. Ysebaert, F. Crauste, A. Quillet-Mary. New pharmacodynamic parameters linked with ibrutinib responses in chronic lymphocytic leukemia : Prospective study in real-world patients and mathematical modeling. PLoS Med., 21(7), e1004430 (2024).
HAL preprint article - S. Wang, M. Prieux, S. de Bernard, M. Dubois, D. Laubreton, S. Djebali, M. Zala, C. Arpin, L. Genestier, Y. Leverrier, O. Gandrillon, F. Crauste, W. Jiang, J. Marvel. Exogenous IL-2 delays memory precursors generation and is essential for enhancing memory cells effector functions. iScience, 27(4), 109411 (2024).
HAL preprint article - S. Bernard, F. Crauste, O. Gandrillon, C. Knibbe, D. Parsons. Simuscale: A Modular Framework for Multiscale Single-Cell Modelling. RT-0520, Inria Lyon (2024).
HAL preprint - A. Koshkin, U. Herbach, M. Rodriguez Martinez, O. Gandrillon, F. Crauste. Stochastic modeling of a gene regulatory network driving B cell development in germinal centers. PLoS ONE, 19 (3), pp.e0301022 (2024).
HAL preprint article - H. Todorov, M. Prieux, D. Laubreton, M. Bouvier, S. Wang, S. de Bernard, et al. CD8 memory precursor cell generation is a continuous process. iScience 25 (9), pp.104927 (2022).
HAL preprint article - R. Duchesne, A. Guillemin, O. Gandrillon, F. Crauste. Practical identifiability in the frame of nonlinear mixed effects models: the example of the in vitro erythropoiesis. BMC Bioinformatics 22 (478) (2021).
HAL preprint article - E. Merino Tejero, D. Lashgari, R. Garcia-Valiente, X. Gao, F. Crauste, P. Robert, et al. Multiscale Modeling of Germinal Center Recapitulates the Temporal Transition From Memory B Cells to Plasma Cells Differentiation as Regulated by Antigen Affinity-Based Tfh Cell Help. Front. Immunol. 11, 3805 (2021).
HAL preprint article - C. Audebert, D. Laubreton, C. Arpin, O. Gandrillon, J. Marvel, F. Crauste. Modeling and characterization of inter-individual variability in CD8 T cell responses in mice. In Silico Biology 14(1-2), 13-39 (2020).
HAL preprint article - I. Balelli, C. Pasin, M. Prague, F. Crauste, T. Van Effelterre, V. Bockstal, L. Solforosi, R. Thiébaut. A model for establishment, maintenance and reactivation of the immune response after vaccination against Ebola virus. J. Theor. Biol. 495, 110254 (2020).
HAL preprint article - A. Guillemin, R. Duchesne, F. Crauste, S. Gonin-Giraud, O. Gandrillon. Drugs modulating stochastic gene expression affect the erythroid differentiation process. PLoS ONE 14(11): e0225166 (2019).
HAL preprint article - R. Duchesne, A. Guillemin, F. Crauste, O. Gandrillon. Calibration, Selection and Identifiability Analysis of a Mathematical Model of the in vitro Erythropoiesis in Normal and Perturbed Contexts. In Silico Biology. 13, 55-69 (2019).
HAL preprint article - S. Girel, C. Arpin, J. Marvel, O. Gandrillon, F. Crauste. Model-based assessment of the role of uneven partitioning of molecular content on heterogeneity and regulation of differentiation in CD8 T-cell immune responses. Front. Immunol. 10, 230 (2019).
HAL preprint article - K. Grzesik, K. Eng, F. Crauste, S. Battaglia. In Silico Methods for Studying T Cell Biology. Int. Rev. Cell. Mol. Biol. 342, 265-304 (2019).
HAL preprint article - L. Boullu, M. Adimy, F. Crauste, L. Pujo-Menjouet. Oscillations and asymptotic convergence for a delay differential equation modeling platelet production. Discrete & Continuous Dynamical Systems - B, 24 (6), 2417-2442 (2019).
HAL preprint article - S. Girel, F. Crauste. Existence and stability of periodic solutions of an impulsive differential equation and application to CD8 T-cell differentiation. J. Math. Biol. 76 (7), 1765-1795 (2018).
HAL preprint article - L. Barbarroux, Ph. Michel, M. Adimy, F. Crauste. A multiscale model of the CD8 T cell immune response structured by intracellular content. Discrete and Continuous Dynamical Systems Series B 23 (9), 3969-4002 (2018).
HAL preprint article - O. Angulo, O. Gandrillon, F. Crauste. Investigating the role of the experimental protocol in phenylhydrazine-induced anemia on mice recovery. J. Theoret. Biol. 437, 286-298 (2018).
HAL preprint article - O. Angulo, F. Crauste, JC Lopez-Marcos. Numerical integration of an erythropoiesis model with explicit growth factor dynamics. Journal of Computational and Applied Mathematics 330, 770-782 (2018).
HAL preprint article - F. Crauste, J. Mafille, L. Boucinha, S. Djebali, O. Gandrillon, J. Marvel, C. Arpin. Identification of nascent Memory CD8 T cells and modeling of their ontogeny. Cell Systems 4(3), 306-317 (2017).
HAL preprint article - L. Barbarroux, P. Michel, M. Adimy, F. Crauste. Multi-scale modeling of the CD8 immune response. AIP Conference Proceedings 1738 (1), 320002 (2016).
HAL preprint article - X. Gao, C. Arpin, J. Marvel, S. Prokopiou, O. Gandrillon, F. Crauste. IL-2 sensitivity and exogenous IL-2 concentration gradient tune the productive contact
duration of CD8+ T cell-APC: a multiscale modeling study. BMC Systems Biology, 10, 77 (2016).
HAL preprint article - M. Jacquier, H.A. Soula, F. Crauste. A mathematical model of leptin resistance. Mathematical Biosciences, 267, 10-23 (2015).
HAL preprint article - S. Bernard, F. Crauste. Optimal linear stability condition for scalar differential equations with distributed delay. Discrete and Continuous Dynamical Systems Series B, 20 (7), 1855-1876 (2015).
HAL preprint article - F. Crauste, E. Terry, I. Le Mercier, J. Mafi lle, S. Djebali, T. Andrieu, B. Mercier, G. Kaneko, C. Arpin, J. Marvel, O. Gandrillon. Predicting Pathogen-Speci c CD8 T Cell Immune Responses from a Modeling Approach. J. Theor. Biol., 374, 66-82 (2015).
HAL preprint article - S. Prokopiou, L. Barbarroux, S. Bernard, J. Mafille, Y. Leverrier, C. Arpin, J. Marvel, O. Gandrillon, F. Crauste. Multiscale modeling of the early CD8 T cell immune response in lymph nodes: an integrative study. Computation, 2(4), 159-181 (2014).
HAL preprint article - M. Jacquier, F. Crauste, Ch. Soulage, H. Soula. A predictive model of the dynamics of body weight and food intake in rats submitted to caloric restrictions. PLoS ONE, 9(6): e100073 (2014).
HAL preprint article - M. Adimy, F. Crauste. Delay Differential Equations and Autonomous Oscillations in Hematopoietic Stem Cell Dynamics Modeling. Mathematical Modelling of Natural Phenomena, 7 (6), 1-22 (2012).
HAL preprint article - E. Terry, J. Marvel, C. Arpin, O. Gandrillon, F. Crauste. Mathematical Model of the primary CD8 T Cell Immune Response: Stability Analysis of a Nonlinear Age-Structured System. Journal of Mathematical Biology, 65, 263-291 (2012).
HAL preprint article - S. Fischer, P. Kurbatova, N. Bessonov, O. Gandrillon, V. Volpert, F. Crauste. Modelling erythroblastic islands: using a hybrid model to assess the function of central macrophage. J. Theo. Biol., 298, 92-106 (2012).
HAL preprint article - F. Crauste. Equations aux dérivées partielles structurées en âge et équations à retard : Deux exemples d'applications en biologie, MATAPLI, 96, 73-95 (2011).
article - N. Bessonov, F. Crauste, S. Fischer, P. Kurbatova, V. Volpert. Application of Hybrid Models to Blood Cell Production in the Bone Marrow. Math. Model. Nat. Phenom., 6 (7), 2-12 (2011).
HAL preprint article - N. Bessonov, F. Crauste, V. Volpert. Modelling of Plant Growth with Apical or Basal Meristem. Math. Model. Nat. Phenom., 6 (2), 107-132 (2011).
HAL preprint article - P. Kurbatova, S. Bernard, N. Bessonov, F. Crauste, I. Demin, C. Dumontet, S. Fischer, V. Volpert. Hybrid model of erythropoiesis and leukemia treatment with cytosine arabinoside. SIAM J. App. Math., 71 (6), 2246-2268 (2011).
HAL preprint article - F. Crauste. A review on local asymptotic stability analysis for mathematical models of hematopoietic with delay and delay-dependent coefficients. Annals of the Tiberiu Popoviciu Seminar of functionnal equations, approximation and convexity, 9, 121-143 (2011).
HAL preprint journal - M. Adimy, F. Crauste, A. El Abdllaoui. Boundedness and Lyapunov Function for a Nonlinear System of Hematopoietic Stem Cell Dynamics. Comptes Rendus Mathematique, 348 (7-8), 373-377 (2010).
HAL preprint article - M. Adimy, F. Crauste, C. Marquet. Asymptotic behavior and stability switch for a mature-immature model of cell differentiation. Nonlinear Analysis: Real World Applications, 11 (4), 2913-2929 (2010).
HAL preprint article - F. Crauste. Stability and Hopf bifurcation for a first-order linear delay differential equation with distributed delay, in Complex Time Delay Systems (Ed. F. Atay), Springer, 1st edition, 320p., ISBN: 978-3-642-02328-6 (2010).
HAL preprint book chapter - F. Crauste, I. Demin, O. Gandrillon, V. Volpert. Mathematical study of feedback control roles and relevance in stress erythropoiesis. Journal of Theoretical Biology, 263 (3), 303-316 (2010).
HAL preprint article - M. Adimy, F. Crauste, My L. Hbid, R. Qesmi. Stability and Hopf bifurcation for a cell population model with state-dependent delay. SIAM J. Appl. Math, 70 (5), 1611-1633 (2010).
HAL preprint article - I. Demin, F. Crauste, O. Gandrillon, V. Volpert. A multi-scale model of erythropoiesis. Journal of Biological Dynamics, 4 (1), 59-70 (2010).
HAL preprint article - N. Bessonov, F. Crauste, I. Demin, V. Volpert. Dynamics of erythroid progenitors and erythroleukemia. Mathematical Modeling of Natural Phenomena, 4 (3), 210-232 (2009).
HAL preprint article - F. Crauste. Delay Model of Hematopoietic Stem Cell Dynamics: Asymptotic Stability and Stability Switch. Mathematical Modeling of Natural Phenomena, 4 (2), 28-47 (2009).
HAL preprint article - M. Adimy, F. Crauste. Mathematical model of hematopoiesis dynamics with growth factor-dependent apoptosis and proliferation regulation. Mathematical and Computer Modelling, 49, 2128-2137 (2009).
HAL preprint article - F. Crauste, M.L. Hbid, A. Kacha. A delay reaction-diffusion model of the dynamics of botulinum in fish. Mathematical Biosciences, 216, 17-29 (2008).
HAL preprint article - M. Adimy, F. Crauste, A. El Abdllaoui. Discrete maturity-structured model of cell differentiation with applications to acute myelogenous leukemia. Journal of Biological Systems, 16 (3), 395-424 (2008).
HAL preprint article - M. Adimy, S. Bernard, J. Clairambault, F. Crauste, S. Génieys, L. Pujo-Menjouet. Modélisation de la dynamique de l'hématopoïèse normale et pathologique. Hématologie, 14 (5), 339-350 (2008).
HAL preprint - M. Adimy, O. Angulo, F. Crauste, J.C. Lopez-Marcos. Numerical integration of a mathematical model of hematopoietic stem cell dynamics. Computer and Mathematics with Applications, 56, 594-606 (2008).
HAL preprint article - F. Crauste, L. Pujo-Menjouet, S. Génieys, C. Molina, O. Gandrillon. Adding Self-Renewal in Committed Erythroid Progenitors Improves the Biological Relevance of a Mathematical Model of Erythropoiesis. Journal of Theoretical Biology, 250, 322-338 (2008).
HAL preprint article - M. Adimy, F. Crauste. Modelling and asymptotic stability of a growth factor-dependent stem cells dynamics model with distributed delay. Discrete and Continuous Dynamical Systems Series B, 8 (1), 19-38 (2007).
HAL preprint article - M. Adimy, F. Crauste, A. El Abdllaoui. Asymptotic Behavior of a Discrete Maturity Structured System of Hematopoietic Stem Cells Dynamics with Several Delays. Mathematical Modelling of Natural Phenomena, Vol 1 (2), 1-22 (2006).
HAL preprint article - M. Adimy, F. Crauste, S. Ruan. Modelling hematopoiesis mediated by growth factors with applications to periodic hematological diseases. Bulletin of Mathematical Biology, 68 (8), 2321-2351 (2006).
HAL preprint article - M. Adimy, F. Crauste, S. Ruan. Periodic Oscillations in Leukopoiesis Models with Two Delays. Journal of Theoretical Biology, 242, 288-299 (2006).
HAL preprint article - F. Crauste. Global Asymptotic Stability and Hopf Bifurcation for a Blood Cell Production Model. Mathematical Biosciences and Engineering, 3 (2), 325-346 (2006).
HAL preprint article - M. Adimy, F. Crauste, A. Halanay, M. Neamţu, D. Opriş. Stability of limit cycles in a pluripotent stem cell dynamics model. Chaos, Solitons and Fractals, 27 (4), 1091-1107 (2006).
HAL preprint article - M. Adimy, F. Crauste, S. Ruan. A mathematical study of the hematopoiesis process with applications to chronic myelogenous leukemia. SIAM J. Appl. Math., 65 (4), 1328-1352 (2005).
HAL preprint article - M. Adimy, F. Crauste, S. Ruan. Stability and Hopf bifurcation in a mathematical model of pluripotent stem cell dynamics. Nonlinear Analysis: Real World Applications, 6 (4), 651-670 (2005).
HAL preprint article - M. Adimy, F. Crauste. Existence, positivity and stability for a nonlinear model of cellular proliferation. Nonlinear Analysis: Real World Applications, 6 (2), 337-366 (2005).
HAL preprint article - M. Adimy, F. Crauste, L. Pujo-Menjouet. On the stability of a maturity structured model of cellular proliferation. Dis. Cont. Dyn. Sys. Ser. A, 12 (3), 501-522 (2005).
HAL preprint article - F. Crauste, M. Adimy. Bifurcation dans un modèle non-linéaire de production du sang. Comptes-rendus de la 7ième Rencontre du Non-Linéaire, Non-Linéaire Publications, Paris, 73-78 (2004).
HAL preprint - M. Adimy, F. Crauste. Stability and instability induced by time delay in an erythropoiesis model. Monografias del Seminario Matematico Garcia de Galdeano, 31, 3-12 (2004).
HAL preprint - M. Adimy, F. Crauste. Global stability of a partial differential equation with distributed delay due to cellular replication. Nonlinear Analysis, 54 (8), 1469-1491 (2003).
HAL preprint article - M. Adimy, F. Crauste. Un modèle non-linéaire de prolifération cellulaire : extinction des cellules, invariance. Comptes Rendus Mathématiques, 336, 559-564 (2003).
HAL preprint article
Habilitation à Diriger des Recherches (HDR) : Équations à Retard et Modèles de Dynamiques de Populations Cellulaires. manuscrit
PhD Thesis: Mathematical study of hyperbolic partial differential equations modelling blood cells regulation processes - Applications to periodic hematological diseases. manuscrit (in french)