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Fabien CRAUSTE

Directeur de Recherches CNRS
Habilité à Diriger des Recherches

MAP5 UMR 8541
Université Paris Cité
45 rue des Saints Pères, 75270 Paris cedex 06, France
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Directeur du Réseau Thématique Math Bio Santé.
Membre du bureau d'AMIES (Agence pour les Mathématiques en Interaction avec l'Entreprise et la Société).
Membre de l'initiative MAP1.5 du MAP5, groupe de réflexion et propositions sur les pratiques du laboratoires et leur impact environemental, s'appuyant sur l'initiative Labos 1point5.
Co-organisateur du séminaire de modélisation mathématique en sciences de la vie et santé (séminaire commun LAGA, LJLL, MAP5).
Référent égalité du MAP5 auprès du CNRS (réseau national COREGAL) et de la Faculté des Sciences de l'Université Paris Cité.


Thèmes de recherches :
 - Biomathématiques, Modélisation, Equations à retard, Equations structurées, Modèles à base d'agents
 - Immunologie mathématique (réponse T CD8, réponse B)
 - Dynamique de population cellulaires

Projets de recherches en cours :

Projet AI4scMED
Multiscale AI for single-cell based precision medicine
Financé par le PEPR Santé Numérique et France 2030

Projet DCComm
Analyse des systèmes de communication entre les cellules dendritiques humaines et les cellules T
Soutenu et financé par l'ANR


Projet TROPIC
Transport Optimal et Différenciation Cellulaire
Soutenu et financé par la Mission pour les Initiatives Transverses et Interdisciplinaires du CNRS


Encadrements en cours :
Thi Nhu Thao Nguyen : postdoc (2024 - 2025) sur le projet AI4scMED.
Lucie Brolon : thèse (2023 - ..., co-encadrée par Marie Perrot-Dockès) sur Modélisation et analyse statistique de la communication entre lymphocytes T et cellules dendritiques.
Clémence Fournié : thèse (2023 - ..., co-encadrée par Olivier Gandrillon) sur Transport optimal et différenciation cellulaire.

Encadrements passés :
Thi Nhu Thao Nguyen : postdoc (2022 - 2024) sur le projet ANR MEMOIRE.
Madge Martin : postdoc (2021) sur le projet ANR MEMOIRE.
Alexey Koshkin : thèse (2018 - 2021), Studying a stochastic gene regulatory network driving the germinal center B cell differentiation
Ronan Duchesne : thèse (2016 - 2019), Erythroid differentiation in vitro under the lens of mathematical modelling
Simon Girel : thèse (2015-2018), Modélisation de la Réponse Immunitaire T-CD8 : Analyse Mathématique et Modèles Multiéchelles
Chloé Audebert (postdoc, 2017-2018)
Marine Jacquier (thèse, 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 (thèse, 2009-2012), Modélisation mathématique des dynamiques de la réponse immunitaire T CD8, aux échelles cellulaire et moléculaire


Publications :
  1. 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. HAL (2024).
    HAL preprint 
  2. 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 
  3. A. Koshkin, U. Herbach, M. Rodríguez Martínez, O. Gandrillon, F. Crauste. Stochastic modeling of a gene regulatory network driving B cell development in germinal centers. HAL (2024).
    HAL preprint 
  4. 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
  5. 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
  6. 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
  7. 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
  8. 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
  9. 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
  10. 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
  11. 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
  12. 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
  13. 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
  14. 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
  15. 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
  16. 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
  17. 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
  18. 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
  19. 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
  20. 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
  21. M. Jacquier, H.A. Soula, F. Crauste. A mathematical model of leptin resistance. Mathematical Biosciences, 267, 10-23 (2015).
    HAL preprint  article
  22. 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
  23. 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
  24. 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
  25. 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
  26. 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
  27. 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
  28. 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
  29. 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
  30. 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
  31. 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
  32. 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
  33. 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
  34. 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
  35. 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
  36. 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
  37. 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
  38. 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
  39. 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
  40. 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
  41. 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
  42. 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
  43. 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
  44. 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
  45. 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
  46. 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
  47. 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
  48. 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
  49. 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
  50. 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
  51. 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
  52. 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
  53. 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
  54. 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
  55. 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
  56. 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
  57. 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
  58. 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
  59. 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
  60. 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
  61. 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) : Equations à Retard et Modèles de Dynamiques de Populations Cellulaires.    manuscrit

Thèse de doctorat : Étude mathématique d'équations aux dérivées partielles hyperboliques modélisant les processus de régulation des cellules sanguines - Applications aux maladies hématologiques cycliques.    manuscrit