Current and Former students
- Marco Uderzo (PhD Student) 2025-current, co-supervised (50%) with Zayna Chaker (IGFL).
Topics: Leveraging spatial transcriptomics and machine learning to crack the spatial code of adult neural stem cells dynamics in adult neurogenesis
- Andrea Ducos (PhD Student) 2023-current, co-supervised (20%) with Audrey Denizot and Thomas Guyet (AIstroSight).
Topics: Partial differential equation discovery for spatio-temporal simulations in cells
- Schayma Ben Marzougui-El Garrai (PhD Student) 2023-current, co-supervised (50%) with Audrey Denizot (AIstroSight).
Topics: Modelling compartmented second messanger networks in retinal growth cones
- Florian Dupeuble (PhD Student) 2023-current, co-supervised (50%) with Audrey Denizot (AIstroSight)
Topics: Biophysical modeling of the neurovascular unit
- Arnaud Hubert (PhD Student) 2022-current.
Topics: Modelling endocannabinoid-mediated synaptic plasticity and its implication in fast learning
- Hana Sebia (PhD Student) 2022-current, co-supervised (50%) with Thomas Guyet (AIstroSight).
Topics: Optimal transport for comparison of semantic graph representation of care pathways - application to patient phenotyping
- Nathan Quiblier (PhD Student) 2021-2024.
Topics: Approximate Bayesian Computation for multimodal microscopy data: exploring the mobility of transcription factors in the nucleus of living cells.
- Lisa Blum-Moyse (PhD student) 2020-2023.
Topics: Modelling the integration of synaptic activity by astrocytes.
- Audrey Denizot (PhD student) 2016-2019, co-supervised
(50%) with Hédi Soula (CRC, Univ. P&M Curie, Paris).
Topics: Simulation of calcium signaling in fine astrocytic
processes.
- Marie Fernandez (Ph. D. Student) - 2015-2018, co-supervised (33%)
with Hédi Soula (CRC, Univ. P&M Curie, Paris) and Clémentine Vignal
(Univ. J. Monnet, Saint-Etienne)
Topics:Extraction and analysis of the acoustic network of social
birds: tools for population tracking.
- Alexandre Foncelle
(Ph. D. Student) - 2014-2018
Topics:Data-driven computational modelling for some of the
implications of dopamine in the brain: from subcellular signalling to
area networks.
- Alvaro Mateos
Gonzalez (PhD student in Mathematics, ENS Lyon) 2014-2017,
co-supervised (30%) with Vincent Calvez (EPI Numed) and Thomas Lepoutre
(EPI Dracula).
Topics: Asymptotic analysis of partial differential equations
arising in biological processes of anomalous diffusion.
- Maurizio de Pitta
(Postdoctoral researcher) - 2013-2017 - Funded by the EU via an ERCIM
grant and an IOF Marie Curie grant “Neuron-Astro-Nets” (with N. Brunel,
Univ. Chicago).
Topics: Understanding the functional relevance of
neuron-astrocyte interactions in brain function.
- Carlos Vivar-Rios (Erasmus+ master internship) 2017, co-supervised
(50%) with Audrey Denizot.
Topics: Spatial stochastic simulations of calcium waves in
astrocytes.
- Ilya Prokin (Ph. D. Student)
- 2013-2016
Topics: Modeling and simulation of signal transduction in living
cells: synaptic plasticity of basal ganglia neurons.
- Jules Lallouette
(Ph. D. Student) - 2011-2014
Topics: Modelling calcium responses in astrocyte networks:
relations between toplogy and dynamics.
- Magali Vangkeosay
(Software developer) - 2012 -2014
Topics: Development of a
software for automated quantitative analysis of time-lapse microscopy
movies of growing bacterial populations. Funded by INRIA via ADT
“Multi*Pop”.
- Amanda Lo Van
(Master 2 IADE, Lyon, now a PhD Student, Carmen, Lyon, France)- Feb-June
2013 -
Topics: Individual-based modeling of simple genetic circuits.
- Osama Khalil (Master in
Medicine, Univ. of Cairo, Egypt, now Graduate Fellow, Ohio State
University, USA) - Feb-May - 2013. Funded by an EGIDE grant
Topics: Computational systems biology of signal transduction in
living cells: synaptic plasticity of striatum neurons
- Pierre Gabriel
(Postdoctoral researcher, Now Assistant Professor, Univ. Versailles,
France) - 2011- 2012
Funded by the French National Agency for Research (ANR), Project Pagdeg
Topics: Mathematical modeling of protein aggregation and aging in
E coli
- Anne-Sophie Coquel
(Ph. D. Student, now Head of Genomics, Sanofi France) – 2009-2012.
Co-Supervised with A. Lindner (TAMARA's
Lab,INSERM U1001, Necker-Enfants Malades Medical School,Paris,
France).
Topics: Deciphering the molecular mechanisms underlying the role
of protein aggregation in aging of E. coli (ColAge,
Workpackage 1).
- Jean-Marie Gomes
(Master 2 Student, ow PhD student, UNIC, Gif-sur-Yvette, France) - 2010
- 2011
Topics: The bidirectional response of cortico-striatal synapses
to 2-arachidonyl-glycerol
- Zayna Chaker (Master 2
student, Now PhD student, Saint Antoine Hospital, Paris), April-July
2010
Topics: Protein aggregation underlying bacterial aging : Computer
simulations
- Fei Jiang (Ph. D. Student,
now private entrepreneur, Shanghai) – 2006-2009
Co-Supervised with M. Schoenauer (TAO,
INRIA Futurs, Saclay, France).
Alchemy & TAO, INRIA Futurs, Saclay & Orsay Université
Ph.D. defended and completed: December 16, 2009.
Topics: Evolution and optimization of large neural networks.
- Benoit Siri (Ph. D.
Student, Now Software Engineer, AFCEPF, Paris) - 2005-2008
INRIA Futurs, Saclay & University of Paris-Sud, Orsay
Topics: Topology-dynamics-learning interactions in complex
bioinspired neuron networks.
Ph.D. defended and completed: December 18th, 2008.
Siri, B. (2008), Interactions
dynamique-topologie-apprentissage dans les réseaux de neurones
complexes bioinspirés, Ph. D. Thesis, University of Paris-Sud, Orsay,
France. (in french) (pdf
4.7 MByte).
- Edouard
Garnier
de Labareyre (Ecole polytechnique, Internship, Alchemy, INRIA
Saclay, Now Systems Engineer, Safran, Paris) - April-July 2008
Co-supervised with O. Temam
Topics: Emergence of computation and abstraction functions on
biological neural networks.
- Delphine Pellenc (Ph.
D. Student; now Lecturer in Physics, Reading, UK) - 2002-2005
Co-Supervised with O. Gallet.
ERRMECe, Université de Cergy-Pontoise, France
Topics: Extracellular matrix protein network formation in bone
mineralization.
Ph.D. defended and completed: October 21st, 2005.
Pellenc, D. (2005),
Auto-assemblage de la fibronectine induit par l'adsorption:
caractérisation expérimentale sur l'hydroxyapatite et étude par
simulation numérique, Ph. D. Thesis, University of Cergy-Pontoise,
Cergy-Pontoise, France. (in french) (pdf
6.3 MByte).
- Geoffrey
Caron-Lormier, Master Student (now Researcher at Rothamsted
Research, Harpen- den, UK) - September 2001-July 2002
ERRMECe, Université de Cergy-Pontoise, France
Topics: Biomathematics of the early steps of integrin signaling
pathway: FAK and Src auto- and co-activation.
