Tags

AI-imaging (2)

• Roadmap on the use of artificial intelligence for imaging of vulnerable atherosclerotic plaque in coronary arteries (2023) — deep
• Noninvasive Detection of Smooth Muscle Cell-Derived Hot Spots to Study Atherosclerosis by PET/MRI in Mice (2023) — deep

Bayesian-optimisation (1)

• Bayesian optimisation for efficient parameter inference in a cardiac mechanics model of the left ventricle (2022) — deep

ODE-bifurcation (24)

• Ultrasensitivity in the mitogen-activated protein kinase cascade (1996) — quick
• Signaling Networks: The Origins of Cellular Multitasking (2000) — quick
• Bistability in cell signaling: How to make continuous processes discontinuous, and reversible processes irreversible (2001) — quick
• Aging and immortality in a cell proliferation model (2007) — quick
• Modeling cardiac β-adrenergic signaling with normalized-Hill differential equations: comparison with a biochemical model (2010) — quick
• Optimal homeostasis necessitates bistable control (2012) — quick
• Chemoinformatics in the New Era: From Molecular Dynamics to Systems Dynamics (2016) — deep
• Cardiac and Renal Function Interactions in Heart Failure with Reduced Ejection Fraction: A Mathematical Modeling Analysis (2020) — quick
• Switching Behaviour in Vascular Smooth Muscle Cell-Matrix Adhesion During Oscillatory Loading (2020) — quick
• Information transmission from NFkB signaling dynamics to gene expression (2020) — quick
• Interpretable predictions of cellular behavior (2021) — quick
• A DNA-structured mathematical model of cell-cycle progression in cyclic hypoxia (2022) — quick
• Energy landscape decomposition for cell differentiation with proliferation effect (2022) — quick
• An Energy Method for the Bifurcation Analysis of Necking (2022) — quick
• Mathematical investigation into the role of macrophage heterogeneity on the temporal and spatio-temporal dynamics of non-small cell lung cancers (2022) — quick
• Dynamic Mechanism of Phase Variations in Bacteria Based on Multistable Gene Regulatory Networks (2022) — quick
• Modeling Transport Regulation in Gene Regulatory Networks (2022) — quick
• A mathematical modelling portrait of Wnt signalling in early vertebrate embryogenesis (2022) — quick
• Biochemomechanical Tensegrity Model of Cytoskeletons (2023) — quick
• Minimal Morphoelastic Models of Solid Tumour Spheroids: A Tutorial (2023) — quick
• Rational nanoparticle design: Optimization using insights from experiments and mathematical models (2023) — deep
• A target-cell limited model can reproduce influenza infection dynamics in hosts with differing immune responses (2023) — deep
• Parameter Identifiability Under Limited Experimental Data in Age-Structured Models of the Cell Cycle (2025) — deep
• A quantitative model for the emergent population dynamics of the melanoma MITF rheostat (2026) — quick

agent-based-model (22)

• Multi-scale modeling of a wound-healing cell migration assay (2007) — quick
• A methodology for performing global uncertainty and sensitivity analysis in systems biology (2008) — quick
• Modelling evolutionary cell behaviour using neural networks: Application to tumour growth (2009) — quick
• Vascular Adaptation: Pattern Formation and Cross Validation between an Agent Based Model and a Dynamical System (2017) — quick
• The role of single-cell mechanical behaviour and polarity in driving collective cell migration (2020) — quick
• Flocking with a q-fold discrete symmetry: Band-to-lane transition in the active Potts model (2020) — quick
• BioDynaMo: a modular platform for high-performance agent-based simulation (2021) — quick
• A general principle for spontaneous genetic symmetry breaking and pattern formation within cell populations (2021) — quick
• An in-silico Investigation Into the Role of Strain and Structure on Vascular Smooth Muscle Cell Growth (2021) — quick
• Macroevolutionary stability predicts interaction patterns of species in seed dispersal networks (2021) — quick
• A stochastic mathematical model of 4D tumour spheroids with real-time fluorescent cell cycle labelling (2022) — quick
• Dynamic Multiscale Regulation of Perfusion Recovery in Experimental Peripheral Arterial Disease: A Mechanistic Computational Model (2022) — quick
• A novel numerical and artificial intelligence based approach to study anti-angiogenic drugs: Endostatin (2022) — deep
• Toward the Cellular-Scale Simulation of Motor-Driven Cytoskeletal Assemblies (2022) — quick
• NeuroMechFly, a neuromechanical model of adult Drosophila melanogaster (2022) — quick
• Dynamic Mechanism of Phase Variations in Bacteria Based on Multistable Gene Regulatory Networks (2022) — quick
• Active hole formation in epithelioid tissues (2024) — quick
• Discrete and continuous mathematical models of sharp-fronted collective cell migration and invasion (2024) — quick
• Modelling cerebrovascular pathology and the spread of amyloid beta in Alzheimer's disease (2025) — deep
• From reductionism to realism: Holistic mathematical modelling for complex biological systems (2025) — deep
• Topological model selection: a case-study in tumour-induced angiogenesis (2025) — deep
• Personalized multiscale modeling of coronary plaque progression: the interaction between low-density-lipoprotein transport and cellular dynamics (2026) — quick

atherosclerosis (173)

• Differentiation, Maturation, and Proliferation of Macrophages in the Mouse Yolk Sac: A Light-Microscopic, Enzyme-Cytochemical, Immunohistochemical, and Ultrastructural Study (1989) — quick
• Lipid Lowering and Plaque Regression: New Insights Into Prevention of Plaque Disruption and Clinical Events in Coronary Disease (1993) — quick
• Convective mass transfer at the carotid bifurcation (1997) — quick
• Do Plaques Grow Upstream or Downstream? An Angiographic Study in the Femoral Artery (1997) — deep
• In vivo Wall Shear Stress Measured by Magnetic Resonance Velocity Mapping in the Normal Human Abdominal Aorta (1997) — deep
• Oxidized LDL Regulates Macrophage Gene Expression through Ligand Activation of PPARγ (1998) — deep
• Signal Transduction in Arteriosclerosis: Mechanical Stress-Activated MAP Kinases in Vascular Smooth Muscle Cells (Review) (1998) — quick
• Influence of stenosis morphology on flow through severely stenotic vessels: implications for plaque rupture (2000) — deep
• Arterial Remodeling and Coronary Artery Disease: The Concept of 'Dilated' Versus 'Obstructive' Coronary Atherosclerosis (2001) — deep
• Numerical investigation of physiologically realistic pulsatile flow through arterial stenosis (2001) — quick
• A Computational Study on Axisymmetric Abdominal Aortic Aneurysm Models Using Fluid-Structure Interactions Under Pulsatile Flow Conditions (2002) — quick
• Carotid Plaque Ultrasonic Heterogeneity and Severity of Stenosis (2002) — quick
• Lost in transdifferentiation (2004) — quick
• Mechanical, biochemical, and extracellular matrix effects on vascular smooth muscle cell phenotype (2005) — quick
• The role of shear stress in the destabilization of vulnerable plaques and related therapeutic implications (2005) — deep
• The role of shear stress in the pathogenesis of atherosclerosis (2005) — quick
• Early Human Atherosclerosis: Accumulation of Lipid and Proteoglycans in Intimal Thickenings Followed by Macrophage Infiltration (2007) — deep
• High-density lipoprotein protects macrophages from oxidized low-density lipoprotein-induced apoptosis by promoting efflux of 7-ketocholesterol via ABCG1 (2007) — deep
• Phagocytosis in atherosclerosis: Molecular mechanisms and implications for plaque progression and stability (2007) — deep
• Mechanisms of Vascular Smooth Muscle Cell Migration (2007) — quick
• Oxygen mass transfer in a model three-dimensional artery (2008) — quick
• The ATHEROMA (Atorvastatin Therapy: Effects on Reduction of Macrophage Activity) Study — Evaluation Using Ultrasmall Superparamagnetic Iron Oxide-Enhanced Magnetic Resonance Imaging in Carotid Disease (2009) — deep
• Multimodality Imaging of Carotid Artery Plaques: 18F-Fluoro-2-Deoxyglucose Positron Emission Tomography, Computed Tomography, and Magnetic Resonance Imaging (2009) — quick
• In Vivo Validation of a Catheter-Based Near-Infrared Spectroscopy System for Detection of Lipid Core Coronary Plaques: Initial Results of the SPECTACL Study (2009) — deep
• Open problems in computational vascular biomechanics: Hemodynamics and arterial wall mechanics (2009) — deep
• Vascular Lipid Accumulation, Lipoprotein Oxidation, and Macrophage Lipid Uptake in Hypercholesterolemic Zebrafish (2009) — deep
• 3D Critical Plaque Wall Stress Is a Better Predictor of Carotid Plaque Rupture Sites Than Flow Shear Stress: An In Vivo MRI-Based 3D FSI Study (2010) — deep
• Associations of Long-Term and Early Adult Atherosclerosis Risk Factors With Aortic and Mitral Valve Calcium (2010) — deep
• An Immune Response Network Associated with Blood Lipid Levels (2010) — quick
• Crucial Role of Nrf3 in Smooth Muscle Cell Differentiation From Stem Cells (2010) — quick
• Cholesterol Efflux Capacity, High-Density Lipoprotein Function, and Atherosclerosis (2011) — quick
• Computed high concentrations of low-density lipoprotein correlate with plaque locations in human coronary arteries (2011) — quick
• Coronary Artery Wall Shear Stress Is Associated With Progression and Transformation of Atherosclerotic Plaque and Arterial Remodeling in Patients With Coronary Artery Disease (2011) — deep
• Macrophages in the Pathogenesis of Atherosclerosis (2011) — quick
• Numerical simulations of haemodynamic factors and hyperelastic Circumferential Strain/Stress in the ideal and healthy-patient-specific carotid bifurcations for different rheological models (2011) — quick
• Smooth Muscle Cell Differentiation In Vitro: Models and Underlying Molecular Mechanisms (2011) — quick
• Atherosclerosis Screening by Noninvasive Imaging for Cardiovascular Prevention: A Systematic Review (2012) — deep
• Cholesterol Efflux and Atheroprotection: Advancing the Concept of Reverse Cholesterol Transport (2012) — deep
• Association of Coronary Wall Shear Stress With Atherosclerotic Plaque Burden, Composition, and Distribution in Patients With Coronary Artery Disease (2012) — quick
• Does low and oscillatory wall shear stress correlate spatially with early atherosclerosis? A systematic review (2013) — quick
• Atherosclerotic coronary plaque regression and the risk of adverse cardiovascular events: A meta-regression of randomized clinical trials (2013) — quick
• In vivo assessment of the relationship between shear stress and necrotic core in early and advanced coronary artery disease (2013) — deep
• Biomechanical regulation of vascular smooth muscle cell functions: from in vitro to in vivo understanding (2014) — quick
• In vivo detection of high-risk coronary plaques by radiofrequency intravascular ultrasound and cardiovascular outcome: results of the ATHEROREMO-IVUS study (2014) — quick
• Mechanisms of Plaque Formation and Rupture (2014) — quick
• Anti-inflammatory therapies for atherosclerosis (2015) — quick
• Coronary artery disease associated transcription factor TCF21 regulates smooth muscle precursor cells that contribute to the fibrous cap (2015) — deep
• Epigenetic Control of Smooth Muscle Cell Identity and Lineage Memory (2015) — quick
• Role of biomechanical forces in the natural history of coronary atherosclerosis (2016) — quick
• Comprehensive Assessment of Coronary Plaque Progression With Advanced Intravascular Imaging, Physiological Measures, and Wall Shear Stress: A Pilot Double-Blinded Randomized Controlled Clinical Trial of Nebivolol Versus Atenolol in Nonobstructive Coronary Artery Disease (2016) — quick
• Multi-Layer Mechanical Model of Glagov Remodeling in Coronary Arteries: Differences between In-Vivo and Ex-Vivo Measurements (2016) — deep
• Activation of the pluripotency factor OCT4 in smooth muscle cells is atheroprotective (2016) — quick
• Precision medicine in cardiology (2016) — quick
• Stem cell-based therapies to promote angiogenesis in ischemic cardiovascular disease (2016) — quick
• Applications and Limitations of Mouse Models for Understanding Human Atherosclerosis (2017) — quick
• Diagnostic Accuracy of Angiography-Based Quantitative Flow Ratio Measurements for Online Assessment of Coronary Stenosis (2017) — deep
• Evolocumab and Clinical Outcomes in Patients with Cardiovascular Disease (2017) — deep
• Vascular Smooth Muscle Cells and Arterial Stiffening: Relevance in Development, Aging, and Disease (2017) — deep
• Coronary Microvascular Disease: Pathogenic Mechanisms and Therapeutic Options (2018) — deep
• Margination and adhesion of micro- and nanoparticles in the coronary circulation: a step towards optimised drug carrier design (2018) — quick
• Near-infrared spectroscopy-derived lipid core burden index predicts adverse cardiovascular outcome in patients with coronary artery disease during long-term follow-up (2018) — deep
• PCSK9 Inhibitors: Mechanisms of Action, Metabolic Effects, and Clinical Outcomes (2018) — quick
• Atherosclerosis (2019) — quick
• Identification of High-Risk Plaques Destined to Cause Acute Coronary Syndrome Using Coronary Computed Tomographic Angiography and Computational Fluid Dynamics (2019) — quick
• Single-cell analysis of fate-mapped macrophages reveals heterogeneity, including stem-like properties, during atherosclerosis progression and regression (2019) — quick
• Nanoparticle Therapy for Vascular Diseases (2019) — quick
• Evinacumab in Patients with Refractory Hypercholesterolemia (2020) — deep
• Evolocumab reduces LDL-cholesterol levels in FH (2020) — deep
• A Comparison of Two LDL Cholesterol Targets after Ischemic Stroke (2020) — deep
• Loss-of-function genomic variants highlight potential therapeutic targets for cardiovascular disease (2020) — deep
• Microanatomy of the Human Atherosclerotic Plaque by Single-Cell Transcriptomics (2020) — quick
• Regulation of Vascular Calcification by Reactive Oxygen Species (2020) — deep
• A review study on blood in human coronary artery: Numerical approach (2020) — deep
• Role of Vascular Smooth Muscle Cell Plasticity and Interactions in Vessel Wall Inflammation (2020) — deep
• Single-Cell Genomics Reveals a Novel Cell State During Smooth Muscle Cell Phenotypic Switching and Potential Therapeutic Targets for Atherosclerosis in Mouse and Human (2020) — deep
• Switching of vascular cells towards atherogenesis, and other factors contributing to atherosclerosis: a systematic review (2020) — quick
• Coronary Disease-Associated Gene TCF21 Inhibits Smooth Muscle Cell Differentiation by Blocking the Myocardin-Serum Response Factor Pathway (2020) — quick
• Angiographic Quantitative Flow Ratio-Guided Coronary Intervention (FAVOR III China): A Multicentre, Randomised, Sham-Controlled Trial (2021) — deep
• Mechanical programming of arterial smooth muscle cells in health and ageing (2021) — deep
• The changing landscape of atherosclerosis (2021) — quick
• BMP9 and BMP10 Act Directly on Vascular Smooth Muscle Cells for Generation and Maintenance of the Contractile State (2021) — deep
• Atherosclerotic Carotid Plaque Composition and Incident Stroke and Coronary Events (2021) — quick
• Chitinase 3 like 1 is a regulator of smooth muscle cell physiology and atherosclerotic lesion stability (2021) — deep
• Association of Coronary Artery Atherosclerosis With Brain White Matter Hyperintensity (2021) — quick
• Effects of the Haemodynamic Stimulus on the Location of Carotid Plaques Based on a Patient-Specific Mechanobiological Plaque Atheroma Formation Model (2021) — deep
• High-density lipoproteins, reverse cholesterol transport and atherogenesis (2021) — deep
• Interleukin-1β suppression dampens inflammatory leukocyte production and uptake in atherosclerosis (2021) — quick
• Immune cell profiling in atherosclerosis: role in research and precision medicine (2021) — quick
• An in-silico Investigation Into the Role of Strain and Structure on Vascular Smooth Muscle Cell Growth (2021) — quick
• Targeting inflammation in atherosclerosis — from experimental insights to the clinic (2021) — deep
• Two-year plaque level outcomes involving the left anterior descending artery: insights from the Lipid-Rich Plaque study (2021) — quick
• Management of Antithrombotic Therapy After Acute Coronary Syndromes (2021) — deep
• Phenotypic Modulation of Macrophages and Vascular Smooth Muscle Cells in Atherosclerosis—Nitro-Redox Interconnections (2021) — deep
• Nonlinear multiscale analysis of coronary atherosclerotic vulnerable plaque artery: fluid-structural modeling with micromechanics (2021) — quick
• Identification of vulnerable plaques and patients by intracoronary near-infrared spectroscopy and ultrasound (PROSPECT II): a prospective natural history study (2021) — quick
• Mathematical modeling of plaque progression and associated microenvironment: How far from predicting the fate of atherosclerosis? (2021) — quick
• Remodeling of the small caliber coronary vessels in experimental atherosclerosis (2021) — quick
• SIRT6 slows VSMC senescence and atherogenesis (2021) — quick
• SMC-Derived Hyaluronan Modulates Vascular SMC Phenotype in Murine Atherosclerosis (2021) — quick
• Sex-Stratified Gene Regulatory Networks Reveal Female Key Driver Genes of Atherosclerosis Involved in Smooth Muscle Cell Phenotype Switching (2021) — quick
• Targeted delivery of therapeutic agents to the heart (2021) — deep
• Apolipoproteins in vascular biology and atherosclerotic disease (2022) — deep
• Therapeutic strategies targeting inflammation and immunity in atherosclerosis: how to proceed? (2022) — quick
• Atherosclerosis: Recent developments (2022) — quick
• Prevention of atherosclerosis from childhood (2022) — deep
• Blood M2-like Monocyte Polarization Is Associated with Calcific Plaque Phenotype in Stable Coronary Artery Disease: A Sub-Study of SMARTool Clinical Trial (2022) — deep
• Deep learning artificial intelligence framework for multiclass coronary artery disease prediction using combination of conventional risk factors, carotid ultrasound, and intraplaque neovascularization (2022) — quick
• Pathophysiology of Coronary Microvascular Dysfunction (2022) — quick
• COCOMO-ACS Trial Statistical Analysis Plan (2022) — deep
• Cardiorespiratory Fitness and Carotid Intima–Media Thickness in Physically Active Young Adults: CHIEF Atherosclerosis Study (2022) — quick
• Coronary Artery Calcium for Risk Stratification of Sudden Cardiac Death (2022) — deep
• Haemodynamic Wall Shear Stress, Endothelial Permeability and Atherosclerosis—A Triad of Controversy (2022) — quick
• Multi-organ imaging demonstrates the heart-brain-liver axis in UK Biobank participants (2022) — deep
• Macrophage-targeted nanomedicine for the diagnosis and treatment of atherosclerosis (2022) — quick
• Receptor-independent fluid-phase macropinocytosis promotes arterial foam cell formation and atherosclerosis (2022) — quick
• OxLDL induces membrane structure rearrangement leading to biomechanics alteration and migration deficiency in macrophage (2022) — quick
• Predictors of Left Main Coronary Artery Disease in the ISCHEMIA Trial (2022) — deep
• Randomized, Placebo-Controlled Phase 2b Study to Evaluate the Safety and Efficacy of Recombinant Human Lecithin Cholesterol Acyltransferase in Acute ST-Segment–Elevation Myocardial Infarction: Results of REAL-TIMI 63B (2022) — quick
• Race-Dependent Association of High-Density Lipoprotein Cholesterol Levels With Incident Coronary Artery Disease (2022) — deep
• Genetically predicted on-statin LDL response is associated with higher intracerebral haemorrhage risk (2022) — deep
• Effect of statin therapy on muscle symptoms: an individual participant data meta-analysis of large-scale, randomised, double-blind trials (2022) — quick
• Sulfide regulation of cardiovascular function in health and disease (2022) — deep
• Transforming growth factor-β in myocardial disease (2022) — quick
• Evolving concepts of the vulnerable atherosclerotic plaque and the vulnerable patient: implications for patient care and future research (2022) — quick
• Well-Posedness of a Mathematical Model of Diabetic Atherosclerosis (2022) — quick
• Management of Acute Coronary Syndrome in the Older Adult Population: A Scientific Statement From the American Heart Association (2023) — quick
• Roadmap on the use of artificial intelligence for imaging of vulnerable atherosclerotic plaque in coronary arteries (2023) — deep
• Current concepts and novel targets for antiplatelet therapy (2023) — quick
• The age of bone marrow dictates the clonality of smooth muscle-derived cells in atherosclerotic plaques (2023) — quick
• Coronary Flow Reserve, Inflammation, and Myocardial Strain: The CIRT-CFR Trial (2023) — deep
• Systems immunology-based drug repurposing framework to target inflammation in atherosclerosis (2023) — quick
• A high-salt diet promotes atherosclerosis by altering haematopoiesis (2023) — quick
• Novel and future lipid-modulating therapies for the prevention of cardiovascular disease (2023) — quick
• Physiological and pathological roles of lipogenesis (2023) — quick
• A role for lipophagy in atherosclerosis (2023) — quick
• Liraglutide Lowers Endothelial Vascular Cell Adhesion Molecule-1 in Murine Atherosclerosis Independent of Glucose Levels (2023) — deep
• Nanomedicines for cardiovascular disease (2023) — deep
• Radial Wall Strain and Plato's Cave: Are Shadows Enough to Get the Truth? (2023) — deep
• Role of vascular smooth muscle cell clonality in atherosclerosis (2023) — deep
• Noninvasive Detection of Smooth Muscle Cell-Derived Hot Spots to Study Atherosclerosis by PET/MRI in Mice (2023) — deep
• Short-Term Risk Stratification of Non–Flow-Limiting Coronary Stenosis by Angiographically Derived Radial Wall Strain (2023) — deep
• Translational opportunities of single-cell biology in atherosclerosis (2023) — deep
• A stochastic lipid structured model for macrophage dynamics in atherosclerotic plaques (2023) — quick
• Vascular Mechanotransduction (2023) — deep
• World Heart Report 2023: Confronting the World's Number One Killer (2023) — deep
• Advances in Atherosclerosis Theranostics Harnessing Iron Oxide-Based Nanoparticles (2024) — deep
• Role of Antibodies and Their Specificities in Atherosclerotic Cardiovascular Disease (2024) — quick
• Atherosclerosis on a Chip: A 3-Dimensional Microfluidic Model of Early Arterial Events in Human Plaques (2024) — quick
• Atherosclerotic plaque stabilization and regression: a review of clinical evidence (2024) — deep
• Biomechanics-mediated endocytosis in atherosclerosis (2024) — quick
• Management of Coronary Vulnerable Plaque With Medical Therapy or Local Preventive Percutaneous Coronary Intervention (2024) — quick
• Decoding Macrophage Heterogeneity to Unravel Vascular Inflammation as a Path to Precision Medicine (2024) — deep
• Coronary microvascular function and atherosclerotic plaque burden in ischaemia and no obstructive coronary arteries: a secondary analysis of the CorMicA trial (2024) — quick
• Inflammation, Cholesterol, Lipoprotein(a) and 30-Year Cardiovascular Outcomes in Women (2024) — deep
• Lipoprotein(a) levels in a population with clinical atherosclerotic cardiovascular disease in the United States: A subanalysis from the Lp(a)HERITAGE study (2024) — deep
• Nanomedicine-Based Strategies for the Treatment of Vein Graft Disease (2024) — quick
• Nanoparticle-Directed Antioxidant Therapy Can Ameliorate Disease Progression in a Novel, Diet-Inducible Model of Coronary Artery Disease (2024) — deep
• Novel Therapeutics and Upcoming Clinical Trials Targeting Inflammation in Cardiovascular Diseases (2024) — deep
• Optical coherence tomography assessment of the impact of colchicine on non-culprit coronary plaque composition after myocardial infarction (2024) — deep
• Validation and Reproducibility of Total Plaque Thickness in Carotid and Femoral Arteries Using Ultrasound (2024) — quick
• Targeting Unc5b in macrophages drives atherosclerosis regression and pro-resolving immune cell function (2024) — deep
• Combination therapy and drug co-delivery systems for atherosclerosis (2025) — quick
• Endothelium calls macrophages for destruction (2025) — deep
• Atherosclerotic progression at sites of low shear stress is attenuated by myeloid-PlexinD1 deficiency through suppression of classical macrophage polarization (2025) — deep
• Ponatinib, But Not the New Abl-Kinase Inhibitor Asciminib, Activates Platelets, Leukocytes, and Endothelial Cell TNF Signaling to Induce Atherosclerotic Plaque Inflammation, Myocardial Infarction, and Stroke (2025) — deep
• Role of biomechanical factors in plaque rupture and erosion: insight from intravascular imaging based computational modeling (2025) — deep
• The role of hemodynamics in the formation of atherosclerotic plaques (2025) — deep
• Smooth muscle cells in atherosclerosis: essential but overlooked translational perspectives (2025) — quick
• Smooth muscle cell-specific CD47 deletion suppresses atherosclerosis (2025) — deep
• Smooth muscle cell phenotypic modulation during atherosclerosis (2025) — deep
• Cholesterol-Inflammation Fusion Hypothesis in Atherosclerosis: An Evolving Paradigm in Pathogenesis and Therapy (2026) — deep
• Hemodynamics of coronary artery with systolic luminal narrowing (2026) — deep
• Personalized multiscale modeling of coronary plaque progression: the interaction between low-density-lipoprotein transport and cellular dynamics (2026) — quick

cardiac-imaging (2)

• Machine learning in cardiovascular flows modeling: Predicting arterial blood pressure from non-invasive 4D flow MRI data using physics-informed neural networks (2020) — deep
• A wearable cardiac ultrasound imager (2023) — deep

cardiac-mechanics (2)

• Bayesian optimisation for efficient parameter inference in a cardiac mechanics model of the left ventricle (2022) — deep
• Spatial distribution and network morphology of epicardial, endocardial, interstitial, and Purkinje cell-associated elastin fibers in porcine left ventricle (2023) — deep

causal-inference (42)

• Parametric Empirical Bayes Inference: Theory and Applications (1983) — quick
• Do Plaques Grow Upstream or Downstream? An Angiographic Study in the Femoral Artery (1997) — deep
• The ATHEROMA (Atorvastatin Therapy: Effects on Reduction of Macrophage Activity) Study — Evaluation Using Ultrasmall Superparamagnetic Iron Oxide-Enhanced Magnetic Resonance Imaging in Carotid Disease (2009) — deep
• In Vivo Validation of a Catheter-Based Near-Infrared Spectroscopy System for Detection of Lipid Core Coronary Plaques: Initial Results of the SPECTACL Study (2009) — deep
• Associations of Long-Term and Early Adult Atherosclerosis Risk Factors With Aortic and Mitral Valve Calcium (2010) — deep
• An Immune Response Network Associated with Blood Lipid Levels (2010) — quick
• Atherosclerosis Screening by Noninvasive Imaging for Cardiovascular Prevention: A Systematic Review (2012) — deep
• Does low and oscillatory wall shear stress correlate spatially with early atherosclerosis? A systematic review (2013) — quick
• The structure of binding curves and practical identifiability of equilibrium ligand-binding parameters (2017) — quick
• Evolocumab and Clinical Outcomes in Patients with Cardiovascular Disease (2017) — deep
• Structural identifiability of equilibrium ligand-binding parameters (2017) — quick
• Near-infrared spectroscopy-derived lipid core burden index predicts adverse cardiovascular outcome in patients with coronary artery disease during long-term follow-up (2018) — deep
• Emerging Role of Precision Medicine in Cardiovascular Disease (2018) — deep
• Approximate Bayesian model inversion for PDEs with heterogeneous and state-dependent coefficients (2019) — deep
• Artificial intelligence in cardiovascular imaging: state of the art and implications for the imaging cardiologist (2019) — deep
• Evinacumab in Patients with Refractory Hypercholesterolemia (2020) — deep
• Loss-of-function genomic variants highlight potential therapeutic targets for cardiovascular disease (2020) — deep
• High-density lipoproteins, reverse cholesterol transport and atherogenesis (2021) — deep
• Interpretable predictions of cellular behavior (2021) — quick
• Management of Antithrombotic Therapy After Acute Coronary Syndromes (2021) — deep
• Prevention of atherosclerosis from childhood (2022) — deep
• COCOMO-ACS Trial Statistical Analysis Plan (2022) — deep
• Coronary Artery Calcium for Risk Stratification of Sudden Cardiac Death (2022) — deep
• Irish National Diabetic RetinaScreen Programme: report on five rounds of retinopathy screening and screen-positive referrals (INDEAR study report no. 1) (2022) — deep
• Effects of Cuisine-Based Chinese Heart-Healthy Diet in Lowering Blood Pressure Among Adults in China: Multicenter, Single-Blind, Randomized, Parallel Controlled Feeding Trial (2022) — deep
• Gender medicine: effects of sex and gender on cardiovascular disease manifestation and outcomes (2022) — deep
• Multi-organ imaging demonstrates the heart-brain-liver axis in UK Biobank participants (2022) — deep
• Identifying patterns in amyotrophic lateral sclerosis progression from sparse longitudinal data (2022) — deep
• Predictors of Left Main Coronary Artery Disease in the ISCHEMIA Trial (2022) — deep
• A proteomic surrogate for cardiovascular outcomes that is sensitive to multiple mechanisms of change in risk (2022) — deep
• Reviving a failed network through microscopic interventions (2022) — quick
• Genetically predicted on-statin LDL response is associated with higher intracerebral haemorrhage risk (2022) — deep
• Effect of statin therapy on muscle symptoms: an individual participant data meta-analysis of large-scale, randomised, double-blind trials (2022) — quick
• Artificial intelligence in diabetic retinopathy: Bibliometric analysis (2023) — deep
• Coronary Flow Reserve, Inflammation, and Myocardial Strain: The CIRT-CFR Trial (2023) — deep
• Short-Term Risk Stratification of Non–Flow-Limiting Coronary Stenosis by Angiographically Derived Radial Wall Strain (2023) — deep
• World Heart Report 2023: Confronting the World's Number One Killer (2023) — deep
• Designing nanotheranostics with machine learning (2024) — deep
• The Distance Between: An Algorithmic Approach to Comparing Stochastic Models to Time-Series Data (2024) — quick
• Inflammation, Cholesterol, Lipoprotein(a) and 30-Year Cardiovascular Outcomes in Women (2024) — deep
• Lipoprotein(a) levels in a population with clinical atherosclerotic cardiovascular disease in the United States: A subanalysis from the Lp(a)HERITAGE study (2024) — deep
• Optical coherence tomography assessment of the impact of colchicine on non-culprit coronary plaque composition after myocardial infarction (2024) — deep

cell-migration (65)

• Patterns of Cell Division and Cell Movement in the Formation of the Imaginal Nervous System in Drosophila melanogaster (1978) — quick
• Chemo-orientation (1982) — quick
• Oxidized LDL Regulates Macrophage Gene Expression through Ligand Activation of PPARγ (1998) — deep
• Signal Transduction in Arteriosclerosis: Mechanical Stress-Activated MAP Kinases in Vascular Smooth Muscle Cells (Review) (1998) — quick
• Advection–diffusion equations for generalized tactic searching behaviors (1999) — quick
• Signaling Networks: The Origins of Cellular Multitasking (2000) — quick
• Arterial Remodeling and Coronary Artery Disease: The Concept of 'Dilated' Versus 'Obstructive' Coronary Atherosclerosis (2001) — deep
• Human IL-23-producing type 1 macrophages promote but IL-10-producing type 2 macrophages subvert immunity to (myco)bacteria (2004) — quick
• Mechanical, biochemical, and extracellular matrix effects on vascular smooth muscle cell phenotype (2005) — quick
• Early Human Atherosclerosis: Accumulation of Lipid and Proteoglycans in Intimal Thickenings Followed by Macrophage Infiltration (2007) — deep
• Inflammatory monocytes recruited after skeletal muscle injury switch into antiinflammatory macrophages to support myogenesis (2007) — quick
• Phagocytosis in atherosclerosis: Molecular mechanisms and implications for plaque progression and stability (2007) — deep
• Mechanisms of Vascular Smooth Muscle Cell Migration (2007) — quick
• Multi-scale modeling of a wound-healing cell migration assay (2007) — quick
• Modelling evolutionary cell behaviour using neural networks: Application to tumour growth (2009) — quick
• Vascular Lipid Accumulation, Lipoprotein Oxidation, and Macrophage Lipid Uptake in Hypercholesterolemic Zebrafish (2009) — deep
• Modeling cardiac β-adrenergic signaling with normalized-Hill differential equations: comparison with a biochemical model (2010) — quick
• Macrophages in the Pathogenesis of Atherosclerosis (2011) — quick
• Biomechanical regulation of vascular smooth muscle cell functions: from in vitro to in vivo understanding (2014) — quick
• Remodelling the extracellular matrix in development and disease (2014) — deep
• Th1/Th2 paradigm extended: macrophage polarization as an unappreciated pathogen-driven escape mechanism? (2014) — quick
• Tissue-Specific Signals Control Reversible Program of Localization and Functional Polarization of Macrophages (2014) — quick
• Activation of the pluripotency factor OCT4 in smooth muscle cells is atheroprotective (2016) — quick
• Pim1 Kinase Overexpression Enhances ckit+ Cardiac Stem Cell Cardiac Repair Following Myocardial Infarction in Swine (2016) — quick
• Perivascular cell-specific knockout of the stem cell pluripotency gene Oct4 inhibits angiogenesis (2019) — quick
• The role of single-cell mechanical behaviour and polarity in driving collective cell migration (2020) — quick
• Chemical signals from eggs facilitate cryptic female choice in humans (2020) — quick
• Emerging roles of fibroblasts in cardiovascular calcification (2020) — quick
• Switching Behaviour in Vascular Smooth Muscle Cell-Matrix Adhesion During Oscillatory Loading (2020) — quick
• A Multiscale Model to Predict Neuronal Cell Deformation with Varying Extracellular Matrix Stiffness and Topography (2020) — quick
• Role of Vascular Smooth Muscle Cell Plasticity and Interactions in Vessel Wall Inflammation (2020) — deep
• Strong intracellular signal inactivation produces sharper and more robust signaling from cell membrane to nucleus (2020) — quick
• Single-Cell Genomics Reveals a Novel Cell State During Smooth Muscle Cell Phenotypic Switching and Potential Therapeutic Targets for Atherosclerosis in Mouse and Human (2020) — deep
• Coronary Disease-Associated Gene TCF21 Inhibits Smooth Muscle Cell Differentiation by Blocking the Myocardin-Serum Response Factor Pathway (2020) — quick
• BMP9 and BMP10 Act Directly on Vascular Smooth Muscle Cells for Generation and Maintenance of the Contractile State (2021) — deep
• BioDynaMo: a modular platform for high-performance agent-based simulation (2021) — quick
• Chitinase 3 like 1 is a regulator of smooth muscle cell physiology and atherosclerotic lesion stability (2021) — deep
• An in-silico Investigation Into the Role of Strain and Structure on Vascular Smooth Muscle Cell Growth (2021) — quick
• Targeting inflammation in atherosclerosis — from experimental insights to the clinic (2021) — deep
• The Impact of Phenotypic Heterogeneity on Chemotactic Self-Organisation (2022) — quick
• The emergence of spontaneous coordinated epithelial rotation on cylindrical curved surfaces (2022) — quick
• Forced and spontaneous symmetry breaking in cell polarization (2022) — quick
• A mathematical model of immunomodulatory treatment in myocardial infarction (2022) — quick
• Mathematical investigation into the role of macrophage heterogeneity on the temporal and spatio-temporal dynamics of non-small cell lung cancers (2022) — quick
• Receptor-independent fluid-phase macropinocytosis promotes arterial foam cell formation and atherosclerosis (2022) — quick
• Mathematical models of neuronal growth (2022) — quick
• OxLDL induces membrane structure rearrangement leading to biomechanics alteration and migration deficiency in macrophage (2022) — quick
• The age of bone marrow dictates the clonality of smooth muscle-derived cells in atherosclerotic plaques (2023) — quick
• Biochemomechanical Tensegrity Model of Cytoskeletons (2023) — quick
• A cell model about symmetric and asymmetric stem cell division (2023) — quick
• Programming multicellular assembly with synthetic cell adhesion molecules (2023) — quick
• Active hole formation in epithelioid tissues (2024) — quick
• Advances in Atherosclerosis Theranostics Harnessing Iron Oxide-Based Nanoparticles (2024) — deep
• Atherosclerosis on a Chip: A 3-Dimensional Microfluidic Model of Early Arterial Events in Human Plaques (2024) — quick
• Atherosclerotic plaque stabilization and regression: a review of clinical evidence (2024) — deep
• Discrete and continuous mathematical models of sharp-fronted collective cell migration and invasion (2024) — quick
• Structural identifiability analysis of linear reaction–advection–diffusion processes in mathematical biology (2024) — quick
• Targeting Unc5b in macrophages drives atherosclerosis regression and pro-resolving immune cell function (2024) — deep
• Applying Spatiotemporal Modeling of Cell Dynamics to Accelerate Drug Development (2024) — deep
• Ponatinib, But Not the New Abl-Kinase Inhibitor Asciminib, Activates Platelets, Leukocytes, and Endothelial Cell TNF Signaling to Induce Atherosclerotic Plaque Inflammation, Myocardial Infarction, and Stroke (2025) — deep
• Smooth muscle cells in atherosclerosis: essential but overlooked translational perspectives (2025) — quick
• Smooth muscle cell-specific CD47 deletion suppresses atherosclerosis (2025) — deep
• Topological model selection: a case-study in tumour-induced angiogenesis (2025) — deep
• A mechano-immunological framework for lymph node remodeling during inflammation and homeostasis (2026) — quick
• MultiCell: geometric learning in multicellular development (2026) — deep

cell-signaling (35)

• Ultrasensitivity in the mitogen-activated protein kinase cascade (1996) — quick
• Oxidized LDL Regulates Macrophage Gene Expression through Ligand Activation of PPARγ (1998) — deep
• Early Human Atherosclerosis: Accumulation of Lipid and Proteoglycans in Intimal Thickenings Followed by Macrophage Infiltration (2007) — deep
• High-density lipoprotein protects macrophages from oxidized low-density lipoprotein-induced apoptosis by promoting efflux of 7-ketocholesterol via ABCG1 (2007) — deep
• Vascular Lipid Accumulation, Lipoprotein Oxidation, and Macrophage Lipid Uptake in Hypercholesterolemic Zebrafish (2009) — deep
• Macrophages in the Pathogenesis of Atherosclerosis (2011) — quick
• Cholesterol Efflux and Atheroprotection: Advancing the Concept of Reverse Cholesterol Transport (2012) — deep
• Optimal homeostasis necessitates bistable control (2012) — quick
• Stochastic theory of nonequilibrium steady states. Part II: Applications in chemical biophysics (2012) — deep
• Biomechanical regulation of vascular smooth muscle cell functions: from in vitro to in vivo understanding (2014) — quick
• Th1/Th2 paradigm extended: macrophage polarization as an unappreciated pathogen-driven escape mechanism? (2014) — quick
• Modeling stochastic phenotype switching and bet-hedging in bacteria: stochastic nonlinear dynamics and critical state identification (2014) — deep
• Tissue-Specific Signals Control Reversible Program of Localization and Functional Polarization of Macrophages (2014) — quick
• Stochastic Phenotype Transition of a Single Cell in an Intermediate Region of Gene State Switching (2015) — deep
• Chemoinformatics in the New Era: From Molecular Dynamics to Systems Dynamics (2016) — deep
• The structure of binding curves and practical identifiability of equilibrium ligand-binding parameters (2017) — quick
• Structural identifiability of equilibrium ligand-binding parameters (2017) — quick
• Coronary Microvascular Disease: Pathogenic Mechanisms and Therapeutic Options (2018) — deep
• Emerging Role of Precision Medicine in Cardiovascular Disease (2018) — deep
• Single-Cell Genomics Reveals a Novel Cell State During Smooth Muscle Cell Phenotypic Switching and Potential Therapeutic Targets for Atherosclerosis in Mouse and Human (2020) — deep
• A general principle for spontaneous genetic symmetry breaking and pattern formation within cell populations (2021) — quick
• Apolipoproteins in vascular biology and atherosclerotic disease (2022) — deep
• A mathematical model of immunomodulatory treatment in myocardial infarction (2022) — quick
• The nonequilibrium mechanism of noise-enhanced drug synergy in HIV latency reactivation (2022) — deep
• OxLDL induces membrane structure rearrangement leading to biomechanics alteration and migration deficiency in macrophage (2022) — quick
• A proteomic surrogate for cardiovascular outcomes that is sensitive to multiple mechanisms of change in risk (2022) — deep
• Programming multicellular assembly with synthetic cell adhesion molecules (2023) — quick
• Advances in Atherosclerosis Theranostics Harnessing Iron Oxide-Based Nanoparticles (2024) — deep
• Atherosclerotic plaque stabilization and regression: a review of clinical evidence (2024) — deep
• Biomechanics-mediated endocytosis in atherosclerosis (2024) — quick
• Designing nanotheranostics with machine learning (2024) — deep
• The Distance Between: An Algorithmic Approach to Comparing Stochastic Models to Time-Series Data (2024) — quick
• Ponatinib, But Not the New Abl-Kinase Inhibitor Asciminib, Activates Platelets, Leukocytes, and Endothelial Cell TNF Signaling to Induce Atherosclerotic Plaque Inflammation, Myocardial Infarction, and Stroke (2025) — deep
• Engineering a serum response factor superactivator of smooth muscle gene expression with a condensate-forming domain (2025) — deep
• Calibrating tissue level PDE models of ligand dynamics using single cell and spatial transcriptomics data (2026) — deep

clinical-review (2)

• Smart wearable devices in cardiovascular care: where we are and how to move forward (2021) — deep
• Decoding Macrophage Heterogeneity to Unravel Vascular Inflammation as a Path to Precision Medicine (2024) — deep

continuum-mechanics (72)

• Morphometry of pig coronary arterial trees (1993) — quick
• Do Plaques Grow Upstream or Downstream? An Angiographic Study in the Femoral Artery (1997) — deep
• In vivo Wall Shear Stress Measured by Magnetic Resonance Velocity Mapping in the Normal Human Abdominal Aorta (1997) — deep
• Influence of stenosis morphology on flow through severely stenotic vessels: implications for plaque rupture (2000) — deep
• A Computational Study on Axisymmetric Abdominal Aortic Aneurysm Models Using Fluid-Structure Interactions Under Pulsatile Flow Conditions (2002) — quick
• One-dimensional models for blood flow in arteries (2003) — quick
• Mechanical, biochemical, and extracellular matrix effects on vascular smooth muscle cell phenotype (2005) — quick
• Simulation of the human intracranial arterial tree (2009) — quick
• Open problems in computational vascular biomechanics: Hemodynamics and arterial wall mechanics (2009) — deep
• Vascular Extracellular Matrix and Arterial Mechanics (2009) — deep
• 3D Critical Plaque Wall Stress Is a Better Predictor of Carotid Plaque Rupture Sites Than Flow Shear Stress: An In Vivo MRI-Based 3D FSI Study (2010) — deep
• Arterial spin labeling in neuroimaging (2010) — deep
• Computed high concentrations of low-density lipoprotein correlate with plaque locations in human coronary arteries (2011) — quick
• Coronary Artery Wall Shear Stress Is Associated With Progression and Transformation of Atherosclerotic Plaque and Arterial Remodeling in Patients With Coronary Artery Disease (2011) — deep
• Numerical simulations of haemodynamic factors and hyperelastic Circumferential Strain/Stress in the ideal and healthy-patient-specific carotid bifurcations for different rheological models (2011) — quick
• Association of Coronary Wall Shear Stress With Atherosclerotic Plaque Burden, Composition, and Distribution in Patients With Coronary Artery Disease (2012) — quick
• Rarefaction and blood pressure in systemic and pulmonary arteries (2012) — deep
• Does low and oscillatory wall shear stress correlate spatially with early atherosclerosis? A systematic review (2013) — quick
• In vivo assessment of the relationship between shear stress and necrotic core in early and advanced coronary artery disease (2013) — deep
• Role of biomechanical forces in the natural history of coronary atherosclerosis (2016) — quick
• Multi-Layer Mechanical Model of Glagov Remodeling in Coronary Arteries: Differences between In-Vivo and Ex-Vivo Measurements (2016) — deep
• A morphoelastic model for dermal wound closure (2016) — quick
• Simulating muscular thin films using thermal contraction capabilities in finite element analysis tools (2016) — quick
• Margination and adhesion of micro- and nanoparticles in the coronary circulation: a step towards optimised drug carrier design (2018) — quick
• Physics-informed neural networks: A deep learning framework for solving forward and inverse problems involving nonlinear partial differential equations (2019) — deep
• A Multiscale Model to Predict Neuronal Cell Deformation with Varying Extracellular Matrix Stiffness and Topography (2020) — quick
• A review study on blood in human coronary artery: Numerical approach (2020) — deep
• Tutorial: Understanding the transport, deposition, and translocation of particles in human respiratory systems using Computational Fluid-Particle Dynamics and Physiologically Based Toxicokinetic models (2021) — quick
• Computational model of damage-induced growth in soft biological tissues considering the mechanobiology of healing (2021) — deep
• Effects of the Haemodynamic Stimulus on the Location of Carotid Plaques Based on a Patient-Specific Mechanobiological Plaque Atheroma Formation Model (2021) — deep
• Explicit physics-informed neural networks for nonlinear closure: The case of transport in tissues (2021) — deep
• Longitudinal histomechanical heterogeneity of the internal thoracic artery (2021) — quick
• Processing and reprocessing liquid crystal elastomer actuators (2021) — quick
• Nonlinear multiscale analysis of coronary atherosclerotic vulnerable plaque artery: fluid-structural modeling with micromechanics (2021) — quick
• Mathematical modeling of plaque progression and associated microenvironment: How far from predicting the fate of atherosclerosis? (2021) — quick
• Bayesian optimisation for efficient parameter inference in a cardiac mechanics model of the left ventricle (2022) — deep
• Chiral Topographic Instability in Shrinking Spheres (2022) — quick
• An Energy Method for the Bifurcation Analysis of Necking (2022) — quick
• The emergence of spontaneous coordinated epithelial rotation on cylindrical curved surfaces (2022) — quick
• Forced and spontaneous symmetry breaking in cell polarization (2022) — quick
• Haemodynamic Wall Shear Stress, Endothelial Permeability and Atherosclerosis—A Triad of Controversy (2022) — quick
• Mathematical models of neuronal growth (2022) — quick
• Mechanical-Electrochemical Coupling Theory of Bacterial Cells (2022) — quick
• Stress-free morphing by means of compatible distortions (2022) — quick
• Three-Dimensional Chiral Morphodynamics of Chemomechanical Active Shells (2022) — quick
• The Universal Program of Nonlinear Hyperelasticity (2022) — quick
• Biochemomechanical Tensegrity Model of Cytoskeletons (2023) — quick
• Minimal Morphoelastic Models of Solid Tumour Spheroids: A Tutorial (2023) — quick
• Programming multicellular assembly with synthetic cell adhesion molecules (2023) — quick
• Stiffness sensing by smooth muscle cells: Continuum mechanics modeling of the acto-myosin role (2023) — deep
• Active hole formation in epithelioid tissues (2024) — quick
• Multiscale computational modeling of arterial micromechanics: A review (2024) — quick
• Atherosclerotic plaque stabilization and regression: a review of clinical evidence (2024) — deep
• Biomechanics-mediated endocytosis in atherosclerosis (2024) — quick
• Mechanics of elliptical interlocking sutures in biological interfaces (2024) — quick
• Mechanochemical Dynamics of Collective Cells and Hierarchical Topological Defects in Multicellular Lumens (2024) — quick
• Applying Spatiotemporal Modeling of Cell Dynamics to Accelerate Drug Development (2024) — deep
• Modelling cerebrovascular pathology and the spread of amyloid beta in Alzheimer's disease (2025) — deep
• Bioinspired Strategy for Controlling Crack Network Morphology on Curved Films (2025) — quick
• Fiber recruitment drives a phase transition of cell polarization at a critical cell spacing in matrix-mediated tissue remodeling (2025) — deep
• From reductionism to realism: Holistic mathematical modelling for complex biological systems (2025) — deep
• Multiscale Kinematic Growth Coupled With Mechanosensitive Systems Biology in Open-Source Software (2025) — quick
• A multiscale theory for network advection-reaction-diffusion (2025) — quick
• Role of biomechanical factors in plaque rupture and erosion: insight from intravascular imaging based computational modeling (2025) — deep
• The role of hemodynamics in the formation of atherosclerotic plaques (2025) — deep
• Biomechanics of soft biological tissues and organs, mechanobiology, homeostasis and modelling (2025) — deep
• Modeling the biomechanical properties of soft biological tissues: Constitutive theories (2025) — quick
• The mechanics and physics of tofu: understanding hydrated soft solids through feature networks (2025) — deep
• Hemodynamics of coronary artery with systolic luminal narrowing (2026) — deep
• A mechano-immunological framework for lymph node remodeling during inflammation and homeostasis (2026) — quick
• Personalized multiscale modeling of coronary plaque progression: the interaction between low-density-lipoprotein transport and cellular dynamics (2026) — quick
• PerSiVal: deep neural networks for pervasive simulation of an activation-driven continuum-mechanical upper limb model (2026) — quick

deep-learning (14)

• Artificial intelligence in cardiovascular imaging: state of the art and implications for the imaging cardiologist (2019) — deep
• Generative Adversarial Networks and Its Applications in Biomedical Informatics (2020) — deep
• Machine learning in cardiovascular flows modeling: Predicting arterial blood pressure from non-invasive 4D flow MRI data using physics-informed neural networks (2020) — deep
• Physics-informed machine learning (2021) — deep
• Deep learning artificial intelligence framework for multiclass coronary artery disease prediction using combination of conventional risk factors, carotid ultrasound, and intraplaque neovascularization (2022) — quick
• Multilingual Translation for Zero-Shot Biomedical Classification Using BioTranslator (2023) — deep
• A wearable cardiac ultrasound imager (2023) — deep
• The future of machine learning for small-molecule drug discovery will be driven by data (2024) — deep
• From reductionism to realism: Holistic mathematical modelling for complex biological systems (2025) — deep
• Towards multimodal foundation models in molecular cell biology (2025) — deep
• Quantitative characterization of cell niches in spatially resolved omics data (2025) — deep
• GeoPT: Scaling Physics Simulation via Lifted Geometric Pre-Training (2026) — deep
• MultiCell: geometric learning in multicellular development (2026) — deep
• Neural Cellular Automata: From Cells to Pixels (2026) — deep

digital-twin (1)

• Integrating machine learning and multiscale modeling—perspectives, challenges, and opportunities in the biological, biomedical, and behavioral sciences (2019) — deep

finite-element (26)

• One-dimensional models for blood flow in arteries (2003) — quick
• Simulation of the human intracranial arterial tree (2009) — quick
• Open problems in computational vascular biomechanics: Hemodynamics and arterial wall mechanics (2009) — deep
• 3D Critical Plaque Wall Stress Is a Better Predictor of Carotid Plaque Rupture Sites Than Flow Shear Stress: An In Vivo MRI-Based 3D FSI Study (2010) — deep
• Numerical simulations of haemodynamic factors and hyperelastic Circumferential Strain/Stress in the ideal and healthy-patient-specific carotid bifurcations for different rheological models (2011) — quick
• In vivo assessment of the relationship between shear stress and necrotic core in early and advanced coronary artery disease (2013) — deep
• Role of biomechanical forces in the natural history of coronary atherosclerosis (2016) — quick
• Simulating muscular thin films using thermal contraction capabilities in finite element analysis tools (2016) — quick
• Probabilistic numerical methods for PDE-constrained Bayesian inverse problems (2017) — quick
• Margination and adhesion of micro- and nanoparticles in the coronary circulation: a step towards optimised drug carrier design (2018) — quick
• Approximate Bayesian model inversion for PDEs with heterogeneous and state-dependent coefficients (2019) — deep
• A Multiscale Model to Predict Neuronal Cell Deformation with Varying Extracellular Matrix Stiffness and Topography (2020) — quick
• Computational model of damage-induced growth in soft biological tissues considering the mechanobiology of healing (2021) — deep
• Effects of the Haemodynamic Stimulus on the Location of Carotid Plaques Based on a Patient-Specific Mechanobiological Plaque Atheroma Formation Model (2021) — deep
• Nonlinear multiscale analysis of coronary atherosclerotic vulnerable plaque artery: fluid-structural modeling with micromechanics (2021) — quick
• Bayesian optimisation for efficient parameter inference in a cardiac mechanics model of the left ventricle (2022) — deep
• Stress-free morphing by means of compatible distortions (2022) — quick
• Stiffness sensing by smooth muscle cells: Continuum mechanics modeling of the acto-myosin role (2023) — deep
• Multiscale computational modeling of arterial micromechanics: A review (2024) — quick
• Mechanics of elliptical interlocking sutures in biological interfaces (2024) — quick
• In-Vivo Left Atrial Surface Motion and Strain Measurement Using Novel Mesh Regularized Image Block Matching Method with 4D-CTA (2024) — quick
• Multiscale Kinematic Growth Coupled With Mechanosensitive Systems Biology in Open-Source Software (2025) — quick
• Role of biomechanical factors in plaque rupture and erosion: insight from intravascular imaging based computational modeling (2025) — deep
• The role of hemodynamics in the formation of atherosclerotic plaques (2025) — deep
• Hemodynamics of coronary artery with systolic luminal narrowing (2026) — deep
• PerSiVal: deep neural networks for pervasive simulation of an activation-driven continuum-mechanical upper limb model (2026) — quick

finite-volume (13)

• Convective mass transfer at the carotid bifurcation (1997) — quick
• Influence of stenosis morphology on flow through severely stenotic vessels: implications for plaque rupture (2000) — deep
• Numerical investigation of physiologically realistic pulsatile flow through arterial stenosis (2001) — quick
• A Computational Study on Axisymmetric Abdominal Aortic Aneurysm Models Using Fluid-Structure Interactions Under Pulsatile Flow Conditions (2002) — quick
• Oxygen mass transfer in a model three-dimensional artery (2008) — quick
• Computed high concentrations of low-density lipoprotein correlate with plaque locations in human coronary arteries (2011) — quick
• Coronary Artery Wall Shear Stress Is Associated With Progression and Transformation of Atherosclerotic Plaque and Arterial Remodeling in Patients With Coronary Artery Disease (2011) — deep
• Rarefaction and blood pressure in systemic and pulmonary arteries (2012) — deep
• A review study on blood in human coronary artery: Numerical approach (2020) — deep
• Tutorial: Understanding the transport, deposition, and translocation of particles in human respiratory systems using Computational Fluid-Particle Dynamics and Physiologically Based Toxicokinetic models (2021) — quick
• Discrete and continuous mathematical models of sharp-fronted collective cell migration and invasion (2024) — quick
• Hemodynamics of coronary artery with systolic luminal narrowing (2026) — deep
• Personalized multiscale modeling of coronary plaque progression: the interaction between low-density-lipoprotein transport and cellular dynamics (2026) — quick

machine-learning (9)

• Integrating machine learning and multiscale modeling—perspectives, challenges, and opportunities in the biological, biomedical, and behavioral sciences (2019) — deep
• Moving towards reproducible machine learning (2021) — deep
• Multilingual Translation for Zero-Shot Biomedical Classification Using BioTranslator (2023) — deep
• The future of machine learning for small-molecule drug discovery will be driven by data (2024) — deep
• Towards multimodal foundation models in molecular cell biology (2025) — deep
• Quantitative characterization of cell niches in spatially resolved omics data (2025) — deep
• GeoPT: Scaling Physics Simulation via Lifted Geometric Pre-Training (2026) — deep
• Neural cellular automata: Applications to biology and beyond classical AI (2026) — deep
• Neural Cellular Automata: From Cells to Pixels (2026) — deep

mechanobiology (5)

• Spatial distribution and network morphology of epicardial, endocardial, interstitial, and Purkinje cell-associated elastin fibers in porcine left ventricle (2023) — deep
• Fiber recruitment drives a phase transition of cell polarization at a critical cell spacing in matrix-mediated tissue remodeling (2025) — deep
• Atherosclerotic progression at sites of low shear stress is attenuated by myeloid-PlexinD1 deficiency through suppression of classical macrophage polarization (2025) — deep
• Biomechanics of soft biological tissues and organs, mechanobiology, homeostasis and modelling (2025) — deep
• Smooth muscle cell phenotypic modulation during atherosclerosis (2025) — deep

multiscale-modeling (5)

• Chemoinformatics in the New Era: From Molecular Dynamics to Systems Dynamics (2016) — deep
• Integrating machine learning and multiscale modeling—perspectives, challenges, and opportunities in the biological, biomedical, and behavioral sciences (2019) — deep
• Physics-informed machine learning (2021) — deep
• Neural cellular automata: Applications to biology and beyond classical AI (2026) — deep
• Calibrating tissue level PDE models of ligand dynamics using single cell and spatial transcriptomics data (2026) — deep

parameter-inference (5)

• Probabilistic Inference on Noisy Time Series (PINTS) (2019) — quick
• Physics-informed machine learning (2021) — deep
• Bayesian optimisation for efficient parameter inference in a cardiac mechanics model of the left ventricle (2022) — deep
• Parameter Identifiability Under Limited Experimental Data in Age-Structured Models of the Cell Cycle (2025) — deep
• Calibrating tissue level PDE models of ligand dynamics using single cell and spatial transcriptomics data (2026) — deep

physics-informed-neural-network (5)

• Integrating machine learning and multiscale modeling—perspectives, challenges, and opportunities in the biological, biomedical, and behavioral sciences (2019) — deep
• Physics-informed machine learning (2021) — deep
• Discovering governing equations in discrete systems using PINNs (2023) — deep
• Solving Heterogeneous Agent Models with Physics-informed Neural Networks (2025) — quick
• The mechanics and physics of tofu: understanding hydrated soft solids through feature networks (2025) — deep

reaction-diffusion (27)

• Advection–diffusion equations for generalized tactic searching behaviors (1999) — quick
• Multi-scale modeling of a wound-healing cell migration assay (2007) — quick
• Arterial spin labeling in neuroimaging (2010) — deep
• Physics-informed neural networks: A deep learning framework for solving forward and inverse problems involving nonlinear partial differential equations (2019) — deep
• Effects of the Haemodynamic Stimulus on the Location of Carotid Plaques Based on a Patient-Specific Mechanobiological Plaque Atheroma Formation Model (2021) — deep
• Explicit physics-informed neural networks for nonlinear closure: The case of transport in tissues (2021) — deep
• A general principle for spontaneous genetic symmetry breaking and pattern formation within cell populations (2021) — quick
• A stochastic mathematical model of 4D tumour spheroids with real-time fluorescent cell cycle labelling (2022) — quick
• Bidirectional, unlike unidirectional transport, allows transporting axonal cargos against their concentration gradient (2022) — quick
• The Impact of Phenotypic Heterogeneity on Chemotactic Self-Organisation (2022) — quick
• Coupled reaction-diffusion transport into a core-shell geometry (2022) — quick
• Forced and spontaneous symmetry breaking in cell polarization (2022) — quick
• A mathematical model of immunomodulatory treatment in myocardial infarction (2022) — quick
• Mathematical investigation into the role of macrophage heterogeneity on the temporal and spatio-temporal dynamics of non-small cell lung cancers (2022) — quick
• Mathematical models of neuronal growth (2022) — quick
• Dynamic Mechanism of Phase Variations in Bacteria Based on Multistable Gene Regulatory Networks (2022) — quick
• Reviving a failed network through microscopic interventions (2022) — quick
• Three-Dimensional Chiral Morphodynamics of Chemomechanical Active Shells (2022) — quick
• Biochemomechanical Tensegrity Model of Cytoskeletons (2023) — quick
• A cell model about symmetric and asymmetric stem cell division (2023) — quick
• Minimal Morphoelastic Models of Solid Tumour Spheroids: A Tutorial (2023) — quick
• Discrete and continuous mathematical models of sharp-fronted collective cell migration and invasion (2024) — quick
• Mechanochemical Dynamics of Collective Cells and Hierarchical Topological Defects in Multicellular Lumens (2024) — quick
• Structural identifiability analysis of linear reaction–advection–diffusion processes in mathematical biology (2024) — quick
• A multiscale theory for network advection-reaction-diffusion (2025) — quick
• The role of hemodynamics in the formation of atherosclerotic plaques (2025) — deep
• A quantitative model for the emergent population dynamics of the melanoma MITF rheostat (2026) — quick

regulatory-inference (1)

• Multi-omics single-cell data integration and regulatory inference with graph-linked embedding (2022) — deep

reproducibility (1)

• Moving towards reproducible machine learning (2021) — deep

single-cell-multiomics (5)

• Multi-omics single-cell data integration and regulatory inference with graph-linked embedding (2022) — deep
• Translational opportunities of single-cell biology in atherosclerosis (2023) — deep
• Decoding Macrophage Heterogeneity to Unravel Vascular Inflammation as a Path to Precision Medicine (2024) — deep
• Towards multimodal foundation models in molecular cell biology (2025) — deep
• Quantitative characterization of cell niches in spatially resolved omics data (2025) — deep

stochastic-process (35)

• Parametric Empirical Bayes Inference: Theory and Applications (1983) — quick
• Advection–diffusion equations for generalized tactic searching behaviors (1999) — quick
• Aging and immortality in a cell proliferation model (2007) — quick
• A methodology for performing global uncertainty and sensitivity analysis in systems biology (2008) — quick
• Reconstruction of potential energy profiles from multiple rupture time distributions (2010) — quick
• Stochastic theory of nonequilibrium steady states. Part II: Applications in chemical biophysics (2012) — deep
• Stochastic theory of nonequilibrium steady states and its applications. Part I (2012) — deep
• Modeling stochastic phenotype switching and bet-hedging in bacteria: stochastic nonlinear dynamics and critical state identification (2014) — deep
• Stochastic Phenotype Transition of a Single Cell in an Intermediate Region of Gene State Switching (2015) — deep
• Probabilistic numerical methods for PDE-constrained Bayesian inverse problems (2017) — quick
• Well-posedness and large deviations for a class of SPDEs with Lévy noise (2017) — quick
• Approximate Bayesian model inversion for PDEs with heterogeneous and state-dependent coefficients (2019) — deep
• Well-posedness and invariant measures for a class of stochastic 3D Navier-Stokes equations with damping driven by jump noise (2019) — quick
• Chemical signals from eggs facilitate cryptic female choice in humans (2020) — quick
• Flocking with a q-fold discrete symmetry: Band-to-lane transition in the active Potts model (2020) — quick
• Information transmission from NFkB signaling dynamics to gene expression (2020) — quick
• Strong intracellular signal inactivation produces sharper and more robust signaling from cell membrane to nucleus (2020) — quick
• Macroevolutionary stability predicts interaction patterns of species in seed dispersal networks (2021) — quick
• A stochastic mathematical model of 4D tumour spheroids with real-time fluorescent cell cycle labelling (2022) — quick
• A DNA-structured mathematical model of cell-cycle progression in cyclic hypoxia (2022) — quick
• Irish National Diabetic RetinaScreen Programme: report on five rounds of retinopathy screening and screen-positive referrals (INDEAR study report no. 1) (2022) — deep
• Energy landscape decomposition for cell differentiation with proliferation effect (2022) — quick
• Identifying patterns in amyotrophic lateral sclerosis progression from sparse longitudinal data (2022) — deep
• The nonequilibrium mechanism of noise-enhanced drug synergy in HIV latency reactivation (2022) — quick
• The nonequilibrium mechanism of noise-enhanced drug synergy in HIV latency reactivation (2022) — deep
• Predictors of Left Main Coronary Artery Disease in the ISCHEMIA Trial (2022) — deep
• Reviving a failed network through microscopic interventions (2022) — quick
• A stochastic lipid structured model for macrophage dynamics in atherosclerotic plaques (2023) — quick
• A target-cell limited model can reproduce influenza infection dynamics in hosts with differing immune responses (2023) — deep
• Constructing custom thermodynamics using deep learning (2024) — quick
• Discrete and continuous mathematical models of sharp-fronted collective cell migration and invasion (2024) — quick
• The Distance Between: An Algorithmic Approach to Comparing Stochastic Models to Time-Series Data (2024) — quick
• Optical coherence tomography assessment of the impact of colchicine on non-culprit coronary plaque composition after myocardial infarction (2024) — deep
• Topological model selection: a case-study in tumour-induced angiogenesis (2025) — deep
• A quantitative model for the emergent population dynamics of the melanoma MITF rheostat (2026) — quick

variational-autoencoder (1)

• Multi-omics single-cell data integration and regulatory inference with graph-linked embedding (2022) — deep

vascular-G&R (37)

• Morphometry of pig coronary arterial trees (1993) — quick
• Morphometry of pig coronary venous system (1994) — quick
• Arterial Remodeling and Coronary Artery Disease: The Concept of 'Dilated' Versus 'Obstructive' Coronary Atherosclerosis (2001) — deep
• One-dimensional models for blood flow in arteries (2003) — quick
• Lost in transdifferentiation (2004) — quick
• The role of shear stress in the destabilization of vulnerable plaques and related therapeutic implications (2005) — deep
• Open problems in computational vascular biomechanics: Hemodynamics and arterial wall mechanics (2009) — deep
• Vascular Extracellular Matrix and Arterial Mechanics (2009) — deep
• Rarefaction and blood pressure in systemic and pulmonary arteries (2012) — deep
• Biomechanical regulation of vascular smooth muscle cell functions: from in vitro to in vivo understanding (2014) — quick
• Remodelling the extracellular matrix in development and disease (2014) — deep
• Comprehensive Assessment of Coronary Plaque Progression With Advanced Intravascular Imaging, Physiological Measures, and Wall Shear Stress: A Pilot Double-Blinded Randomized Controlled Clinical Trial of Nebivolol Versus Atenolol in Nonobstructive Coronary Artery Disease (2016) — quick
• Multi-Layer Mechanical Model of Glagov Remodeling in Coronary Arteries: Differences between In-Vivo and Ex-Vivo Measurements (2016) — deep
• Simulating muscular thin films using thermal contraction capabilities in finite element analysis tools (2016) — quick
• Vascular Smooth Muscle Cells and Arterial Stiffening: Relevance in Development, Aging, and Disease (2017) — deep
• Vascular Adaptation: Pattern Formation and Cross Validation between an Agent Based Model and a Dynamical System (2017) — quick
• Coronary Microvascular Disease: Pathogenic Mechanisms and Therapeutic Options (2018) — deep
• Mechanical programming of arterial smooth muscle cells in health and ageing (2021) — deep
• Computational model of damage-induced growth in soft biological tissues considering the mechanobiology of healing (2021) — deep
• Cellular and molecular pathobiology of heart failure with preserved ejection fraction (2021) — deep
• Longitudinal histomechanical heterogeneity of the internal thoracic artery (2021) — quick
• An in-silico Investigation Into the Role of Strain and Structure on Vascular Smooth Muscle Cell Growth (2021) — quick
• Phenotypic Modulation of Macrophages and Vascular Smooth Muscle Cells in Atherosclerosis—Nitro-Redox Interconnections (2021) — deep
• Remodeling of the small caliber coronary vessels in experimental atherosclerosis (2021) — quick
• SMC-Derived Hyaluronan Modulates Vascular SMC Phenotype in Murine Atherosclerosis (2021) — quick
• Coupled reaction-diffusion transport into a core-shell geometry (2022) — quick
• Dynamic Multiscale Regulation of Perfusion Recovery in Experimental Peripheral Arterial Disease: A Mechanistic Computational Model (2022) — quick
• A novel numerical and artificial intelligence based approach to study anti-angiogenic drugs: Endostatin (2022) — deep
• Sulfide regulation of cardiovascular function in health and disease (2022) — deep
• Role of vascular smooth muscle cell clonality in atherosclerosis (2023) — deep
• Stiffness sensing by smooth muscle cells: Continuum mechanics modeling of the acto-myosin role (2023) — deep
• Vascular Mechanotransduction (2023) — deep
• Multiscale computational modeling of arterial micromechanics: A review (2024) — quick
• Multiscale Kinematic Growth Coupled With Mechanosensitive Systems Biology in Open-Source Software (2025) — quick
• Smooth muscle cells in atherosclerosis: essential but overlooked translational perspectives (2025) — quick
• Biomechanics of soft biological tissues and organs, mechanobiology, homeostasis and modelling (2025) — deep
• Smooth muscle cell phenotypic modulation during atherosclerosis (2025) — deep

wearable-ultrasound (1)

• A wearable cardiac ultrasound imager (2023) — deep

wearables-cardio (1)

• Smart wearable devices in cardiovascular care: where we are and how to move forward (2021) — deep