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Publications
Publications
2022
| ⊞ | Long-Lasting and Responsive DNA/Enzyme-Based Programs in Serum-Supplemented Extracellular Media - ACS Synthetic Biology |
| ⊞ | Front speed and pattern selection of a propagating chemical front in an active fluid - Physical Review E |
| ⊞ | Hydrodynamic flow and concentration gradients in the gut enhance neutral bacterial diversity - Proc. Natl. Acad. Sci. U. S. A. |
2021
| ⊞ | Programmed mechano-chemical coupling in reaction-diffusion active matter - Science Advances |
| ⊞ | Isolation and Phospholipid Enrichment of Muscle Mitochondria and Mitoplasts - Bio Protoc |
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Bibtex | doi:https://doi.org/10.21769/bioprotoc.4201 |
| ⊞ | Thermal modulation of Zebrafish exploratory statistics reveals constraints on individual behavioral variability - BMC Biology |
| URL | Full text PDF | Bibtex | doi:https://doi.org/10.1186/s12915-021-01126-w |
| ⊞ | Trans-inhibition of axon terminals underlies competition in the habenulo-interpeduncular pathway - Current Biology |
| URL | Full text PDF | Bibtex | doi:10.1016/j.cub.2021.08.051 |
| ⊞ | A bending fluctuation-based mechanism for particle detection by ciliated structures - PNAS |
| URL | Full text PDF | Bibtex | doi:https://doi.org/10.1073/pnas.2020402118 |
| ⊞ | Cooperation between melanoma cell states promotes metastasis through heterotypic cluster formation - Developmental C |
| ⊞ | Using single-vesicle technologies to unravel the heterogeneity of extracellular vesicles - Nature Protocols |
| ⊞ | A rationally designed oral vaccine induces immunoglobulin A in the murine gut that directs the evolution of attenuated Salmonella variants - NATURE MICROBIOLOGY |
| ⊞ | Open science saves lives: lessons from the COVID-19 pandemic - BMC MEDICAL RESEARCH METHODOLOGY |
| ⊞ | Learning from Embryo Development to Engineer Self-organizing Materials - Out-of-Equilibrium (Supra)molecular Systems and Materials |
| URL | Full text PDF | Bibtex | doi: |
| ⊞ | FastTrack: An open-source software for tracking varying numbers of deformable objects - PLOS Computational Biology |
| URL | Full text PDF | Bibtex | doi:10.1371/journal.pcbi.1008697 |
| ⊞ | Multiconformational analysis of tripeptides upon consideration of implicit and explicit hydration effects - Journal of Molecular Graphics and Modelling |
| ⊞ | Programming Spatio-temporal Patterns with DNA-based Circuits - Wiley (publisher) DNA- and RNA-Based Computing Systems |
| URL | Full text PDF | Bibtex | doi: |
| ⊞ | Cardiolipin content controls mitochondrial coupling and energetic efficiency in muscle - Science Advances |
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Bibtex | doi:https://doi.org/10.1126/sciadv.abd6322 |
| ⊞ | Cross-scale dynamics and the evolutionary emergence of infectious diseases - VIRUS EVOLUTION |
2020
| ⊞ | Mitochondrial cristae modeled as an out-of-equilibrium membrane driven by a proton field - Phys. Rev. E |
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Bibtex | doi:10.1103/PhysRevE.102.022401 |
| ⊞ | Collective stiffening of soft hair assemblies - Physical Review E Rapid Communication |
| ⊞ | Structural Analysis of Nonapeptides Derived from Elastin - Biophysical Journal |
| ⊞ | From behavior to circuit modeling of light-seeking navigation in zebrafish larvae - eLife |
| URL | Full text PDF | Bibtex | doi:10.7554/eLife.52882 |
| ⊞ | Spatiotemporal pattern formation in E. coli biofilms explained by a simple physical energy balance - Soft Matter |
| URL | Full text PDF | Bibtex | doi:10.1039/c9sm01375j |
| ⊞ | Growing, evolving and sticking in a flowing environment: understanding IgA interactions with bacteria in the gut - IMMUNOLOGY |
2019
| ⊞ | Characterization of a multicore fiber image guide for nonlinear endoscopic imaging using two-photon fluorescence and second-harmonic generation - Journal of Biomedical Optics |
| ⊞ | Probing in-mouth texture perception with a biomimetic tongue - Journal of Royal Society Interface |
| ⊞ | Raman Tweezers Microspectroscopy of Functionalized 4.2-nm Diameter CdSe Nanocrystals in Water Reveals Changed Ligand Vibrational Modes by a Metal Cation - Journal of Physical Chemistry C |
| ⊞ | Evolution at the edge of expanding populations - The American Naturalist |
| ⊞ | Diffusion through Nanopores in Connected Lipid Bilayer Networks - Phys. Rev. Lett. |
| ⊞ | A Semi-Automatic Dispenser for Solid and Liquid Food in Aquatic Facilities - Zebrafish |
| URL | Full text PDF | Bibtex | doi:10.1089/zeb.2019.1733 |
| ⊞ | rEXPAR: An Isothermal Amplification Scheme That Is Robust to Autocatalytic Parasites - Biochemistry |
| ⊞ | Antibody-mediated crosslinking of gut bacteria hinders the spread of antibiotic resistance - EVOLUTION |
| ⊞ | Enchained growth and cluster dislocation: A possible mechanism for microbiota homeostasis - PLOS COMPUTATIONAL BIOLOGY |
| ⊞ | Lipid unsaturation properties govern the sensitivity of membranes to photo-induced oxidative stress - Biophysical Journal |
| ⊞ | Raman tweezers microspectroscopy of circa 100 nm extracellular vesicles - Nanoscale |
| URL | Full text PDF | Bibtex | doi:10.1039/c8nr04677h |
2018
| ⊞ | Ribosomal protein eL42 contributes to the catalytic activity of the yeast ribosome at the elongation step of translation - Biochimie |
| URL | Full text PDF | Bibtex | doi://doi.org/10.1016/j.biochi.2018.12.005 |
| ⊞ | Cultural transmission and biological markets - BIOLOGY \& PHILOSOPHY |
| ⊞ | Environmentally Mediated Social Dilemmas - Trends in Ecology and Evolution |
| ⊞ | Whole-Brain Calcium Imaging during Physiological Vestibular Stimulation in Larval Zebrafish - Current Biology |
| URL | Full text PDF | Bibtex | doi:https://doi.org/10.1016/j.cub.2018.10.017 |
| ⊞ | Quantifying the impact of a periodic presence of antimicrobial on resistance evolution in a homogeneous microbial population of fixed size - Journal of Theoretical Biology |
| ⊞ | Inferring interaction partners from protein sequences using mutual information - PLoS Computational Biology |
| ⊞ | Tracer diffusion in crowded narrow channels - J. Phys.-Condes. Matter |
| ⊞ | The inducible chemical-genetic fluorescent marker FAST outperforms classical fluorescent proteins in the quantitative reporting of bacterial biofilm dynamics - Scientific Reports |
| URL | Full text PDF | Bibtex | doi:10.1038/s41598-018-28643-z |
| ⊞ | pH sensing by lipids in membranes: The fundamentals of pH-driven migration, polarization and deformations of lipid bilayer assemblies - Biochimica et Biophysica Acta - Biomembranes |
| ⊞ | Analytical expression of elastic rods at equilibrium under 3D strong anchoring boundary conditions - Journal of Computational Physics |
| URL | Full text PDF | Bibtex | doi://doi.org/10.1016/j.jcp.2018.07.021 |
| ⊞ | Universal first-passage statistics in aging media - Phys. Rev. E |
| ⊞ | First Demonstration of Magnetoelectric Coupling in a Polynuclear Molecular Nanomagnet: Single-Crystal EPR Studies of [Fe3O(O2CPh)6(py)3]ClO4?py under Static Electric Fields - Chem. Eur. J. |
| URL | Full text PDF | Bibtex | doi:10.1002/chem.201803038 |
| ⊞ | Integrating Physical and Molecular Insights on Immune Cell Migration - Trends Immunol. |
| ⊞ | Mutation rates and effects in single cells - Science |
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Bibtex | doi:10.1126/science.aan0797 |
| ⊞ | Directed Flow of Micromotors through Alignment Interactions with Micropatterned Ratchets - ACS Nano |
| ⊞ | Ependymal cilia beating induces an actin network to protect centrioles against shear stress - Nat. Commun. |
| ⊞ | Assessment of the ability of poly(l-lysine)-poly(ethylene glycol) (PLL-PEG) hydrogels to support the growth of U87-MG and F98 glioma tumor cells - J. Appl. Polym. Sci. |
| URL | Full text PDF | Bibtex | doi:10.1002/app.46287 |
| ⊞ | Phosphorescence Kinetics of Singlet Oxygen Produced by Photosensitization in Spherical Nanoparticles. Part I. Theory - J. Phys. Chem. B |
| URL | Full text PDF | Bibtex | doi:10.1021/acs.jpcb.8b00658 |
| ⊞ | Phosphorescence Kinetics of Singlet Oxygen Produced by Photosensitization in Spherical Nanoparticles. Part II. The Case of Hypericin-Loaded Low-Density Lipoprotein Particles - J. Phys. Chem. B |
| URL | Full text PDF | Bibtex | doi:10.1021/acs.jpcb.8b00659 |
| ⊞ | Nonequilibrium Fluctuations and Enhanced Diffusion of a Driven Particle in a Dense Environment - Phys. Rev. Lett. |
| ⊞ | Optimized Diffusion of Run-and-Tumble Particles in Crowded Environments - Physical Review Letters |
| ⊞ | Quantitative Characterization of Translational Riboregulators Using an in Vitro Transcription-Translation System - ACS Synth. Biol. |
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Bibtex | doi:10.1021/acssynbio.7b00387 |
| ⊞ | Archaeal cells share common size control with bacteria despite noisier growth and division - Nature Microbiology |
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Bibtex | doi:10.1038/s41564-017-0082-6 |
| ⊞ | Quasistatic Microdroplet Production in a Capillary Trap - Phys. Rev. Applied |
| URL | Full text PDF | Bibtex | doi:https://doi.org/10.1103/PhysRevApplied.9.014002 |
| ⊞ | Dynamical Behavior of Somatostatin-14 and Its Cyclic Analogues as Analyzed in Bulk and on Plasmonic Silver Nanoparticles - Advances in Protein Chemistry and Structural Biology |
| URL | Full text PDF | Bibtex | doi:10.1016/bs.apcsb.2018.01.002 |
| ⊞ | Method for Detecting and Studying Genome-Wide Mutations in Single Living Cells in Real Time - Methods Mol Biol |
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Bibtex | doi:https://doi.org/10.1007/978-1-4939-7638-6_3 |
2017
| ⊞ | Analysis of a nonlocal and nonlinear fokker planck model for cell crawling migration - SIAM Journal on Applied Mathematics |
| ⊞ | Forces in inhomogeneous open active-particle systems - PHYSICAL REVIEW E |
| ⊞ | Nonequilibrium fluctuations of lipid membranes by the rotating motor protein F1F0-ATP synthase - Proceedings of the National Academy of Sciences of the United States of America |
| URL | Full text PDF | Bibtex | doi:10.1073/pnas.1701207114 |
| ⊞ | Generalized Archimedes' principle in active fluids - PHYSICAL REVIEW E |
| ⊞ | Sensorimotor computation underlying phototaxis in zebrafish - Nature Communication |
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Full text PDF | Bibtex | doi:10.1038/s41467-017-00310-3 |
| ⊞ | Myofibril contraction and crosslinking drive nuclear movement to the periphery of skeletal muscle - NATURE CELL BIOLOGY |
| ⊞ | Structural changes and picosecond to second dynamics of cytochrome c in interaction with nitric oxide in ferrous and ferric redox states - Physical Chemistry Chemical Physics |
| URL | Full text PDF | Bibtex | doi:10.1039/c7cp02634j |
| ⊞ | Affinity labelling in situ of the bL12 protein on E. coli 70S ribosomes by means of a tRNA dialdehyde derivative - J. Biochem. |
| URL | Full text PDF | Bibtex | doi:doi:10.1093/jb/mvx055 |
| ⊞ | Photo-induced oxidation of bio-mimetic membranes : Giant pore openings and membrane defects - Eur. Biophys. J. Biophys. Lett. |
| ⊞ | Classifications of ideal 3D elastica shapes at equilibrium - J. Maths Phys. |
| URL | Full text PDF | Bibtex | doi:https://doi.org/10.1063/1.4983570 |
| ⊞ | Blind sparse deconvolution for inferring spike trains from fluorescence recordings - BioArxiv |
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Full text PDF | Bibtex | doi:10.1101/156364 |
| ⊞ | Bacterial biofilm under flow: First a physical struggle to stay, then a matter of breathing - PLOS ONE |
| URL | Full text PDF | Bibtex | doi:10.1371/journal.pone.0175197 |
| ⊞ | Raman scattering-based multiconformational analysis for probing the structural differences between acetylcholine and acetylthiocholine. - Journal of Pharmaceutical and Biomedical Analysis |
| ⊞ | Microscopic agents programmed by DNA circuits - Nature Nano |
| ⊞ | Mean first-passage time of an anisotropic diffusive searcher - JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL |
2016
| ⊞ | Whisker contact detection of rodents based on slow and fast mechanical inputs - Frontiers in Behavioral Neuroscience |
| ⊞ | Deterministic patterns in cell motility - Nature Physics |
| ⊞ | Inferring interaction partners from protein sequences - PNAS |
| URL | Full text PDF | Bibtex | doi:10.1073/pnas.1606762113 |
| ⊞ | A 2D virtual reality system for visual goal-driven navigation in zebrafish larvae - Scientific Reports |
| URL | Full text PDF | Bibtex | doi:10.1038/srep34015 |
| ⊞ | From bulk to plasmonic nanoparticle surfaces: the behavior of two potent therapeutic peptides, octreotide and pasireotide - Physical Chemistry Chemical Physics |
| ⊞ | Single cell rigidity sensing: A complex relationship between focal adhesion dynamics and large-scale actin cytoskeleton remodeling - CELL ADHESION \& MIGRATION |
| ⊞ | Active Particles with Soft and Curved Walls: Equation of State, Ratchets, and Instabilities - PHYSICAL REVIEW LETTERS |
| ⊞ | Berberine as a photosensitizing agent for antitumoral photodynamic therapy: Insights into its association to low density lipoproteins - Int. J. Pharm. |
| ⊞ | Optimal search strategies of run-and-tumble walks - PHYSICAL REVIEW E |
| ⊞ | ACA-Pro: calibration protocol for quantitative diffuse reflectance spectroscopy. Validation on contact and noncontact probe- and CCD-based systems - J. Biomed. Opt. |
| ⊞ | ESCRT III repairs nuclear envelope ruptures during cell migration to limit DNA damage and cell death - SCIENCE |
| ⊞ | A Predictive Model for Yeast Cell Polarization in Pheromone Gradients - PLOS COMPUTATIONAL BIOLOGY |
| ⊞ | Nonlinear response and emerging nonequilibrium microstructures for biased diffusion in confined crowded environments - PHYSICAL REVIEW E |
| ⊞ | Rheotaxis of Larval Zebrafish: Behavioral Study of a Multi-Sensory Process - Frontiers in System Neuroscience |
| URL | Full text PDF | Bibtex | doi:10.3389/fnsys.2016.00014 |
| ⊞ | Correlation between Mitochondrial Morphology and Functionality after Oxidative Stress - Biophys. J. |
| ⊞ | Single-cell analysis of growth in budding yeast and bacteria reveals a common size regulation strategy - Current Biology |
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Bibtex | doi:10.1016/j.cub.2015.11.067 |
| ⊞ | Cortical Flow-Driven Shapes of Non-Adherent Cells - BIOPHYSICAL JOURNAL |
| ⊞ | All characteristic Raman markers of tyrosine and tyrosinate originate from phenol ring fundamental vibrations - Journal of Raman Spectroscopy |
| ⊞ | Actin flows in cell migration: from locomotion and polarity to trajectories - CURRENT OPINION IN CELL BIOLOGY |
| ⊞ | Cortical Flow-Driven Shapes of Nonadherent Cells - PHYSICAL REVIEW LETTERS |
| ⊞ | F-actin mechanics control spindle centring in the mouse zygote - NATURE COMMUNICATIONS |
| ⊞ | Innate control of actin nucleation determines two distinct migration behaviours in dendritic cells - NATURE CELL BIOLOGY |
2015
| ⊞ | Development of a real-time flexible multiphoton microendoscope for label-free imaging in a live animal - Sci Rep |
| ⊞ | Single-Cell Analysis of Growth and Cell Division of the Anaerobe Desulfovibrio vulgaris Hildenborough - Frontiers in Microbiology |
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Bibtex | doi:10.3389/fmicb.2015.01378 |
| ⊞ | BIOPHYSICS The expressionist movement - Nat. Phys. |
| ⊞ | Ratchetaxis: Long-Range Directed Cell Migration by Local Cues - TRENDS IN CELL BIOLOGY |
| ⊞ | Mean exit time for surface-mediated diffusion: spectral analysis and asymptotic behavior - ANALYSIS AND MATHEMATICAL PHYSICS |
| ⊞ | Release kinetics of an amphiphilic photosensitizer by block-polymer nanoparticles - Int. J. Pharm. |
| ⊞ | Non-Markovian closure kinetics of flexible polymers with hydrodynamic interactions - JOURNAL OF CHEMICAL PHYSICS |
| ⊞ | Diffusion and Subdiffusion of Interacting Particles on Comblike Structures - PHYSICAL REVIEW LETTERS |
| ⊞ | Soft Lithography Using Nectar Droplets - Langmuir |
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Bibtex | doi:10.1021/acs.langmuir.5b03829 |
| ⊞ | Contact Kinetics in Fractal Macromolecules - PHYSICAL REVIEW LETTERS |
| ⊞ | Contact Kinetics in Fractal Macromolecules - PHYSICAL REVIEW LETTERS |
| ⊞ | Distribution of the position of a driven tracer in a hardcore lattice gas - JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT |
| ⊞ | Distribution of the position of a driven tracer in a hardcore lattice gas - JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT |
| ⊞ | Protonation-deprotonation and structural dynamics of antidiabetic drug metformin - Journal of Pharmaceutical and Biomedical Analysis |
| ⊞ | Cover times of random searches - NATURE PHYSICS |
| ⊞ | The cell ratchet: Interplay between efficient protrusions and adhesion determines cell motion - CELL ADHESION & MIGRATION |
| ⊞ | Intracellular Monitoring of AS1411 Aptamer by Time-Resolved Microspectrofluorimetry and Fluorescence Imaging - J. Fluoresc. |
| ⊞ | Field induced anisotropic cooperativity in a magnetic colloidal glass - Soft Matter |
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Full text PDF | Bibtex | doi:DOI: 10.1039/c5sm01315a |
| ⊞ | Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells - NATURE COMMUNICATIONS |
| ⊞ | A microfluidic device to study neuronal and motor responses to acute chemical stimuli in zebrafish - Scientific Reports |
| URL | Full text PDF | Bibtex | doi:10.1038/srep12196 |
| ⊞ | Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher - NATURE COMMUNICATIONS |
| ⊞ | Rational Design and Adaptive Management of Combination Therapies for Hepatitis C Virus Infection - PLoS Comput. Biol. |
| ⊞ | Automated Design of Programmable Enzyme-Driven DNA Circuits - ACS Synth. Biol. |
| ⊞ | Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells - NATURE COMMUNICATIONS |
| ⊞ | Adaptive rheology and ordering of cell cytoskeleton govern matrix rigidity sensing - NATURE COMMUNICATIONS |
| ⊞ | Size sensors in bacteria, cell cycle control, and size control - Frontiers in Microbiology |
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Bibtex | doi:10.3389/fmicb.2015.00515 |
| ⊞ | Whole-brain functional imaging with two-photon light-sheet microscopy - Nature Methods |
| URL | Full text PDF | Bibtex | doi:10.1038/nmeth.3371 |
| ⊞ | Mean first-passage times in confined media: from Markovian to non-Markovian processes - JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL |
| ⊞ | Actin Flows Mediate a Universal Coupling between Cell Speed and Cell Persistence - Cell |
| URL | Full text PDF | Bibtex | doi:10.1016/j.cell.2015.01.056 |
| ⊞ | Combining magnetic nanoparticles with cell derived microvesicles for drug loading and targeting - Nanomedicine: NBM |
| ⊞ | Pursuit-and-Evasion Reaction-Diffusion Waves in Microreactors with Tailored Geometry - J. Phys. Chem. B |
| ⊞ | Working Together: Spatial Synchrony in the Force and Actin Dynamics of Podosome First Neighbors - ACS NANO |
| ⊞ | Active diffusion positions the nucleus in mouse oocytes - NATURE CELL BIOLOGY |
| ⊞ | Active diffusion positions the nucleus in mouse oocytes - NATURE CELL BIOLOGY |
| ⊞ | Confinement and Low Adhesion Induce Fast Amoeboid Migration of Slow Mesenchymal Cells - Cell |
| URL | Full text PDF | Bibtex | doi:10.1016/j.cell.2015.01.007 |
| ⊞ | Synthesis of Programmable Reaction-Diffusion Fronts Using DNA Catalyzers - Phys. Rev. Lett. |
| ⊞ | Normal contact and friction of rubber with model randomly rough surfaces - Soft Matter |
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Full text PDF | Bibtex | doi:10.1039/c4sm02346c |
| ⊞ | Liposome Adhesion Generates Contractile Traction Stresses - BIOPHYSICAL JOURNAL |
| ⊞ | Statistical estimation of a growth-fragmentation model observed on a genealogical tree - Bernoulli |
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Bibtex | doi:10.3150/14-BEJ623 |
| ⊞ | Non-contact Quantitative Diffuse Reflectance Spectroscopy - DIFFUSE OPTICAL IMAGING V |
| ⊞ | Exit Time Distribution in Spherically Symmetric Two-Dimensional Domains - JOURNAL OF STATISTICAL PHYSICS |
| ⊞ | A narrow window of cortical tension guides asymmetric spindle positioning in the mouse oocyte - NATURE COMMUNICATIONS |
2014
| ⊞ | Microscopic Theory for Negative Differential Mobility in Crowded Environments - PHYSICAL REVIEW LETTERS |
| ⊞ | Granulocytes Impose a Tight Bottleneck upon the Gut Luminal Pathogen Population during Salmonella Typhimurium Colitis - PLoS Pathog. |
| ⊞ | Cyclization kinetics of Gaussian semiflexible polymer chains - PHYSICAL REVIEW E |
| ⊞ | Protrusion force microscopy reveals oscillatory force generation and mechanosensing activity of human macrophage podosomes - NATURE COMMUNICATIONS |
| ⊞ | Cells as Active Particles in Asymmetric Potentials: Motility under External Gradients - BIOPHYSICAL JOURNAL |
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