Research
General overview and Research Groups
The Turing Centre aims to stimulate a highly interdisciplinary community, especially physicists, mathematicians and computer scientists who, together with biologists, provide the means to base experimental studies on solid quantitative grounds, to identify new questions and conceptualize new ways of understanding the complexity of living systems.
Life is based on dynamic systems whose organizational principles remain unclear due to their complexity. Such complexity has different origins. Living systems are the product of a long evolutionary history and are intrinsically dynamic as they develop, renew their components, adapt to their physiological environments and are trained. This is illustrated for instance in the development of embryos and organs, and in the function of the immune and nervous systems.
Understanding biological complexity is one of the most significant challenges for the future. It will impact both basic research and medicine, since diseases emerge from anomalies in the organization and dynamics of living systems.
The Turing Centre addresses the nature of the information underlying biological processes, and the organization and dynamics of biological structures. Five over-arching questions bringing together biologists interested in development, neuroscience and immunology along with physicists, computational biologists and mathematicians will underlie the research effort:
How does genetic information impact on cell fates?
How do signalling dynamics impact on cell differentiation?
How is information encoded in collective cellular dynamics?
How do networks of cell interactions form and function collectively?
How does mechanics impact on cell and tissue organization and dynamics?
CENTURI recruits researchers and post docs with backgrounds in computational biology, theoretical physics or biophysics, with a strong interest in working in a cross-disciplinary environment.
CENTURI fellows
Principal Investigators
Mathematical modelling of the ecology & evolution of host-associated microbiota
Self-organization and collective effects in living systems
Neural networks for the representation of 3D environments
Modeling and Measuring Soft Living Matter
Dynamic bioimage mining for live cell microscopy
Florence Bansept (LCB) - Mathematical modelling of the ecology & evolution of host-associated microbiota
Léo Guignard (LIS) - Understanding developmental reproducibility at the single cell scale
Matthias Merkel (CPT) - Self-organization and collective effects in living systems
Hervé Rouault (CPT - INMED) - Neural networks for the representation of 3D environments
Pierre Ronceray (CPT) -Theoretical modeling and inference methods for the physics of soft biological matter
Philippe Roudot (I2M) - Dynamic point cloud modeling for automated mining of molecular processes in 3D live cell microscopy
Jean-François Rupprecht (CPT) - Out-of-equilibrium Mechanics (OM)
Paul Villoutreix (LIS) - Marseille Machine Learning Team
Postdoctoral fellow
Mehdi Abbasi (CINaM, M2P2) -Understanding margination, from vessels to vascular networks
Nagham Badreddine (Institut Fresnel - IBDM) - Neural representation of social information in hippocampal ventral CA1
Dalia El Arawi (INSERM, IBDM) - The mechanical basis of biological size control and growth termination
Maximilien Courgeon (IBDM, CPT) - Self-organising principles of Class IV neuron dendritic arborization in Drosophila
Paulina Garcia Gonzalez (IBDM) - EPIC-Mitochondria
Nicolas Levernier (CPT, INMED) - Attractor neural networks and the resolution of a brain’s self-positioning system
Jack Llewyn (IBDM, CINaM) - Uncover the Interplay Between Signalling Dynamics and Cell Mechanics During Early Fate Acquisition in Human Induced Pluripotent Stem Cells
Gesa Loof (LIS) - Early drivers of symmetry breaking in pre-implantation mouse embryo cell fate specification
Marie Poulain Zarcos (LMA) - Structural organization of red blood cell suspensions under flows in health and
sickle cell disease
Annafrancesca Rigato (Institut Fresnel) - The impact of cytoskeleton mechanics on epidermal morphogenesis
Solène Song (LAI, CIML, LIS) - Deciphering chemical signals guiding T cells towards and in lymph node
Francesca Zaccagnino (IBDM, I2M) - Contextualisation of signalling fluctuations
Yuriu Zhang (CINAM) - Applications and development of stochastic inference methods
Ying Zhou (Inserm, TAGC) - Quantitive micromethods for rapid characterization of immune cells activity in infection and cancerous context
Understanding margination, from vessels to vascular networks
Nagham Badreddine (Institut Fresnel - IBDM)
Neural representation of social information in hippocampal ventral CA1
Biochemical and mechanical guidance of migration in single cells and multi-cellular system
Maximilien Courgeon (IBDM, CPT)
Self-organising principles of Class IV neuron dendritic arborization in Drosophila
Paulina Garcia Gonzalez (IBDM)
EPIC-Mitochondria
Nicolas Levernier (CPT, INMED)
Attractor neural networks and the resolution of a brain’s self-positioning system
Uncover the Interplay Between Signalling Dynamics and Cell Mechanics
Early drivers of symmetry breaking in pre-implantation mouse embryo cell fate specification
Structural organization of red blood cell suspensions under flows in health and
sickle cell disease
Annafrancesca Rigato (Institut Fresnel)
The impact of cytoskeleton mechanics on epidermal morphogenesis
Deciphering chemical signals guiding T cells towards and in lymph node
Quantitive micromethods for rapid characterization of immune cells activity in infection and cancerous context
PhD students
Lama Awada (CIML, LAI) - Imprint of mechanical forces on antibody affinity maturation in B cell immune responses
Julie Bavais (CIML, TAGC) - Computational modelling of Innate Lymphoid Cell differentiation during embryogenesis
Alexandre Bonomo - Multi-view machine learning analysis of intestinal immune response
Nadine Ben Boina (I2M, MMG) - Mathematical Modelling of rare diseases
Isabella Bicalho Frazeto - Quantification and modeling of embryonic lymph node organogenesis at the single cell scale
Elèna Brunet (IBDM, LMA) - Unravelling the mechanisms underlying ultrasound stimulation of dorsal root and spiral ganglion neurons
Khulganaa Buyannemekh (IBDM, LIS) - An interdisciplinary approach to the study of lateralization in the nervous system.
Jessica Chevallier (CIML, TAGC, LAI) - Spatial mapping of gene expression to decipher the thymic cellular
Arthur Coët - Deciphering bacterial colonization of marine snow
Lucas Curci (I2M, LAI) - Mathematical modelling of cell migration in confined domains
Marie Dessard - How cholesterol and phospholipids fine tune T cell early mechanosensitivity?
Jaime Fernandez MacGregor (TAGC) - Modeling human network perturbations by bacterial proteins
Andonis Gerardos (CINaM) - How to learn a stochastic partial differential equation from a video?
Niels Gouirand (IBDM, CPT) - Deciphering the interplay between cell polarity and inter-cellular forces in epithelial 3D organization
Alice Gros (IBDM, LIS) - Morphogenesis variability in embryonic organoids.
Clara Guijarro (IBDM, LIS) - Quantitative characterization of a cardiac progenitor cell epithelium
Andrei Karpov - Physical and structural characterization of the interplay between the cell membranes, actin filaments and Chikungunya protein nsP1
Adrien Julia (LIS, INMED) - Shape recognition and 3D visualization of neural circuitries from brain tissue clearing
Marc Karnat (CPT)- Deep-Learning Epithelial Tissue Mechanics (DELET’ME) project
Emma Legait - Deciphering the self-organizing principles governing the cellular composition and growth of tumors
Marvin Leria (IBDM) - PCP plasticity in the basal metazoan Trichoplax adhaerens
Ismahene Mesbah (LAI, IBDM) - Decoding protein structural folds, sequence and structural motifs
Thomas Morvan (INMED, IRPHE) - Studying algorithm(s) for decision making and confidence in an ethological framework
Marc-Eric Perrin (IBDM, CPT) - Models of neuronal growth during embryogenesis as self-interacting dynamical trees
Devam Purohit (CINaM, I2M) - The muscle spring: quantifying and manipulating the molecular elasticity of muscle in vitro and in vivo
Alexandre Ortega - Development of acoustic techniques to study the biophysical properties of cell clusters
Varun Puthumana (CIML, M2P2) - Modeling T cell plasma membrane phase separation
Mirindra Ratsifandrihamanana (INMED, CPT) - Circuits supporting dynamics transitions in the developing hippocampus
Malek Senoussi (LIS) - A mathematical framework for morpho-transcriptomics eparation
Rémy Torro (CINaM, LAI) - Mapping and classifying the topography of adhesive cell interface with high precision
Paul Uteza (CPT, INMED) - Neural networks for the representation of 3D environments
Jules Vanaret (I2M, IBDM) - OrganoDyn - Organoid dynamic reconstruction across scales
Imprint of mechanical forces on antibody affinity maturation in B cell immune responses
Computational modelling of Innate Lymphoid Cell differentiation during embryogenesis
Multi-view machine learning analysis of intestinal immune response
Mathematical Modelling of rare diseases
Quantification and modeling of embryonic lymph node organogenesis at the single cell scale
Unravelling the mechanisms underlying ultrasound stimulation of dorsal root and spiral ganglion neurons
Khulganaa Buyannemekh (IBDM, LIS)
An interdisciplinary approach to the study of lateralization in the nervous system.
Jessica Chevallier (CIML, TAGC, LAI)
Spatial mapping of gene expression to decipher the thymic cellular
Deciphering bacterial colonization of marine snow
Mathematical modelling of cell migration in confined domains
How cholesterol and phospholipids fine tune T cell early mechanosensitivity?
Jaime Fernandez MacGregor (TAGC, AFMB)
Modeling human network perturbations by bacterial proteins
How to learn a stochastic partial differential equation from a video?
Morphogenesis variability in embryonic organoids.
Quantitative characterization of a cardiac progenitor cell epithelium
Physical and structural characterization of the interplay between the cell membranes, actin filaments and Chikungunya protein nsP1
Shape recognition and 3D visualization of neural circuitries from brain tissue clearing
Deep-Learning Epithelial Tissue Mechanics (DELET’ME) project
Deciphering the self-organizing principles governing the cellular composition and growth of tumors
PCP plasticity in the basal metazoan Trichoplax adhaerens
Decoding protein structural folds, sequence and structural motifs
Models of neuronal growth during embryogenesis as self-interacting dynamical trees
The muscle spring: quantifying and manipulating the molecular elasticity of muscle in vitro and in vivo
Development of acoustic techniques to study the biophysical properties of cell clusters
Modeling T cell plasma membrane phase separation
Mirindra Ratsifandri-hamanana (INMED, CPT)
Circuits supporting dynamics transitions in the developing hippocampus
A mathematical framework for morpho-transcriptomics
Mapping and classifying the topography of adhesive cell interface with high precision
OrganoDyn - Organoid dynamic reconstruction across scales
Engineers
Thomas Boudier - BioImage Informatics
Pierre Bohec - Microfluidics
Mathias Lechelon - Mechatronics
Stefania Sarno - Data Neuroscientist
Asemare Taddese - Optics & Biophotonics
Thomas Vannier - Bioinformatics Data Analyst
Thang Duong Quoc Le - Image Data Processing & Analysis
Microfluidics
Mechatronics
Alumni
Since 2017, talented and innovative scientists have helped us shape CENTURI and collaborate on federating a diverse community and to assure its commitment to an interdiciplinary approach of Science and Research.
Photography by ©Criscuolo
Publications
2023
- Deforming polar active matter in a scalar field gradient. Muhamet Ibrahimi1 and Matthias Merkel1, New Journal of Physics, 13 January 2023, DOI 10.1088/1367-2630/acb2e5
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Meisosomes, folded membrane platforms, link the epidermis to the cuticle in C. elegans.
- Epithelial disruption drives mesendoderm differentiation in human pluripotent stem cells by enabling TGF-β protein sensing. Legier, T., Rattier, D., Llewellyn, J. Vannier, T., Sorre, B., Maina, F., & Dono, R., Nat Commun 14, 349 (2023). https://doi.org/10.1038/s41467-023-35965-8
2022
- Stoichiometry controls the dynamics of liquid condensates of associative proteins. Pierre Ronceray, Yaojun Zhang, Xichong Liu and Ned S. Wingreen, Phys. Rev. Lett. 128, 038102 (2022). arXiv:2101.0116
- Contrasting Roles of DOP as a Source of Phosphorus and Energy for Marine Diazotrophs, Filella Alba, Riemann Lasse, Van Wambeke France, Pulido-Villena Elvira, Vogts Angela, Bonnet Sophie, Grosso Olivier, Diaz Julia M., Duhamel Solange, Benavides Mar, Frontiers in Marine Science, Vol. 9 (2022), https://www.frontiersin.org/articles/10.3389/fmars.2022.923765, DOI: 10.3389/fmars.2022.923765, ISSN: 2296-7745
- Sinking Trichodesmium fixes nitrogen in the dark ocean. Benavides, M., Bonnet, S., Le Moigne, F.A.C. et al. ISME J 16, 2398–2405 (2022). https://doi.org/10.1038/s41396-022-01289-6
- Diazotrophs are overlooked contributors to carbon and nitrogen export to the deep ocean. Bonnet, S., Benavides, M., Le Moigne, F.A.C. et al. ISME J 17, 47–58 (2023). https://doi.org/10.1038/s41396-022-01319-3
- Planktonic Aggregates as Hotspots for Heterotrophic Diazotrophy: The Plot Thickens. Riemann Lasse, Rahav Eyal, Passow Uta, Grossart Hans-Peter, de Beer Dirk, Klawonn Isabell, Eichner Meri, Benavides Mar, Bar-Zeev Edo, Frontiers in Microbiology, Vol. 13 (2022), https://www.frontiersin.org/articles/10.3389/fmicb.2022.875050, DOI: 10.3389/fmicb.2022.875050, ISSN=1664-302X
- Lrrcc1 and Ccdc61 are conserved effectors of multiciliated cell function. Nommick, A., Boutin, C., Rosnet, O., Schirmer, C., Bazellieres, E., Thome, V., Loiseau, E., Viallat, A. and Kodjabachian, L. 2022. J. Cell Sci. 135(4):jcs258960.
- elegans: out on an evolutionary limb. (revue). Pujol N, Ewbank JJ.Immunogenetics. 2022 Feb;74(1):63-73. doi: 10.1007/s00251-021-01231-8. PMID: 34761293
2021
- Nucleation landscape of biomolecular condensates. Shimobayashi, S.F., Ronceray, P., Sanders, D.W. et al. Nature (2021). DOI: 10.1038/s41586-021-03905-5
- Self-organization and shape change by active polarization in nematic droplets, Fabian Jan Schwarzendahl, Pierre Ronceray, Kimberly L. Weirich, and Kinjal Dasbiswas, Phys. Rev. Research 3, 043061 (2021). arXiv:2102.07442
- Physical bioenergetics: Energy fluxes, budgets, and constraints in cells, X Yang, M Heinemann, J Howard, G Huber, S Iyer-Biswas, G Le Treut, M Lynch, KL Montooth, DJ Needleman, S Pigolotti, J Rodenfels, P Ronceray, S Shankar, I Tavassoly, S Thutupalli, DV Titov, J Wang, PJ Foster,
- Misic, a general deep learning-based method for the high-throughput cell segmentation of complex bacterial communities. Swapnesh Panigrahi, Dorothée Murat, Antoine Le Gall, Eugénie Martineau, Kelly Goldlust, Jean-Bernard Fiche, Sara Rombouts, Marcelo Nöllmann, Leon Espinosa, Tâm Mignot. eLife. 2021 Sept. 9;10:e65151. DOI: 10.7554/eLife.65151.
- NF-κB-dependent IRF1 activation programs cDC1 dendritic cells to drive antitumor immunity. Ghislat G, Cheema AS, Baudoin E, Verthuy C, Ballester PJ, Crozat K, Attaf N, Dong C, Milpied P, Malissen B, Auphan-Anezin N, Manh TPV, Dalod M, Lawrence T. Sci Immunol. 2021 Jul 9;6(61):eabg3570. doi: 10.1126/sciimmunol.abg3570. PMID: 34244313
- Evolution of mechanisms controlling epithelial morphogenesis across animals: new insights from dissociation-reaggregation experiments in the sponge Oscarella lobularis. Vernale A, Prünster MM, Marchianò F, Debost H, Brouilly N, Rocher C, Massey-Harroche D, Renard E, Le Bivic A, Habermann BH, Borchiellini C BMC Ecol Evo 21, 160 (2021). doi: 10.1186/s12862-021-01866-x. PMID: 34418961.
- Complete Genome Assembly of Myxococcus xanthus Strain DZ2 Using Long High-Fidelity (HiFi) Reads Generated with PacBio Technology. Jain R, Habermann BH, Mignot T. Microbiol Resour Announc. 2021 Jul 15;10(28):e0053021. doi: 10.1128/MRA.00530-21. Epub 2021 Jul 15. PMID: 34264106; PMCID: PMC8281077.
- . STEM CELLS Transl Med. 2021; 10: 725– 742. https://doi.org/10.1002/sctm.20-0177
- MetamORF: a repository of unique short open reading frames identified by both experimental and computational approaches for gene and metagene analyses, Database. Sebastien A Choteau, Audrey Wagner, Philippe Pierre, Lionel Spinelli, Christine Brun. Volume 2021, 2021, baab032, https://doi.org/10.1093/database/baab032
- Formation of polarized contractile interfaces by self-organized Toll-8/Cirl GPCR asymmetry. Lavalou J, Mao Q, Harmansa S, Kerridge S, Lellouch AC, Philippe JM, Audebert S, Camoin L, Lecuit T. Dev Cell. 2021 Apr 27:S1534-5807(21)00270-7. doi: 10.1016/j.devcel.2021.03.030. Online ahead of print. PMID: 33932333
- Distinct actin-dependent nanoscale assemblies underlie the dynamic and hierarchical organization of E-cadherin. Chandran R, Kale G, Philippe JM, Lecuit T, Mayor S. Curr Biol. 2021 Apr 26;31(8):1726-1736.e4. doi: 10.1016/j.cub.2021.01.059. Epub 2021 Feb 18. PMID: 33607036
- Programmed and self-organized flow of information during morphogenesis. Collinet C, Lecuit T. Nat Rev Mol Cell Biol. 2021 Apr;22(4):245-265. doi: 10.1038/s41580-020-00318-6. Epub 2021 Jan 22. PMID: 33483696 Review.
2020
- Neuronal specification in elegans: combining lineage inheritance with intercellular signaling. Barrière A. and Bertrand V. (2020). J. Neurogenetics 34, 273-81. DOI : 10.1080/01677063.2020.1781850.
- Wnt ligands regulate the asymmetric divisions of neuronal progenitors in elegans embryos. Kaur S., Mélénec P., Murgan S., Bordet G., Recouvreux P., Lenne P.F. and Bertrand V. (2020). Development 147, dev183186.
- Long-read only assembly of Drechmeria coniospora genomes reveals widespread chromosome plasticity and illustrates the limitations of current nanopore methods. Courtine D, Provaznik J, Reboul J, Blanc G, Benes V, Ewbank JJ.. Gigascience. 2020 Sep 18;9(9):giaa099. doi: 10.1093/gigascience/giaa099.
- Non-Canonical Caspase Activity Antagonizes p38 MAPK Stress-Priming Function to Support Development. Weaver BP, Weaver YM, Omi S, Yuan W, Ewbank JJ, Han MDev Cell. 2020 May 4;53(3):358-369.e6. doi: 10.1016/j.devcel.2020.03.015. Epub 2020 Apr 16. PMID: 32302544.
- Fabrication of sharp silicon arrays to wound Caenorhabditis elegans. Belougne J, Ozerov I, Caillard C, Bedu F, Ewbank JJ. Sci Rep. 2020 Feb 27;10(1):3581. doi: 10.1038/s41598-020-60333-7. PMID: 32108170.
- Microtubule plus-end dynamics link wound repair to the innate immune response. Taffoni C, Omi S, Huber C, Mailfert S, Fallet M, Rupprecht JF, Ewbank JJ, Pujol N. Elife. 2020 Jan29;9:e45047. doi: 10.7554/eLife.45047. PMID: 31995031.
- New Strains for Tissue-Specific RNAi Studies in Caenorhabditis elegans. Watts JS, Harrison HF, Omi S, Guenthers Q, Dalelio J, Pujol N, Watts JL. G3 (Bethesda). 2020 Nov 5;10(11):4167-4176. doi: 10.1534/g3.120.401749. PMID: 32943454.
- IL-17: good fear no tears. Rua R, Pujol N. Nat Immunol. 2020 Nov;21(11):1315-1316. doi: 10.1038/s41590-020-0792-4. PMID: 32958929.
- Diversity from Similarity: Cellular Strategies for Assigning Particular Identities to Actin Filaments and Networks. Boiero Sanders M., Antkowiak A., Michelot A*. Open Biol. 2020 Sep;10(9):200157. doi: 10.1098/rsob.200157.
- Force Production by a Bundle of Growing Actin Filaments is Limited by its Mechanical Properties. Martiel J.L., Michelot Alphée, Boujemaa-Paterski R., Blanchoin L., Berro J.. Biophys J. 2020 Jan 7;118(1):182-192. doi: 10.1016/j.bpj.2019.10.039.
- Assembly of a persistent apical actin network by the formin Frl/Fmnl tunes epithelial cell deformability. Dehapiot, B., Clément, R., Alégot, H. et al. Nat Cell Biol (2020). https://doi.org/10.1038/s41556-020-0524-x.
- Coopted temporal patterning governs cellular hierarchy, heterogeneity and metabolism in Drosophila neuroblast tumors. Genovese S, Clément R, Gaultier C, Besse F, Narbonne-Reveau K, Daian F, Foppolo S, Luis NM, Maurange Elife. 2019 Sep 30;8:e50375. doi: 10.7554/eLife.50375. PMID: 31566561.
- Towards a general framework for spatio-temporal transcriptomics – LMRL Workshop, Neurips 2020 - J. Pinol, T. Artières, P. Villoutreix. Youtube link.
- Human neutrophils swim and phagocytise bacteria. Garcia-Seyda N, Seveau V, Manca F, Biarnes-Pelicot M, Valignat M-P, Bajénoff M and Theodoly O*. Biology of the Cell, doi: 10.1111/boc.202000084.
- Amoeboid Swimming Is Propelled by Molecular Paddling in Lymphocytes. Aoun L; Farutin, A; Garcia-Seyda, N; Negre, P; Rizvi, MS; Tlili, S (Tlili, Sham)[ 1,4 ] ; Song, S (Song, Solene)[ 1 ] ; Luo, X; Biarnes-Pelicot, M; Galland, R; Sibarita, JB ; Michelot; Hivroz, C; Rafai, S; Valignat, MP ; Misbah*, C; Theodoly, O*, Biophysical Journal, 119, 6,1157-1177, doi: 10.1016/j.bpj.2020.07.033.
- Lymphocytes perform reverse adhesive haptotaxis mediated by LFA-1 integrins. Luo, X ; de Noray, VS ; Aoun, L; Biarnes-Pelicot, M ; Strale, PO; Studer, V; Valignat, MP; Theodoly, O*. Journal of Cell Science, 133, 16, Article Number: jcs242883, DOI: 10.1242/jcs.242883, 2020.
- Three-dimensional imaging with reflection synthetic confocal microscopy. Rasedujjaman, M ; Affannoukou, K; Garcia-Seyda, N; Robert, P; Giovannini, H ; Chaumet, PC; Theodoly O; Valignat, MP; Belkebir,; Sentenac, A; Guillaume Maire . Optics Letters 2020, 45, 13, 3721-3724. doi: 10.1364/OL.397364.
- Microfluidic device to study flow-free chemotaxis of swimming cells. Garcia-Seyda N, Aoun L, Tishkova V, Seveau V, Biarnes-Pelicot M, Bajenoff M, Valignat MP, Olivier Theodoly* Chip. 2020;20(9):1639–1647, (2020). doi: 10.1039/d0lc00045k.
- A Bistable Mechanism Mediated by Integrins Controls Mechanotaxis of Leukocytes. A. Hornung, T. Sbarrato, N. Garcia-Seyda, L. Aoun, X. Luo, M. Biarnes-Pelicot, Theodoly*, MP. Valignat*. Biophys. J. 2020;118(3):565–577, (2020). DOI: 10.1016/j.bpj.2019.12.013.
- Deterministic and Stochastic Rules of Branching Govern Dendrite Morphogenesis of Sensory Neurons. Palavalli A, Tizón-Escamilla N, Rupprecht JF, Lecuit T. Curr Biol. 2021 Feb 8;31(3):459-472.e4. doi: 10.1016/j.cub.2020.10.054. Epub 2020 Nov 18.
- Adhesion-mediated heterogeneous actin organization governs apoptotic cell extrusion. A. P. Le, J.-F. Rupprecht, R.-M. Mège, Y. Toyama, C. T. Lim, B. Ladoux, Nature Communications (2020).
- Embryonic geometry underlies phenotypic variation in decanalized conditions. A. Huang, J.-F. Rupprecht and T. E. Saunders eLife (2020).
- Measuring social networks in primates: wearable sensors vs. direct observations, V. Gelardi, J. Godard, D. Paleressompoulle, N. Claidière, A. Barrat, Proc. R. Soc. A 476:20190737 (2020)
- Relevance of temporal cores for epidemic spread in temporal networks, M. Ciaperoni, E. Galimberti, F. Bonchi, C. Cattuto, F. Gullo, A. Barrat, Scientific Reports 10:12529 (2020)
- Dynamic core periphery structure of information sharing networks in entorhinal cortex and hippocampus, N. Pedreschi, C. Bernard, W. Clawson, P. Quilichini, A. Barrat, D. Battaglia, Network Neuroscience 4:946 (2020)
- Modeling Heterogeneity of Triple-Negative Breast Cancer Uncovers a Novel Combinatorial Treatment Overcoming Primary Drug Resistance. Lamballe F., Ahmad F., Vinik Y., Castellanet O., Daian F., Müller A.K., Köhler U.A., Bailly A.L., Josselin E., Castellano R. Cayrou C., Charafe-Jauffret E., Mills G.B., Géli V., Borg J.P., Lev S., Maina F. Advanced Science, Dec 16;8(3):2003049 (2020). PMID: 33552868.
- Enhanced differentiation of human induced pluripotent stem cells towards the midbrain dopaminergic neuron lineage through GLYPICAN-4 down regulation. Corti S., Bonjean R., Rattier D., Legier T., Melon C., Salin P., Toso E.A., Kyba M., Kerkerian-Le Goff L., Maina F., Dono R. Stem Cells Translational Medicine, Feb 2 (2021). PMID: 33528918.
- C3G is upregulated in hepatocarcinoma, contributing to tumor growth and progression and to HGF/MET pathway activation. Sequera C., Bragado P., Manzano S., Arechederra M., Richelme S., Gutiérrez-Uzquiza A., Sánchez A., Maina F., Guerrero C., Porras A. Cancers, Aug 14;12(8):2282 (2020). PMID: 32823931.
- The Dorsal Striatum Energizes Motor Routines. Jurado-Parras MT, Safaie M, Sarno S, Louis J, Karoutchi C, Berret B, Robbe D. Current biology : CB - Sep 2020
- Turning the body into a clock: Accurate timing is facilitated by simple stereotyped interactions with the environment. , , , , , , , , and
- The activation trajectory of plasmacytoid dendritic cells in vivo during a viral infection. Abbas A, Vu Manh TP, Valente M, Collinet N, Attaf N, Dong C, Naciri K, Chelbi R, Brelurut G, Cervera-Marzal I, Rauwel B, Davignon JL, Bessou G, Thomas-Chollier M, Thieffry D, Villani AC, Milpied P, Dalod M, Tomasello E. Nat Immunol. 2020. doi: 10.1038/s41590-020-0731-4.
- The quest for faithful in vitro models of human dendritic cells types. Luo XL, Dalod M. Mol Immunol. 2020. doi: 10.1016/j.molimm.2020.04.018.
- Anisotropy links cell shapes to tissue flow during convergent extension. Xun Wang, Matthias Merkel, Leo B. Sutter, Gonca Erdemci-Tandogan, M. Lisa Manning, and Karen E. Kasza. PNAS June 16, 2020 117 (24) 13541-13551; first published May 28, 2020; https://doi.org/10.1073/pnas.1916418117.
- An NF-κB/IRF1 axis programs cDC1s to drive anti-tumor immunity. Ghislat G, Cheema AS, Baudoin E, Verthuy C, Ballester PJ, Crozat K, Attaf N, Dong C, Milpied P, Malissen B, Auphan-Anezin N, Vu Manh TP, Dalod M, Lawrence T. bioRxiv 2020.12.28.424621; doi: https://doi.org/10.1101/2020.12.28.424621.
- Active mucus–cilia hydrodynamic coupling drives self-organization of human bronchial epithelium.Loiseau, E., Gsell, S., Nommick, A. et al. Nat. Phys. (2020). https://doi.org/10.1038/s41567-020-0980-z.
- NK cells orchestrate splenic cDC1 migration to potentiate antiviral protective CD8+ T cell responses. Ghilas S, Ambrosini M, Cancel JC, Massé M, Lelouard H, Dalod M, Crozat K. bioRxiv 2020.04.23.057463; doi: https://doi.org/10.1101/2020.04.23.057463.
- cDC1 and interferons promote spontaneous CD4+ and CD8+ T cell protective responses to breast cancer. Mattiuz R, Brousse C, Ambrosini M, Cancel JC, Bessou G, Mussard J, Sanlaville A, Caux C, Bendriss-Vermare N, Valladeau-Guilemond J, Dalod M, Crozat K. bioRxiv 2020.12.23.424092; doi: https://doi.org/10.1101/2020.12.23.424092
- Networks beyond pairwise interactions: Structure and dynamics. Federico Battiston, Giulia Cencetti, Iacopo Iacopini, Vito Latora, Maxime Lucas, Alice Patania, Jean-Gabriel Young, and Giovanni Petri. Physics Reports, 874:1--92, 2020. Networks beyond pairwise interactions: Structure and dynamics.
- Hippocampal hub neurons maintain distinct connectivity throughout their lifetime. Bocchio M, Gouny C, Angulo-Garcia D, Toulat T, Tressard T, Quiroli E, Baude A, Cossart R. Nat Commun. 2020 Sep 11;11(1):4559. doi: 10.1038/s41467-020-18432-6. PMID: 32917906 Free PMC article.
- Antagonistic fungal enterotoxins intersect at multiple levels with host innate immune defences. Xing Zhang, Benjamin Harding, Dina Aggad, Damien Courtine, Jia-Xuan Chen, Nathalie Pujol, and Jonathan Ewbank.
- Multiorder laplacian for synchronization in higher-order networks. Maxime Lucas, Giulia Cencetti, and Federico Battiston. Phys. Rev. Research, 2:033410, Sep 2020.
- DeepCINAC: A Deep-Learning-Based Python Toolbox for Inferring Calcium Imaging Neuronal Activity Based on Movie Visualization. Denis J, Dard RF, Quiroli E, Cossart R, Picardo MA. eNeuro. 2020 Aug 17;7(4):ENEURO.0038-20.2020. doi: 10.1523/ENEURO.0038-20.2020. Print 2020 Jul/Aug. PMID: 32699072.
- GABAergic Restriction of Network Dynamics Regulates Interneuron Survival in the Developing Cortex. Duan ZRS, Che A, Chu P, Modol L, Bollmann Y, Babij R, Fetcho RN, Otsuka T, Fuccillo MV, Liston C, Pisapia DJ, Cossart R, De Marco García NV. Neuron. 2020 Jan 8;105(1):75-92.e5. doi: 10.1016/j.neuron.2019.10.008. Epub 2019 Nov 25. PMID: 31780329 Free PMC article.
- Assemblies of Perisomatic GABAergic Neurons in the Developing Barrel Cortex. Modol L, Bollmann Y, Tressard T, Baude A, Che A, Duan ZRS, Babij R, De Marco García NV, Cossart R. Neuron. 2020 Jan 8;105(1):93-105.e4. doi: 10.1016/j.neuron.2019.10.007. Epub 2019 Nov 25. PMID: 31780328 Free PMC article.
2019
- Self-organization of red blood cell suspensions under confined 2D flows. C. Iss, D. Midou, A. Moreau, D. Held, A. Charrier, S. Mendez, A. Viallat#, Helfer#. Soft Matter 15, 2971 (2019)
- White blood cells dynamics in micro-flows. A. Viallat, J. Dupire, Helfer. In : Blood Cells Suspension Dynamics in Microflows, CRC Press (2019)
- Are Conventional Type 1 Dendritic Cells Critical for Protective Antitumor Immunity and How? Cancel JC, Crozat K, Dalod M, Mattiuz R. Front Immunol. 2019;10:9. doi: 10.3389/fimmu.2019.00009.
- A minimal-length approach unifies rigidity in underconstrained materials. Matthias Merkel, Karsten Baumgarten, Brian P. Tighe, M. Lisa Manning. Proceedings of the National Academy of Sciences Apr 2019, 116 (14) 6560-6568; DOI: 10.1073/pnas.1815436116
- Matrix metalloproteinase 1 modulates invasive behavior of tracheal branches during entry into Drosophila flight muscles. Sauerwald J, Backer W, Matzat T, Schnorrer F, Luschnig S. eLife. pii: e48857. doi: 10.7554/eLife.48857.
- A small proportion of Talin molecules transmit forces at developing muscle attachments in vivo. Lemke SB, Weidemann T, Cost AL, Grashoff C, and Schnorrer F. (2019). PLoS Biology. 17(3):e3000057. doi: 10.1371/journal.pbio.3000057
- 1 contributes to a rapid homeostatic plasticity of intrinsic excitability in CA1 pyramidal neurons in vivo. Morgan PJ, Bourboulou R, Filippi C, Koenig-Gambini J, Epsztein J. Elife. 2019 Nov 27;8.
- Dynamic control of hippocampal spatial coding resolution by local visual cues. Bourboulou R, Marti G, Michon FX, El Feghaly E, Nouguier M, Robbe D, Koenig J, Epsztein J. Elife. 2019 Mar 1;8
- Genetic induction and mechanochemical propagation of a morphogenetic wave; Baille, A, Collinet C, Philippe JM, Lenne PF, Munro E, Lecuit T. Nature. 2019 Aug;572(7770):467-473. doi: 10.1038/s41586-019-1492-9. Epub 2019 Aug 15. PMID: 31413363
- Experimental validation of force inference in epithelia from cell to tissue scale; Kong W, et al. Sci Rep 2019. PMID 31601854
- Mechanical Stiffness of Reconstituted Actin Patches Correlates Tightly with Endocytosis Efficiency. PLANADE J, BELBAHRI R, BOEIRO SANDERS M, GUILLOTIN A, DU ROURE O, MICHELOT A*, HEUVINGH J. PLoS Biol. 2019 Oct 25 ;17(10) :e3000500
- Sizes of actin networks sharing a common environment are determined by the relative rates of assembly. ANTKOWIAK A, GUILLOTIN A, BOEIRO SANDERS M, COLOMBO J, VINCENTELLI R, MICHELOT A*. PLoS Biol. 2019 Jun 10 ;17(6) :e3000317
- Internal representation of hippocampal neuronal population spans a time-distance continuum. Haimerl C, Angulo-Garcia D, Villette V, Reichinnek S, Torcini A, Cossart R, Malvache A. Proc Natl Acad Sci U S A. 2019 Apr 9;116(15):7477-7482. doi: 10.1073/pnas.1718518116
- Distinct RhoGEFs activate apical and junctional actomyosin contractility under control of G proteins during epithelial morphogenesis. Alain Garcia De Las Bayonas, Jean-Marc Philippe, Annemarie C. Lellouch, Thomas Lecuit. Current Biology. 2019 Oct 21;29(20):3370-3385.e7. DOI: 10.1016/j.cub.2019.08.017
2018
- Distinct contributions of tensile and shear stress on E-cadherin levels during morphogenesis.Kale GR, Yang X, Philippe JM, Mani M, Lenne PF, Lecuit T. Nat Commun. 2018 Nov 27;9(1):5021. doi: 10.1038/s41467-018-07448-8. PMID: 30479400
- Novel Cre-Expressing Mouse Strains Permitting to Selectively Track and Edit Type 1 Conventional Dendritic Cells Facilitate Disentangling Their Complexity in vivo. Mattiuz R, Wohn C, Ghilas S, Ambrosini M, Alexandre YO, Sanchez C, Fries A, Vu Manh TP, Malissen B, Dalod M, Crozat K. Front Immunol. 2018;9:2805. doi: 10.3389/fimmu.2018.02805.
- Quantitative Control of GPCR Organization and Signaling by Endocytosis in Epithelial Morphogenesis. Jha A, van Zanten TS, Philippe JM, Mayor S, Lecuit T., Curr Biol. 2018 May 21;28(10):1570-1584.e6. doi: 10.1016/j.cub.2018.03.068. Epub 2018 May 3.
- Strengthen Your Junctions to Resist the Force. Lellouch AC, de Las Bayonas AG, Lecuit T. Dev Cell. 2018 Nov 19;47(4):406-407. doi: 10.1016/j.devcel.2018.11.007. PMID: 30458136
