Team, Visitors, External Collaborators
Overall Objectives
Research Program
New Software and Platforms
New Results
Partnerships and Cooperations
Dissemination
Bibliography
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Bibliography

Publications of the year

Doctoral Dissertations and Habilitation Theses

[1]
R. Duchesne.
Erythroid differentiation in vitro under the lens of mathematical modelling, Université de Lyon, December 2019.
https://hal.archives-ouvertes.fr/tel-02440831

Articles in International Peer-Reviewed Journals

[2]
M. Adimy, A. Chekroun, T. Kuniya.
Coupled reaction-diffusion and difference system of cell-cycle dynamics for hematopoiesis process with Dirichlet boundary conditions, in: Australian Journal of Mathematical Analysis and Applications, November 2019, vol. 479, no 1, pp. 1030-1068. [ DOI : 10.1016/j.jmaa.2019.06.066 ]
https://hal.inria.fr/hal-02448738
[3]
M. Adimy, A. Chekroun, C. Pio Ferreira.
Global dynamics of a differential-difference system: a case of Kermack-McKendrick SIR model with age-structured protection phase, in: Mathematical Biosciences and Engineering, 2020, vol. 17, no 2, pp. 1329-1354. [ DOI : 10.3934/mbe.2020067 ]
https://hal.inria.fr/hal-02431660
[4]
P. Arner, S. Bernard, L. Appelsved, K.-Y. Fu, D. Andersson, M. Salehpour, A. Thorell, M. Rydén, K. Spalding.
Adipose lipid turnover and long-term changes in body weight, in: Nature Medicine, September 2019, vol. 25, no 9, pp. 1385-1389. [ DOI : 10.1038/s41591-019-0565-5 ]
https://hal.archives-ouvertes.fr/hal-02317491
[5]
M. A. Benchaib, A. Bouchnita, V. Volpert, A. Makhoute.
Mathematical Modeling Reveals That the Administration of EGF Can Promote the Elimination of Lymph Node Metastases by PD-1/PD-L1 Blockade, in: Frontiers in Bioengineering and Biotechnology, May 2019, vol. 7, pp. 1-18. [ DOI : 10.3389/fbioe.2019.00104 ]
https://hal.archives-ouvertes.fr/hal-02363404
[6]
N. Bessonov, A. Beuter, S. Trofimchuk, V. Volpert.
Cortical waves and post‐stroke brain stimulation, in: Mathematical Methods in the Applied Sciences, June 2019, vol. 42, no 11, pp. 3912-3928. [ DOI : 10.1002/mma.5620 ]
https://hal.archives-ouvertes.fr/hal-02363412
[7]
N. Bessonov, A. Beuter, S. Trofimchuk, V. Volpert.
Estimate of the travelling wave speed for an integro-differential equation, in: Applied Mathematics Letters, February 2019, vol. 88, pp. 103-110. [ DOI : 10.1016/j.aml.2018.07.037 ]
https://hal.archives-ouvertes.fr/hal-01941455
[8]
A. Bonnaffoux, U. Herbach, A. Richard, A. Guillemin, S. Gonin-Giraud, P.-A. Gros, O. Gandrillon.
WASABI: a dynamic iterative framework for gene regulatory network inference, in: BMC Bioinformatics, April 2019, vol. 20, no 1, pp. 1-19. [ DOI : 10.1186/s12859-019-2798-1 ]
https://hal.archives-ouvertes.fr/hal-02159694
[9]
A. Bouchnita, V. Volpert.
A multiscale model of platelet-fibrin thrombus growth in the flow, in: Computers & Fluids, April 2019, vol. 184, pp. 10-20. [ DOI : 10.1016/j.compfluid.2019.03.021 ]
https://hal.archives-ouvertes.fr/hal-02363406
[10]
L. Boullu, M. Adimy, F. Crauste, L. Pujo-Menjouet.
Oscillations and asymptotic convergence for a delay differential equation modeling platelet production, in: Discrete and Continuous Dynamical Systems - Series B, 2019, vol. 24, no 6, pp. 2417-2442. [ DOI : 10.3934/dcdsb.2018259 ]
https://hal.inria.fr/hal-01835435
[11]
L. Boullu, L. Pujo-Menjouet, J. Bélair.
Stability analysis of an equation with two delays and application to the production of platelets, in: Discrete and Continuous Dynamical Systems - Series S, 2019, pp. 1-24, forthcoming. [ DOI : 10.3934/dcdss.2020131 ]
https://hal.inria.fr/hal-02109546
[12]
L. Boullu, L. Pujo-Menjouet, J. Wu.
A model for megakaryopoiesis with state-dependent delay, in: SIAM Journal on Applied Mathematics, July 2019, vol. 79, no 4, pp. 1218–1243. [ DOI : 10.1137/18M1201020 ]
https://hal.inria.fr/hal-02123621
[13]
V. Calvez, T. Lepoutre, N. Meunier, N. Muller.
Non-linear analysis of a model for yeast cell communication, in: ESAIM: Mathematical Modelling and Numerical Analysis, 2019, pp. 1-32, forthcoming. [ DOI : 10.1051/m2an/2019065 ]
https://hal.inria.fr/hal-02372511
[14]
I. S. Ciuperca, M. Dumont, A. Lakmeche, P. Mazzocco, L. Pujo-Menjouet, H. Rezaei, L. Tine.
Alzheimer's disease and prion: An in vitro mathematical model, in: Discrete and Continuous Dynamical Systems - Series B, October 2019, vol. 24, no 10, pp. 5225-5260. [ DOI : 10.3934/dcdsb.2019057 ]
https://hal.archives-ouvertes.fr/hal-02414635
[15]
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: In Silico Biology, May 2019, vol. 13, no 1-2, pp. 55-69. [ DOI : 10.3233/ISB-190471 ]
https://hal.archives-ouvertes.fr/hal-02309925
[16]
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, in: Frontiers in Immunology, 2019, pp. 1-41, https://arxiv.org/abs/1903.01233, forthcoming. [ DOI : 10.3389/fimmu.2019.00230 ]
https://hal.archives-ouvertes.fr/hal-02008705
[17]
D. Grebennikov, A. Bouchnita, V. Volpert, N. Bessonov, A. Meyerhans, G. Bocharov.
Spatial Lymphocyte Dynamics in Lymph Nodes Predicts the Cytotoxic T Cell Frequency Needed for HIV Infection Control, in: Frontiers in Immunology, June 2019, vol. 10, pp. 1-15. [ DOI : 10.3389/fimmu.2019.01213 ]
https://hal.archives-ouvertes.fr/hal-02363399
[18]
A. Guillemin, R. Duchesne, F. Crauste, S. Gonin-Giraud, O. Gandrillon.
Drugs modulating stochastic gene expression affect the erythroid differentiation process, in: PLoS ONE, November 2019, vol. 14, no 11, pp. 1-19. [ DOI : 10.1371/journal.pone.0225166 ]
https://hal.archives-ouvertes.fr/hal-02375801
[19]
U. Herbach.
Stochastic Gene Expression with a Multistate Promoter: Breaking Down Exact Distributions, in: SIAM Journal on Applied Mathematics, June 2019, vol. 79, no 3, pp. 1007-1029. [ DOI : 10.1137/18M1181006 ]
https://hal.archives-ouvertes.fr/hal-02159699
[20]
T. Lepoutre.
Improved duality estimates: time discrete case and applications to a class of cross-diffusion systems, in: Communications in Mathematical Sciences, 2019, vol. 17, no 2, pp. 1-17, https://arxiv.org/abs/1812.01296.
https://hal.inria.fr/hal-01943576
[21]
M. Marion, V. Volpert.
Existence of Pulses for the System of Competition of Species, in: Journal of Dynamics and Differential Equations, September 2019, vol. 31, no 3, pp. 1653-1670. [ DOI : 10.1007/s10884-017-9582-6 ]
https://hal.archives-ouvertes.fr/hal-02363423
[22]
J. E. Mold, P. Réu, A. Olin, S. Bernard, J. Michaelsson, S. Rane, A. Yates, A. Khosravi, M. Salehpour, G. Possnert, P. Brodin, J. Frisén.
Cell generation dynamics underlying naïve T cell homeostasis in adult humans, in: PLoS Biology, October 2019, vol. 17, no 10, e3000383 p. [ DOI : 10.1101/635995 ]
https://hal.archives-ouvertes.fr/hal-02160888
[23]
N. Ratto, M. Marion, V. Volpert.
Existence of pulses for a reaction-diffusion system of blood coagulation in flow, in: Mathematical Biosciences and Engineering, 2019, vol. 16, no 5, pp. 4196-4212, forthcoming. [ DOI : 10.3934/mbe.2019209 ]
https://hal.archives-ouvertes.fr/hal-02084120
[24]
N. Ratto, M. Marion, V. Volpert.
Existence of pulses for a reaction-diffusion system of blood coagulation, in: Topological Methods in Nonlinear Analysis, 2019, forthcoming.
https://hal.archives-ouvertes.fr/hal-02089011
[25]
N. Ratto, M. Marion, V. Volpert.
Existence of Waves for a Bistable Reaction–Diffusion System with Delay, in: Journal of Dynamics and Differential Equations, 2019, vol. 16, no 5, pp. 4196-4212. [ DOI : 10.1007/s10884-019-09751-4 ]
https://hal.archives-ouvertes.fr/hal-02363403
[26]
A. Richard, E. Vallin, C. Romestaing, D. Roussel, O. Gandrillon, S. Gonin-Giraud.
Erythroid differentiation displays a peak of energy consumption concomitant with glycolytic metabolism rearrangements, in: PLoS ONE, September 2019, vol. 14, no 9, e0221472 p. [ DOI : 10.1371/journal.pone.0221472 ]
https://hal-univ-lyon1.archives-ouvertes.fr/hal-02318812
[27]
M. Sen, V. Volpert, V. Vougalter.
Existence of waves for a reaction–diffusion–dispersion system, in: Nonlinear Analysis: Theory, Methods and Applications, March 2019, vol. 180, pp. 52-66. [ DOI : 10.1016/j.na.2018.09.011 ]
https://hal.archives-ouvertes.fr/hal-01941461
[28]
S. Trofimchuk, V. Volpert.
Global continuation of monotone waves for bistable delayed equations with unimodal nonlinearities, in: Nonlinearity, July 2019, vol. 32, no 7, pp. 2593-2632. [ DOI : 10.1088/1361-6544/ab0e23 ]
https://hal.archives-ouvertes.fr/hal-02363393
[29]
M. Yeung, M. Djelloul, E. Steiner, S. Bernard, M. Salehpour, G. Possnert, L. Brundin, J. Frisén.
Dynamics of oligodendrocyte generation in multiple sclerosis, in: Nature, January 2019, no 566, pp. 538–542. [ DOI : 10.1038/s41586-018-0842-3 ]
https://hal.archives-ouvertes.fr/hal-02002274

Conferences without Proceedings

[30]
M. Andrade-Restrepo, P. Lemarre, L. Pujo-Menjouet, L. Tine, S. I. Ciuperca.
Modeling the spatial propagation of Aβ oligomers in alzheimer's disease, in: CEMRACS 2018 - Numerical and mathematical modeling for biological and medical applications: deterministic, probabilistic and statistical descriptions, Marseille, France, 2019, pp. 1 - 10.
https://hal.archives-ouvertes.fr/hal-02414660

Scientific Books (or Scientific Book chapters)

[31]
M. Caléro, I. S. Ciuperca, L. Pujo-Menjouet, L. Matar Tine.
Alzheimer Disease: Convergence Result from a Discrete Model Towardsa Continuous One, in: Trends in Biomathematics: Mathematical Modeling for Health, Harvesting, and Population Dynamics, Springer, 2019, pp. 397-431. [ DOI : 10.1007/978-3-030-23433-1_25 ]
https://hal.archives-ouvertes.fr/hal-02414726
[32]
K. Grzesik, K. Eng, F. Crauste, S. Battaglia.
In Silico Methods for Studying T Cell Biology, in: Int. Rev. Cell. Mol. Biol. 342, Elsevier, 2019, pp. 265-304. [ DOI : 10.1016/bs.ircmb.2018.07.005 ]
https://hal.archives-ouvertes.fr/hal-02237891
[33]
L. Pujo-Menjouet.
Le jeu de l'amour sans le hasard Mathématiques du couple, Des Equateurs, May 2019, pp. 1-248.
https://hal.archives-ouvertes.fr/hal-02414777
[34]
L. Pujo-Menjouet.
Passer notre amour à la machine, in: Futures of Love, August 2019.
https://hal.archives-ouvertes.fr/hal-02414758

Scientific Popularization

[35]
L. Pujo-Menjouet.
Est-ce par hasard s'il a le cœur qui s'égare, in: Pour la science, November 2019.
https://hal.archives-ouvertes.fr/hal-02414752

Other Publications

[36]
C. Rocabert, G. Beslon, C. Knibbe, S. Bernard.
Phenotypic Noise and the Cost of Complexity, November 2019, EvoLyon 2019, Poster.
https://hal.archives-ouvertes.fr/hal-02402443
References in notes
[37]
A. Besse, G. D. Clapp, S. Bernard, F. E. Nicolini, D. Levy, T. Lepoutre.
Stability Analysis of a Model of Interaction Between the Immune System and Cancer Cells in Chronic Myelogenous Leukemia, in: Bulletin of Mathematical Biology, 2017, pp. 1–27. [ DOI : 10.1007/s11538-017-0272-7 ]
https://hal.archives-ouvertes.fr/hal-01539364
[38]
A. Besse, T. Lepoutre, S. Bernard.
Long-term treatment effects in chronic myeloid leukemia, in: Journal of Mathematical Biology, 2017, pp. 1-26. [ DOI : 10.1007/s00285-017-1098-5 ]
https://hal.archives-ouvertes.fr/hal-01447781
[39]
G. D. Clapp, T. Lepoutre, R. El Cheikh, S. Bernard, J. Ruby, H. Labussière-Wallet, F. E. Nicolini, D. Levy.
Implication of the Autologous Immune System in BCR-ABL Transcript Variations in Chronic Myelogenous Leukemia Patients Treated with Imatinib., in: Cancer Research, October 2015, vol. 75, no 19, pp. 4053-62. [ DOI : 10.1158/0008-5472.CAN-15-0611 ]
https://hal.inria.fr/hal-01251396
[40]
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, in: Cell Systems, February 2017, vol. 4, no 3, pp. 306-317. [ DOI : 10.1016/j.cels.2017.01.014 ]
https://hal.inria.fr/hal-01409637
[41]
U. Herbach, A. Bonnaffoux, T. Espinasse, O. Gandrillon.
Inferring gene regulatory networks from single-cell data: a mechanistic approach, in: BMC Systems Biology, November 2017, vol. 11, no 1, 105 p. [ DOI : 10.1186/s12918-017-0487-0 ]
https://hal.archives-ouvertes.fr/hal-01646910