Biophysical Journal

Article	Citations
A multiscale coarse-grained model of the SARS-CoV-2 virion	134
Physical phenotype of blood cells is altered in COVID-19	108
The emergence of phase separation as an organizing principle in bacteria	103
Metapredict: a fast, accurate, and easy-to-use predictor of consensus disorder and structure	100
The flexibility of ACE2 in the context of SARS-CoV-2 infection	98
Encapsulation state of messenger RNA inside lipid nanoparticles	87
Biomechanical characterization of SARS-CoV-2 spike RBD and human ACE2 protein-protein interaction	84
Connecting Coil-to-Globule Transitions to Full Phase Diagrams for Intrinsically Disordered Proteins	82
The key role of solvent in condensation: Mapping water in liquid-liquid phase-separated FUS	71
Lipid-Protein Interactions Are a Unique Property and Defining Feature of G Protein-Coupled Receptors	61
Piezo1 Forms Specific, Functionally Important Interactions with Phosphoinositides and Cholesterol	60
Elucidation of interactions regulating conformational stability and dynamics of SARS-CoV-2 S-protein	57
Protein Structure Prediction and Design in a Biologically Realistic Implicit Membrane	56
Thermodynamics and kinetics of phase separation of protein-RNA mixtures by a minimal model	56
Quantifying viscosity and surface tension of multicomponent protein-nucleic acid condensates	54
The Relative Densities of Cytoplasm and Nuclear Compartments Are Robust against Strong Perturbation	53
A predictive coarse-grained model for position-specific effects of post-translational modifications	52
Mechanics of Bacterial Interaction and Death on Nanopatterned Surfaces	51
Ca2+-dependent mechanism of membrane insertion and destabilization by the SARS-CoV-2 fusion peptide	50
SARS-CoV-2 Nsp16 activation mechanism and a cryptic pocket with pan-coronavirus antiviral potential	48
Coupled membrane lipid miscibility and phosphotyrosine-driven protein condensation phase transitions	47
Data-Driven Polymer Model for Mechanistic Exploration of Diploid Genome Organization	44
Pulsed Electric Fields Can Create Pores in the Voltage Sensors of Voltage-Gated Ion Channels	43
Determination of bacterial surface charge density via saturation of adsorbed ions	43
Liquid Phase Separation Controlled by pH	43

Present and Emerging Methodologies in Cryo-EM Single-Particle Analysis	42
Effect of DMSO on the Mechanical and Structural Properties of Model and Biological Membranes	42
Chemotactic migration of bacteria in porous media	42
Cryo-EM and Molecular Docking Shows Myosin Loop 4 Contacts Actin and Tropomyosin on Thin Filaments	40
Neuropilin-1 assists SARS-CoV-2 infection by stimulating the separation of Spike protein S1 and S2	40
All-Optical Electrophysiology Refines Populations of In Silico Human iPSC-CMs for Drug Evaluation	39
Transient and stabilized complexes of Nsp7, Nsp8, and Nsp12 in SARS-CoV-2 replication	39
A potential interaction between the SARS-CoV-2 spike protein and nicotinic acetylcholine receptors	38
Phosphofructokinase relocalizes into subcellular compartments with liquid-like properties in vivo	37
Nucleosomal DNA Dynamics Mediate Oct4 Pioneer Factor Binding	36
Force-dependent stimulation of RNA unwinding by SARS-CoV-2 nsp13 helicase	36
Troponin Revealed: Uncovering the Structure of the Thin Filament On-Off Switch in Striated Muscle	35
Phase separation of DNA: From past to present	35
Improving the Accuracy of Protein Thermostability Predictions for Single Point Mutations	35
Stochastic Modeling of Autoregulatory Genetic Feedback Loops: A Review and Comparative Study	35
EPA and DHA differentially modulate membrane elasticity in the presence of cholesterol	35
‘RNA modulation of transport properties and stability in phase-separated condensates	34
Target Membrane Cholesterol Modulates Single Influenza Virus Membrane Fusion Efficiency but Not Rate	34
A Stochastic Model of Gene Expression with Polymerase Recruitment and Pause Release	34
A vesicle microrheometer for high-throughput viscosity measurements of lipid and polymer membranes	34
Migration of Cytotoxic T Lymphocytes in 3D Collagen Matrices	34
DNA length tunes the fluidity of DNA-based condensates	34
Rapid Quantification of Protein-Ligand Binding via 19F NMR Lineshape Analysis	33
Real-time observation of structure and dynamics during the liquid-to-solid transition of FUS LC	33
Holding it together: when cadherin meets cadherin	33
Hydrating the respiratory tract: An alternative explanation why masks lower severity of COVID-19	33
Phase separation of the LINE-1 ORF1 protein is mediated by the N-terminus and coiled-coil domain	32
Molecular dynamics simulations of Piezo1 channel opening by increases in membrane tension	32
Mechanical Heterogeneity in the Bone Microenvironment as Characterized by Atomic Force Microscopy	32
Quantifying Fibrinogen-Dependent Aggregation of Red Blood Cells in Type 2 Diabetes Mellitus	31
Structure-altering mutations of the SARS-CoV-2 frameshifting RNA element	31
Imaging ATP Consumption in Resting Skeletal Muscle: One Molecule at a Time	30
Multiscale Coarse-Grained Approach to Investigate Self-Association of Antibodies	29
Mesoscale Liquid Model of Chromatin Recapitulates Nuclear Order of Eukaryotes	29
Atomic Force Microscopy Imaging of Adsorbed Pulmonary Surfactant Films	29
Choice of Force Field for Proteins Containing Structured and Intrinsically Disordered Regions	28
Bottom-Up Meets Top-Down: The Crossroads of Multiscale Chromatin Modeling	28
Kindlin Assists Talin to Promote Integrin Activation	28
NERDSS: A Nonequilibrium Simulator for Multibody Self-Assembly at the Cellular Scale	28
The Poisson Ratio of the Cellular Actin Cortex Is Frequency Dependent	28
Clathrin senses membrane curvature	28
Phase Separation of Toxic Dipeptide Repeat Proteins Related to C9orf72 ALS/FTD	28
Macromolecular crowding modulates α-synuclein amyloid fiber growth	28
Induction of Ordered Lipid Raft Domain Formation by Loss of Lipid Asymmetry	27
Low-frequency component of photoplethysmogram reflects the autonomic control of blood pressure	27
Multivalent binding of the partially disordered SARS-CoV-2 nucleocapsid phosphoprotein dimer to RNA	27
Structural Description of the Nipah Virus Phosphoprotein and Its Interaction with STAT1	27
Interpretation of HDX Data by Maximum-Entropy Reweighting of Simulated Structural Ensembles	27
Local actin dynamics couple speed and persistence in a cellular Potts model of cell migration	27
Binding mode of SARS-CoV-2 fusion peptide to human cellular membrane	26

Increased Stiffness Inhibits Invadopodia Formation and Cell Migration in 3D	25
Amoeboid Swimming Is Propelled by Molecular Paddling in Lymphocytes	25
Chromatin Is Frequently Unknotted at the Megabase Scale	25
Assembly of model postsynaptic densities involves interactions auxiliary to stoichiometric binding	25
Protein-Protein Docking Reveals Dynamic Interactions of Tropomyosin on Actin Filaments	24
Membrane-Mediated Ligand Unbinding of the PK-11195 Ligand from TSPO	24
Amyloid Evolution: Antiparallel Replaced by Parallel	24
Following the tracks: How transcription factor binding dynamics control transcription	24
Synergistic Allostery in Multiligand-Protein Interactions	23
Structural and Dynamical Signatures of Local DNA Damage in Live Cells	23
Origin of gradients in lipid density and surface tension between connected lipid droplet and bilayer	23
RNA at the surface of phase-separated condensates impacts their size and number	23
Landscape and kinetic path quantify critical transitions in epithelial-mesenchymal transition	23
Intercellular Sodium Regulates Repolarization in Cardiac Tissue with Sodium Channel Gain of Function	23
Generalizing HMMs to Continuous Time for Fast Kinetics: Hidden Markov Jump Processes	23
Refining conformational ensembles of flexible proteins against small-angle x-ray scattering data	23
The Glycosphingolipid GM3 Modulates Conformational Dynamics of the Glucagon Receptor	23
Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies	23
Dynamic self-reinforcement of gene expression determines acquisition of cellular mechanical memory	23
Modeling of full-length Piezo1 suggests importance of the proximal N-terminus for dome structure	23
Microtubule Simulations Provide Insight into the Molecular Mechanism Underlying Dynamic Instability	22
Fat inclusions strongly alter membrane mechanics	22
Nonequilibrium Biophysical Processes Influence the Large-Scale Architecture of the Cell Nucleus	22
Conformational Ensembles of Antibodies Determine Their Hydrophobicity	22
2.5 Å-resolution structure of human CDK-activating kinase bound to the clinical inhibitor ICEC0942	22
The interplay of chromatin phase separation and lamina interactions in nuclear organization	22
z-STED Imaging and Spectroscopy to Investigate Nanoscale Membrane Structure and Dynamics	22
Matrix-driven changes in metabolism support cytoskeletal activity to promote cell migration	22
Resolving distance variations by single-molecule FRET and EPR spectroscopy using rotamer libraries	21
CRISPR-based DNA and RNA detection with liquid-liquid phase separation	21
Neuronal oscillator robustness to multiple global perturbations	21
Quantifying charge state heterogeneity for proteins with multiple ionizable residues	21
Backstepping Mechanism of Kinesin-1	21
Exploring dynamics and network analysis of spike glycoprotein of SARS-COV-2	21
Improving SARS-CoV-2 structures: Peer review by early coordinate release	21
The substrate import mechanism of the human serotonin transporter	21
A Lamin-Associated Chromatin Model for Chromosome Organization	21
SARS-CoV-2 spike binding to ACE2 is stronger and longer ranged due to glycan interaction	21
Time-Resolved Fluorescence Anisotropy and Molecular Dynamics Analysis of a Novel GFP Homo-FRET Dimer	21
Protein Dynamics Enables Phosphorylation of Buried Residues in Cdk2/Cyclin-A-Bound p27	21
Distribution of cholesterol in asymmetric membranes driven by composition and differential stress	21
ECM Stiffness Controls the Activation and Contractility of Corneal Keratocytes in Response to TGF-β1	21
The Surface and Hydration Properties of Lipid Droplets	21
Protein-Protein Binding as a Two-Step Mechanism: Preselection of Encounter Poses during the Binding of BPTI and Trypsin	21
Manipulation of the Endocochlear Potential Reveals Two Distinct Types of Cochlear Nonlinearity	21
Pulsed Low-Frequency Magnetic Fields Induce Tumor Membrane Disruption and Altered Cell Viability	20
Regulation of Gene Activation by Competitive Cross Talking Pathways	20
Unraveling the mechanism of octenidine and chlorhexidine on membranes: Does electrostatics matter?	20
Differentiating cancer cells reveal early large-scale genome regulation by pericentric domains	20
Predicting Confined 1D Cell Migration from Parameters Calibrated to a 2D Motor-Clutch Model	20
The physics of liquid-to-solid transitions in multi-domain protein condensates	20
Image-derived modeling of nucleus strain amplification associated with chromatin heterogeneity	20
Sarcomere Length Nonuniformity and Force Regulation in Myofibrils and Sarcomeres	20
Endothelial Glycocalyx Layer Properties and Its Ability to Limit Leukocyte Adhesion	20
Regeneration of PEG slide for multiple rounds of single-molecule measurements	20
Modeling bursty transcription and splicing with the chemical master equation	20
On the stability and layered organization of protein-DNA condensates	20
Principles and practice for SARS-CoV-2 decontamination of N95 masks with UV-C	20
A Unified Model for Treadmilling and Nucleation of Single-Stranded FtsZ Protofilaments	20
Red blood cell shape transitions and dynamics in time-dependent capillary flows	20
CompuCell3D Simulations Reproduce Mesenchymal Cell Migration on Flat Substrates	20
Influence of membrane-cortex linkers on the extrusion of membrane tubes	19
Coarse-Grained Modeling of Pore Dynamics on the Red Blood Cell Membrane under Large Deformations	19
β Cells Operate Collectively to Help Maintain Glucose Homeostasis	19
Spatiotemporal Dynamics of Dilute Red Blood Cell Suspensions in Low-Inertia Microchannel Flow	19
Sequence-Based Prediction of Metamorphic Behavior in Proteins	19
Effect of Divalent Cations on the Structure and Mechanics of Vimentin Intermediate Filaments	19
Extracting Transition Rates in Particle Tracking Using Analytical Diffusion Distribution Analysis	19
Single-virus content-mixing assay reveals cholesterol-enhanced influenza membrane fusion efficiency	19
Dye Transport through Bilayers Agrees with Lipid Electropore Molecular Dynamics	19
Regulation of epithelial sodium channel activity by SARS-CoV-1 and SARS-CoV-2 proteins	19
Non-Langmuir Kinetics of DNA Surface Hybridization	18
The Effect of (−)-Epigallocatechin-3-Gallate on the Amyloid-β Secondary Structure	18
DeepTracer-ID: De novo protein identification from cryo-EM maps	18
Chromatin Viscoelasticity Measured by Local Dynamic Analysis	18
rsRNASP: A residue-separation-based statistical potential for RNA 3D structure evaluation	18
Membrane Association Transforms an Inert Anti-TCRβ Fab’ Ligand into a Potent T Cell Receptor Agonist	18
Binding Dynamics of α-Actinin-4 in Dependence of Actin Cortex Tension	18
Intrachain interaction topology can identify functionally similar intrinsically disordered proteins	18
Assessment of models for calculating the hydrodynamic radius of intrinsically disordered proteins	18

Molecular Dynamics Ensemble Refinement of Intrinsically Disordered Peptides According to Deconvoluted Spectra from Circular Dichroism	18
Computing 3D Chromatin Configurations from Contact Probability Maps by Inverse Brownian Dynamics	18
Lipid-Composition-Mediated Forces Can Stabilize Tubular Assemblies of I-BAR Proteins	18
Viscosity Landscape of Phase-Separated Lipid Membrane Estimated from Fluid Velocity Field	18
Mechanisms of Light-Induced Deformations in Photoreceptors	18
Active and Inactive Cdc42 Differ in Their Insert Region Conformational Dynamics	18
Effect of Protein Structure on Evolution of Cotranslational Folding	18
A Mechanical Instability in Planar Epithelial Monolayers Leads to Cell Extrusion	18
Mechanics of Multicentrosomal Clustering in Bipolar Mitotic Spindles	17
Chemical Exchange at the Trinuclear Copper Center of Small Laccase from Streptomyces coelicolor	17
Distance-Based Metrics for Comparing Conformational Ensembles of Intrinsically Disordered Proteins	17
Facile tethering of stable and unstable proteins for optical tweezers experiments	17
Chromatin and Cytoskeletal Tethering Determine Nuclear Morphology in Progerin-Expressing Cells	17
Dedifferentiation alters chondrocyte nuclear mechanics during in vitro culture and expansion	17
Myofibril orientation as a metric for characterizing heart disease	17
Collective motion enhances chemotaxis in a two-dimensional bacterial swarm	17
Modeling coronavirus spike protein dynamics: implications for immunogenicity and immune escape	17
mRNA lipid nanoparticle phase transition	17
Role of spatial patterning of N-protein interactions in SARS-CoV-2 genome packaging	17
Anomalous Diffusion Characterization by Fourier Transform-FRAP with Patterned Illumination	17
Modeling Thrombus Shell: Linking Adhesion Receptor Properties and Macroscopic Dynamics	16
Microrheology for Hi-C Data Reveals the Spectrum of the Dynamic 3D Genome Organization	16
Folding@home: Achievements from over 20 years of citizen science herald the exascale era	16
The N-terminal domain of the A12.2 subunit stimulates RNA polymerase I transcription elongation	16
Clot Permeability, Agonist Transport, and Platelet Binding Kinetics in Arterial Thrombosis	16
Protein-induced membrane curvature in coarse-grained simulations	16
EMT changes actin cortex rheology in a cell-cycle-dependent manner	16
Cellular mechanics of wound formation in single cell layer under cyclic stretching	16
Endocytosis against high turgor pressure is made easier by partial coating and freely rotating base	16
Tuning Cell Motility via Cell Tension with a Mechanochemical Cell Migration Model	16
Oscillations in K(ATP) conductance drive slow calcium oscillations in pancreatic β-cells	16
Spontaneous local membrane curvature induced by transmembrane proteins	16
Rapid viscoelastic changes are a hallmark of early leukocyte activation	16
Modeling insights into SARS-CoV-2 respiratory tract infections prior to immune protection	16
Probing Mechanisms of Transcription Elongation Through Cell-to-Cell Variability of RNA Polymerase	16
Perspectives on the Classical Enzyme Carbonic Anhydrase and the Search for Inhibitors	16
The Biased Ligands NGF and NT-3 Differentially Stabilize Trk-A Dimers	16
Intestinal villus structure contributes to even shedding of epithelial cells	16
Induction of ciliary orientation by matrix patterning and characterization of mucociliary transport	15
Zinc determines dynamical properties and aggregation kinetics of human insulin	15
Zinc Fingers in HIV-1 Gag Precursor Are Not Equivalent for gRNA Recruitment at the Plasma Membrane	15
Membrane Tension Can Enhance Adaptation to Maintain Polarity of Migrating Cells	15
Protein-Folding Analysis Using Features Obtained by Persistent Homology	15
Dynamics of the Buckling Transition in Double-Stranded DNA and RNA	15
Small molecule therapeutics to destabilize the ACE2-RBD complex: A molecular dynamics study	15
Cholesterol stabilizes recombinant exocytic fusion pores by altering membrane bending rigidity	15
Dynamics of Cell Membrane Permeabilization by Saponins Using Terahertz Attenuated Total Reflection	15
Structural Studies of Overlapping Dinucleosomes in Solution	15
Queuing Models of Gene Expression: Analytical Distributions and Beyond	15
Endocytosis and exocytosis protect cells against severe membrane tension variations	15
TENSCell: Imaging of Stretch-Activated Cells Reveals Divergent Nuclear Behavior and Tension	15
Multiscale mechanobiology: Coupling models of adhesion kinetics and nonlinear tissue mechanics	15
Dynamic Crowding Regulates Transcription	14
Cardiomyopathy mutations impact the actin-activated power stroke of human cardiac myosin	14
Short peptides as predictors for the structure of polyarginine sequences in disordered proteins	14
Predicting Genetic Variation Severity Using Machine Learning to Interpret Molecular Simulations	14
Comparative evaluation of spin-label modeling methods for protein structural studies	14
Myosin II Filament Dynamics in Actin Networks Revealed with Interferometric Scattering Microscopy	14
Developing initial conditions for simulations of asymmetric membranes: a practical recommendation	14
Influence of the extracellular domain size on the dynamic behavior of membrane proteins	14
Membrane Curvature Revisited—the Archetype of Rhodopsin Studied by Time-Resolved Electronic Spectroscopy	14
Actin bundle architecture and mechanics regulate myosin II force generation	14
Simulating the chromatin-mediated phase separation of model proteins with multiple domains	14
Glass-like characteristics of intracellular motion in human cells	14
Water Loss in Aging Erythrocytes Provides a Clue to a General Mechanism of Cellular Senescence	14
Development of Nascent Focal Adhesions in Spreading Cells	14
Biophysical Parameters of GEVIs: Considerations for Imaging Voltage	14
Sphingomyelin Acyl Chains Influence the Formation of Sphingomyelin- and Cholesterol-Enriched Domains	14
Mechanisms of Premature Ventricular Complexes Caused by QT Prolongation	14
Sphingomyelins and ent-Sphingomyelins Form Homophilic Nano-Subdomains within Liquid Ordered Domains	14
Redistribution of TPA Fluxes in the Presence of PAI-1 Regulates Spatial Thrombolysis	14
Fusion Pore Formation Observed during SNARE-Mediated Vesicle Fusion with Pore-Spanning Membranes	13
What Makes a Good Pore Former: A Study of Synthetic Melittin Derivatives	13
Energetics and structure of alanine-rich α-helices via adaptive steered molecular dynamics	13
Heating-Induced DMPC/Glycyrrhizin Bicelle-to-Vesicle Transition: A X-Ray Contrast Variation Study	13
How Nanopore Translocation Experiments Can Measure RNA Unfolding	13
Ca2+ Release via IP3 Receptors Shapes the Cardiac Ca2+ Transient for Hypertrophic Signaling	13
Effects of Ligand Binding on the Energy Landscape of Acyl-CoA-Binding Protein	13
A hard-sphere model of protein corona formation on spherical and cylindrical nanoparticles	13
Mechanical Activation of MscL Revealed by a Locally Distributed Tension Molecular Dynamics Approach	13
Myofiber stretch induces tensile and shear deformation of muscle stem cells in their native niche	13
Membrane hydrophobicity determines the activation free energy of passive lipid transport	13
Melatonin Alters Fluid Phase Coexistence in POPC/DPPC/Cholesterol Membranes	13
In silico biophysics and hemorheology of blood hyperviscosity syndrome	13
ATP:Mg2+ shapes material properties of protein-RNA condensates and their partitioning of clients	13
Thermodynamics of Huntingtin Aggregation	13
Spatially Discordant Repolarization Alternans in the Absence of Conduction Velocity Restitution	13
Nanopore fingerprinting of supramolecular DNA nanostructures	13
Phase separation in amino acid mixtures is governed by composition	13
Influenza A M2 recruits M1 to the plasma membrane: A fluorescence fluctuation microscopy study	13
Spatiotemporal dynamics of growth and death within spherical bacterial colonies	13
Multimodal microscale mechanical mapping of cancer cells in complex microenvironments	13
Physical modeling of multivalent interactions in the nuclear pore complex	13
Membrane Adhesion via Glycolipids Occurs for Abundant Saccharide Chemistries	13
Cancer as a biophysical disease: Targeting the mechanical-adaptability program	13