Theoretical neuroscience and biophysics

Publications

Theoretical neuroscience and biophysics

1 Inverse blebs operate as hydraulic pumps during mouse blastocyst formation
Markus F Schliffka, Julien G Dumortier, Diane Pelzer, Arghyadip Mukherjee, Jean-Léon Maître
Nature Cell Biology

2 Self-organized tissue mechanics underlie embryonic regulation
Paolo Caldarelli, Alexander Chamolly, Aurélien Villedieu, Olinda Alegria-Prévot, Carole Phan, Jerome Gros, Francis Corson
Nature

3 [∼Re] Exploration in Model-based Reinforcement Learning by Empirically Estimating Learning Progress
Augustin Chartouny, Jean-Pierre Nadal, Mehdi Khamassi
The ReScience journal

4 A two-dimensional vertex model for curvy cell-cell interfaces at the subcellular scale
Kyungeun Kim, J M Schwarz, Martine Ben Amar
Journal of the Royal Society Interface

5 Giant organelle vesicles to uncover intracellular membrane mechanics and plasticity
Alexandre Santinho, Maxime Carpentier, Julio Lopes Sampaio, Mohyeddine Omrane, Abdou Rachid Thiam
Nature Communications

6 Perilipin membrane integration determines lipid droplet heterogeneity in differentiating adipocytes
Mario Majchrzak, Ozren Stojanović, Dalila Ajjaji, Kalthoum Ben M’barek, Mohyeddine Omrane, Abdou Rachid Thiam, Robin Klemm
Cell Reports

7 Reconstitution of ORP-mediated lipid exchange coupled to PI4P metabolism
Nicolas Fuggetta, Nicola Rigolli, Maud Magdeleine, Amazigh Hamaï, Agnese Seminara, Guillaume Drin
Proceedings of the National Academy of Sciences of the United States of America

8 Resource-rational account of sequential effects in human prediction
Arthur Prat-Carrabin, Florent Meyniel, Rava Azeredo da Silveira
eLife

9 Two-fluid dynamics and micron-thin boundary layers shape cytoplasmic flows in early Drosophila embryos
Claudio Hernández-López, Alberto Puliafito, Yitong Xu, Ziqi Lu, Stefano Di Talia, Massimo Vergassola
Proceedings of the National Academy of Sciences of the United States of America

10 LC3 conjugation to lipid droplets
Mohyeddine Omrane, Thomas Melia, Abdou Rachid Thiam
Autophagy

11 Curvature in Biological Systems: Its Quantification, Emergence, and Implications across the Scales
Barbara Schamberger, Ricardo Ziege, Karine Anselme, Martine Ben Amar, Michał Bykowski, André P G Castro, Amaia Cipitria, Rhoslyn A Coles, Rumiana Dimova, Michaela Eder, Sebastian Ehrig, Luis M Escudero, Myfanwy E Evans, Paulo R Fernandes, Peter Fratzl, Liesbet Geris, Notburga Gierlinger, Edouard Hannezo, Aleš Iglič, Jacob J K Kirkensgaard, Philip Kollmannsberger, Łucja Kowalewska, Ioannis Papantoniou, Laurent Pieuchot, Tiago H V Pires, Lars D Renner, Andrew O Sageman‐furnas, Gerd E Schröder‐turk, Anupam Sengupta, Vikas R Sharma, Antonio Tagua, Caterina Tomba, Xavier Trepat, Sarah L Waters, Edwina F Yeo, Andreas Roschger, Cécile M Bidan, John W C Dunlop
Advanced Materials

12 Metamorphoses of the flow past an obstacle of a resonantly driven bistable polariton fluid
Vincent Hakim, Simon Pigeon, Amandine Aftalion
Physical Review B

13 Beta oscillations and waves in motor cortex can be accounted for by the interplay of spatially structured connectivity and fluctuating inputs
Ling Kang, Jonas Ranft, Vincent Hakim
eLife

14 Sticky issues in turbulent transport
Antonio Celani, Gautam Reddy, Massimo Vergassola
Annales Henri Poincaré

15 HaloTag-based reporters for sparse labeling and cell tracking
Lydie Couturier, Juan Luna, Khalil Mazouni, Claire Mestdagh, Minh-Son Phan, Francis Corson, Francois Schweisguth
Fly

16 Manipulating the nature of embryonic mitotic waves
Luke Hayden, Woonyung Hur, Massimo Vergassola, Stefano Di Talia
Current Biology - CB

17 Alternation emerges as a multi-modal strategy for turbulent odor navigation
Nicola Rigolli, Gautam Reddy, Agnese Seminara, Massimo Vergassola
eLife

18 Waves in embryonic development
Stefano Di Talia, Massimo Vergassola
Annual review of biophysics and bioengineering

19 Cullin-5 mutants reveal collective sensing of the nucleocytoplasmic ratio in Drosophila embryogenesis
Luke Hayden, Anna Chao, Victoria E Deneke, Massimo Vergassola, Alberto Puliafito, Stefano Di Talia
Current Biology - CB

20 ICU Bed Availability Monitoring and analysis in the Grand Est region of France during the COVID-19 epidemic
Consortium Icubam, Laurent Bonnasse-Gahot, Maxime Dénès, Gabriel Dulac-Arnold, Sertan Girgin, François Husson, Valentin Iovene, Julie Josse, Antoine Kimmoun, François Landes, Jean-Pierre Nadal, Romain Primet, Frederico Quintao, Pierre Guillaume Raverdy, Vincent Rouvreau, Olivier Teboul, Roman Yurchak
Statistique et Société

21 Categorical Perception: A Groundwork for Deep Learning
Laurent Bonnasse-Gahot, Jean-Pierre Nadal
Neural Computation

22 Affinity maturation for an optimal balance between long-term immune coverage and short-term resource constraints
Victor Chardès, Massimo Vergassola, Aleksandra Walczak, Thierry Mora
Proceedings of the National Academy of Sciences of the United States of America

23 Confidence-controlled Hebbian learning efficiently extracts category membership from stimuli encoded in view of a categorization task
Kevin Berlemont, Jean-Pierre Nadal
Neural Computation

24 Fluid mechanics of free subduction on a sphere. Part 1. The axisymmetric case
Alexander Chamolly, Neil M. Ribe
Journal of Fluid Mechanics

25 Modeling the mechanics of growing epithelia with a bilayer plate theory
Joseph Ackermann, Paul-Qiuyang Qu, Loïc Le Goff, Martine Ben Amar
The European Physical Journal Plus

26 Machine learning and computational modeling approaches towards detection of pathological activity markers in the cortex
Ivan Lazarevich
-THESE-

27 Geometry of Gene Regulatory Dynamics
David A Rand, Archishman Raju, Meritxell Sáez, Francis Corson, Eric D Siggia
Proceedings of the National Academy of Sciences of the United States of America

28 Origin of gradients in lipid density and surface tension between connected lipid droplet and bilayer
Abdou Rachid Thiam, Aymeric Chorlay, Lionel Forêt
Biophysical Journal

29 Human Inference in Changing Environments with Temporal Structure
Arthur Prat-Carrabin, Robert Wilson, Jonathan Cohen, Rava Azeredo da Silveira
Psychological Review

30 Biases and Variability from Costly Bayesian Inference
Arthur Prat-Carrabin, Florent Meyniel, Misha Tsodyks, Rava Azeredo da Silveira
Entropy

31 Reciprocal stabilization of glycine receptors and gephyrin scaffold proteins at inhibitory synapses
Thomas Chapdelaine, Vincent Hakim, Antoine Triller, Jonas Ranft, Christian G Specht
Biophysical Journal

32 Fat inclusions strongly alter membrane mechanics
Alexandre Santinho, Aymeric Chorlay, Lionel Foret, Abdou Rachid Thiam
Biophysical Journal

33 From growing bubbles and dendrites to biological forms
Vincent Hakim
Comptes Rendus. Mécanique

34 Synchronization, stochasticity and phase waves in neuronal networks with spatially-structured connectivity
Anirudh Kulkarni, Jonas Ranft, Vincent Hakim
Frontiers in Computational Neuroscience

35 Tissue-wide coordination of epithelium-to-neural stem cell transition in the Drosophila optic lobe requires Neuralized
Chloé Shard, Juan Luna-Escalante, François Schweisguth
Journal of Cell Biology

36 From neural coding to decision-making
Kevin Berlemont
-THESE-

37 Detection of Topological Materials with Machine Learning
Nikolas Claussen, B. Andrei Bernevig, Nicolas Regnault
Physical Review B

38 Cholinergic switch between two types of slow waves in cerebral cortex
Trang-Anh E. Nghiem, Núria Tort-Colet, Tomasz Gorski, Ulisse Ferrari, Shayan Moghimyfiroozabad, Jennifer S. Goldman, Bartosz Telenczuk, Cristiano Capone, Thierry Bal, Matteo Di Volo, Alain Destexhe
Cerebral Cortex

39 Nonlinear neural network dynamics accounts for human confidence in a sequence of perceptual decisions
Kevin Berlemont, Jean-Remy Martin, Jérôme Sackur, Jean-Pierre Nadal
Scientific Reports

40 Scaling laws and snap-through events in indentation of perforated membranes
Fei Jia, Martine Ben Amar
Journal of the Mechanics and Physics of Solids

41 A tensile ring drives tissue flows to shape the gastrulating amniote embryo
Mehdi Saadaoui, Didier Rocancourt, Julian Roussel, Francis Corson, Jerome Gros
Science

42 Tribute to an exemplary man: Yves Couder
Martine Ben Amar, Laurent Limat, Olivier Pouliquen, Emmanuel Villermaux
Comptes Rendus. Mécanique

43 Tip growth in morpho-elasticity
Martine Ben Amar, Julien Dervaux
Comptes Rendus. Mécanique

44 The geometry of information coding in correlated neural populations
Rava Azeredo da Silveira, Fred Rieke
Annual Review of Neuroscience

45 Lifetime of a structure evolving by cluster aggregation and particle loss, and application to postsynaptic scaffold domains
Vincent Hakim, Jonas Ranft
Physical Review E

46 Modeling morphogenesis on epithelial tissues : from forces to geometry and back
Diego Contreras
-THESE-

47 Bridging single neuron dynamics to global brain states
Jennifer S Goldman, Núria Tort-Colet, Matteo Di Volo, Eduarda Susin, Jules Bouté, Mélissa Dali, Mallory Carlu, Trang-Anh Nghiem, Tomasz Gorski, Alain Destexhe
Frontiers in Systems Neuroscience

48 Regulation of Notch output dynamics via specific E(spl)-HLH factors during bristle patterning in Drosophila
Lydie Couturier, Khalil Mazouni, Francis Corson, François Schweisguth
Nature Communications

49 Chemotaxis as a navigation strategy to boost range expansion
Jonas Cremer, Tomoya Honda, Ying Tang, Jerome Wong-Ng, Massimo Vergassola, Terence Hwa
Nature

50 Progressive recruitment of distal MEC-4 channels determines touch response strength in C. elegans
Samata Katta, Alessandro Sanzeni, Alakananda Das, Massimo Vergassola, Miriam Goodman
Journal of General Physiology

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63

Publications

6

Years

9

9

Biophysique