Computational Biology: Publications
Read the latest papers published by our research teams.
Results
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A stabilized finite element formulation for simulating ordered arrays of immersed flexible fibers with applications in cellular mechanics
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Machine learning-based prediction of peptide aggregation during chemical synthesis
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Collective is different: Information exchange and speed-accuracy trade-offs in self-organized patterning
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Exploring How Workflow Variations in Denaturation-Based Assays Impact Global Protein–Protein Interaction Predictions
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Clocks and Dominoes: Timing Mechanisms of Embryogenesis
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Mechanical origin for non-equilibrium ultrasensitivity in the bacterial flagellar motor
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An Evidence-Grounded Research Assistant for Functional Genomics and Drug Target Assessment
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Comparing cryo-EM methods and molecular dynamics simulation to investigate heterogeneity in ligand-bound TRPV1
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Comparing cryo-EM methods and molecular dynamics simulation to investigate heterogeneity in ligand-bound TRPV1
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Improving Cryo-EM Optimization Robustness with an Optimal Transport Loss Function for Noisy Images
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Improving Cryo-EM Optimization Robustness with an Optimal Transport Loss Function for Noisy Images
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Condensation dynamics of sticky and anchored flexible biopolymers
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Age-related nigral downregulation of the Parkinson’s risk factor FAM49B primes human microglia for inflammaging
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Soft-Lubrication Drainage and Rupture in Particle-Driven Vesicles
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EmbryoProfiler: A Visual Clinical Decision Support System for IVF
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Cryo-electron microscopy ensemble optimization using individual particles and physical constraints
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Error Breakdown and Sensitivity Analysis of Dynamical Quantities in Markov State Models
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Cellular and Spatial Drivers of Unresolved Injury and Functional Decline in the Human Kidney
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The Determinant Ratio Matrix Approach to Solving 3D Matching and 2D Orthographic Projection Alignment Tasks
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Multi-scale simulations of MUT-16 scaffold protein phase separation and client recognition
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Multi-scale simulations of MUT-16 scaffold protein phase separation and client recognition
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Planar cell polarity-directed cell crawling drives polarized hair follicle morphogenesis
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3D chromatin structures precede genome activation in Drosophila embryogenesis
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The Inaugural Flatiron Institute Cryo-EM Conformational Heterogeneity Challenge
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The Inaugural Flatiron Institute Cryo-EM Conformational Heterogeneity Challenge
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Lipid packing and local geometry influence septin curvature sensing
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Evaluating Selective Quality Control in Mammalian Oogenesis: Evidence and Opportunities
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Innate immune molecular landscape following controlled human influenza virus infection
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cryoJAX: A Cryo-electron Microscopy Image Simulation Library In JAX
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Examining Age-Bias and Stereotypes of Aging in LLMs
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Disrupted developmental signaling induces novel transcriptional states
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Cell size reduction drives spindle scaling but not chromosome segregation in C. elegans
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Cell size reduction scales spindle elongation but not chromosome segregation in C. elegans
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Using Time Dependent Rate Analysis to Evaluate the Quality of Machine Learned Reaction Coordinates for Biasing and Computing Kinetics
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Using Time Dependent Rate Analysis to Evaluate the Quality of Machine Learned Reaction Coordinates for Biasing and Computing Kinetics
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Fluid Mechanics of Blood Cells and Vesicles Squeezing Through Narrow Constrictions
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DRaM-LHM: A Quaternion Framework for Iterative Camera Pose Estimation
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DRaM-LHM: A Quaternion Framework for Iterative Camera Pose Estimation
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Solution landscape of reaction-diffusion systems reveals a nonlinear mechanism and spatial robustness of pattern formation
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Asymmetric coevolution of the MEK–ERK binding interface
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Atlas of Glomerular Disease-Specific Genetic Effects on Gene Regulation in Blood Empowers New Gene Discovery Studies
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Cryo-EM images are intrinsically low dimensional
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The Wnt co-receptor Arrow-LRP5/6 is required for Planar Cell Polarity establishment in Drosophila
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Cryo-EM images are intrinsically low dimensional
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Cell clusters sense their global shape to drive collective migration
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ArchVelo: Archetypal Velocity Modeling for Single-cell Multi-omic Trajectories
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Collective multicellular patterns arising from cadherin-linked cytoskeletal domains
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Live imaging endogenous transcription factor dynamics reveals mechanisms of epiblast and primitive endoderm fate segregation