DB
Daniel A. Beard
Models, BiologicalModels, CardiovascularMyocardiumComputer SimulationEnergy MetabolismHeart FailurephysiologyCoronary CirculationmitochondriaOxidative Phosphorylation
On Valency
published · living versionsW_k82ujjvv·v1 · currentpublished
Arterial stiffening provides sufficient explanation for primary hypertension
with Klas H. Pettersen, Scott M. Bugenhagen, Javaid Nauman, Stig W. Omholt
1 version
Preprints & journals
220 papers in the corpus · 1995–2026Identification of digital twins to guide interpretable AI for diagnosis and prognosis in heart failure.39966509 · Gu, Feng, Meyer, Andrew J, Ježek, Filip et al.2026 · 32 citationsNPJ digital medicine. 2025;8(1):110
Kinetic modeling of mant-ATP turnover to interpret the biochemically defined myosin SRX state.41560349 · Ježek, Filip, Han, Seungyeon Julia, Vander Roest, Alison S et al.2026 · 0 citationsBiophysical journal. 2026;125(18):5121-5132
Shape Analysis of Coronary Flow Waveforms using Singular Value Decomposition10.64898/2026.08.26.743980v1 · Sturgess, V. E., Schenk, N. A., Ziegele, J. W. et al.2026 · 0 citationsbioRxiv
Modeling calcium-dependent passive cardiac mechanics in the mouse.42297266 · Zhang, Will, Jezek, Filip, Baker, Anthony J et al.2026 · 0 citationsActa biomaterialia. 2026;219:370-380
Functional consequences of diminished myocardial oxygen delivery per beat in experimental heart failure.42154029 · Essajee, Salman I, Eden, Matthew J, Sturgess, Victoria E et al.2026 · 1 citationBasic research in cardiology. 2026;121(4):711-723
A microstructurally motivated framework to study autoregulation in the coronary circulation.42303295 · Eden, Matthew J, Gharahi, Hamidreza, Sturgess, Victoria E et al.2026 · 1 citationThe Journal of physiology. 2026;604(14):5892-5925
Multiscale computational modeling of the cardiopulmonary consequences of postnatal hyperoxia with implications for preterm-born children.41910804 · Kim, Salla M, Jezek, Filip, Oomen, Pim J A et al.2026 · 0 citationsBiomechanics and modeling in mechanobiology. 2026;25(2)
Early targets and progressive deterioration in cardiac performance in response to chronically modified cardiac troponin I.41711592 · Ravichandran, Vani S, Schatz, Tabea M, Lavey, Emily et al.2026 · 0 citationsAmerican journal of physiology. Heart and circulatory physiology. 2026;330(4):H1176-H1194
Dynamic balance of myoplasmic energetics, redox state and protons in a fast-twitch oxidative glycolytic skeletal muscle fibre.41689567 · Disch, Jana, Jeneson, Jeroen A L, Beard, Daniel A et al.2026 · 4 citationsThe Journal of physiology. 2026;604(5):1840-1871
Physiology-Informed Digital Twin-AI Framework Predicts Pacing Therapy Response in HFpEF10.64898/2026.03.06.26347199v1 · Gu, F., Infeld, M., Schenk, N. A. et al.2026 · 0 citationsmedRxiv
Systems Analysis of Carboxylate Transport and Oxidation Pathways in Cardiac Mitochondria10.64898/2026.02.25.708012v1 · Collins, N. L., Dasika, S., Van den Bergh, F. et al.2026 · 0 citationsbioRxiv
Kinetic Modeling of mant-ATP Turnover to Interpret the Biochemically Defined Myosin SRX State10.1101/2025.08.06.667936v2 · Jezek, F., Han, S. J., Vander Roest, A. S. et al.2025 · 0 citationsbioRxiv
Impairment of local metabolic coronary control involves perfusion-contraction matching not supply-demand imbalance.41266900 · Essajee, Salman I, Dick, Gregory M, Tucker, Selina M et al.2026 · 4 citationsBasic research in cardiology. 2026;121(1):23-37
Multiscale Computational Modeling of the Cardiopulmonary Consequences of Postnatal Hyperoxia with Implications for Preterm Born Children10.1101/2025.10.01.679825v2 · Kim, S. M., Jezek, F., Oomen, P. J. et al.2025 · 0 citationsbioRxiv
A Microstructurally-Motivated Framework to Study Autoregulation in the Coronary Circulation10.64898/2025.12.02.691683v1 · Eden, M. J., Gharahi, H., Sturgess, V. E. et al.2025 · 1 citationbioRxiv
Immersion-Based Clearing and Autofluorescence Quenching in Myocardial Tissue.41194377 · Sturgess, Victoria E, Korovesis, Nadia K, Uceda, Domingo E et al.2025 · 0 citationsMicrocirculation (New York, N.Y. : 1994). 2025;32(8):e70034
Machine learning-based phenotyping and assessment of treatment responses in heart failure with preserved ejection fraction.41181830 · Li, Rui, Liu, Yijun, Zhao, Zhen et al.2025 · 21 citationsEClinicalMedicine. 2025;88:103462
Theoretical analysis of power-law stress relaxation and calcium-dependent passive mechanics in cardiac muscle.40846493 · Ježek, Filip, Baker, Anthony J, Nordsletten, David A et al.2025 · 1 citationThe Journal of physiology. 2025;603(19):5369-5385
Ca2+ increases cardiac muscle viscoelasticity independent of active force development.40652326 · Baker, Anthony J, Li, On Yeung, Ježek, Filip et al.2025 · 2 citationsBiophysical journal. 2025;124(16):2698-2707
Potassium as an electro-metabolic signal for local coronary vasodilation.40560298 · Tune, Johnathan D, Duncker, Dirk J, Goodwill, Adam G et al.2025 · 2 citationsBasic research in cardiology. 2025;120(4):815-833
Development of a Quantitative Systems Pharmacology Model to Interrogate Mitochondrial Metabolism in Heart Failure10.1101/2025.07.08.663697v1 · Meyer, L. F., Nourabadi, N., Musante, C. J. et al.2025 · 1 citationbioRxiv
Dynamic balance of myoplasmic energetics and redox state in a fast-twitch oxidative glycolytic skeletal muscle fiber10.1101/2025.07.03.662956v1 · Disch, J., Jeneson, J. A. L., Beard, D. A. et al.2025 · 0 citationsbioRxiv
An Improved Algorithm and Its Parallel Implementation for Solving a General Blood-Tissue Transport and Metabolism Model.20161089 · Xie, Dexuan, Dash, Ranjan K, Beard, Daniel A2025 · 3 citationsJournal of computational physics. 2009;228(20):7850-7861
A Hands-On Introduction to Data Analytics for Biomedical Research.40199731 · Pickard, Joshua, Sturgess, Victoria E, McDonald, Katherine O et al.2025 · 2 citationsFunction (Oxford, England). 2025;6(2)
Deficiency of mitophagy mediator Parkin in aortic smooth muscle cells exacerbates abdominal aortic aneurysm10.1101/2024.10.30.621201v2 · Wang, H., Kazaleh, M., Gioscia-Ryan, R. A. et al.2024 · 1 citationbioRxiv
Ca2+ increases cardiac muscle viscoelasticity independent of active force development10.1101/2025.02.26.640328v1 · Baker, A. J., Li, O. Y., Jezek, F. et al.2025 · 3 citationsbioRxiv
Theoretical Analysis of Power-Law Stress Relaxation and Calcium-Dependent Passive Mechanics in Cardiac Muscle10.1101/2025.02.26.640338v1 · Jezek, F., Baker, A. J., Nordsletten, D. A. et al.2025 · 3 citationsbioRxiv
Identification of Digital Twins to Guide Interpretable AI for Diagnosis and Prognosis in Heart Failure10.1101/2024.11.11.24317106v1 · Gu, F., Meyer, A. J., Jezek, F. et al.2024 · 32 citationsmedRxiv
Multiscale modeling shows how 2'-deoxy-ATP rescues ventricular function in heart failure.39172779 · Teitgen, Abigail E, Hock, Marcus T, McCabe, Kimberly J et al.2024 · 9 citationsProceedings of the National Academy of Sciences of the United States of America. 2024;121(35):e2322077121
Guidelines for mechanistic modeling and analysis in cardiovascular research.38904851 · Colebank, Mitchel J, Oomen, Pim A, Witzenburg, Colleen M et al.2024 · 16 citationsAmerican journal of physiology. Heart and circulatory physiology. 2024;327(2):H473-H503
Integrated modeling and simulation of recruitment of myocardial perfusion and oxygen delivery in exercise.38754551 · Sturgess, Victoria E, Tune, Johnathan D, Figueroa, C Alberto et al.2024 · 6 citationsJournal of molecular and cellular cardiology. 2024;192:94-108
Inherent Metabolic Adaptations in Adult Spiny Mouse (Acomys) Cardiomyocytes Facilitate Enhanced Cardiac Recovery Following Myocardial Infarction10.1101/2024.05.22.595229v2 · Kuppa, A., Alzamrooni, A., Suhan, T. et al.2024 · 1 citationbioRxiv
Computational modeling of ventricular-ventricular interactions suggest a role in clinical conditions involving heart failure.37745253 · Kim, Salla M, Randall, E Benjamin, Jezek, Filip et al.2024 · 13 citationsFrontiers in physiology. 2023;14:1231688
Unraveling the Gordian knot of coronary pressure-flow autoregulation.38608928 · Tune, Johnathan D, Warne, Cooper M, Essajee, Salman I et al.2024 · 5 citationsJournal of molecular and cellular cardiology. 2024;190:82-91
Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform.28555150 · Marshall-Colon, Amy, Long, Stephen P, Allen, Douglas K et al.2024 · 144 citationsFrontiers in plant science. 2017;8:786
Integrated Functions of Cardiac Energetics, Mechanics, and Purine Nucleotide Metabolism.38158366 · Lopez-Schenk, Rachel, Collins, Nicole L, Schenk, Noah A et al.2024 · 16 citationsComprehensive Physiology. 2023;14(1):5345-5369
Portal Venous Remodeling Determines the Pattern of Cirrhosis Decompensation: A Systems Analysis.37092902 · Mazumder, Nikhilesh R, Jezek, Filip, Tapper, Elliot B et al.2023 · 9 citationsClinical and translational gastroenterology. 2023;14(9):e00590
Impaired Myofilament Contraction Drives Right Ventricular Failure Secondary to Pressure Overload: Model Simulations, Experimental Validation, and Treatment Predictions.29997518 · Philip, Jennifer L, Pewowaruk, Ryan J, Chen, Claire S et al.2023 · 9 citationsFrontiers in physiology. 2018;9:731
Higher mitochondrial oxidative capacity is the primary molecular differentiator in muscle of rats with high and low intrinsic cardiorespiratory fitness.37625738 · Fleischman, Johanna Y, Van den Bergh, Françoise, Collins, Nicole L et al.2023 · 9 citationsMolecular metabolism. 2023;76:101793
Oxygen-sensing pathways below autoregulatory threshold act to sustain myocardial oxygen delivery during reductions in perfusion pressure.36988670 · Warne, Cooper M, Essajee, Salman I, Tucker, Selina M et al.2023 · 10 citationsBasic research in cardiology. 2023;118(1):12
FMO rewires metabolism to promote longevity through tryptophan and one carbon metabolism in C. elegans.36732543 · Choi, Hyo Sub, Bhat, Ajay, Howington, Marshall B et al.2023 · 51 citationsNature communications. 2023;14(1):562
Heart Failure as a Limitation of Cardiac Power Output.35330926 · Beard, Daniel A, Hummel, Scott L, Jezek, Filip2023 · 11 citationsFunction (Oxford, England). 2022;3(1):zqab066
Impaired Myocardial Energetics Causes Mechanical Dysfunction in Decompensated Failing Hearts.33074265 · Lopez, Rachel, Marzban, Bahador, Gao, Xin et al.2023 · 36 citationsFunction (Oxford, England). 2020;1(2):zqaa018
Differential integrated stress response and asparagine production drive symbiosis and therapy resistance of pancreatic adenocarcinoma cells.36411320 · Halbrook, Christopher J, Thurston, Galloway, Boyer, Seth et al.2022 · 76 citationsNature cancer. 2022;3(11):1386-1403
Reduced cardiac muscle power with low ATP simulating heart failure.35918899 · Beard, Daniel A, Marzban, Bahador, Li, On Yeung et al.2022 · 24 citationsBiophysical journal. 2022;121(17):3213-3223
Systems analysis of the mechanisms governing the cardiovascular response to changes in posture and in peripheral demand during exercise.34626617 · Jezek, Filip, Randall, E Benjamin, Carlson, Brian E et al.2022 · 20 citationsJournal of molecular and cellular cardiology. 2022;163:33-55
Multiscale model of the physiological control of myocardial perfusion to delineate putative metabolic feedback mechanisms.35156733 · Gharahi, Hamidreza, Figueroa, C Alberto, Tune, Johnathan D et al.2022 · 9 citationsThe Journal of physiology. 2022;600(8):1913-1932
Phenotyping heart failure using model-based analysis and physiology-informed machine learning.34510457 · Jones, Edith, Randall, E Benjamin, Hummel, Scott L et al.2022 · 54 citationsThe Journal of physiology. 2021;599(22):4991-5013
Quantitative analysis of mitochondrial ATP synthesis.34146585 · Randall, E Benjamin, Hock, Marcus, Lopez, Rachel et al.2021 · 10 citationsMathematical biosciences. 2021;340:108646
Hypoxic pulmonary vasoconstriction as a regulator of alveolar-capillary oxygen flux: A computational model of ventilation-perfusion matching.33956786 · Marquis, Andrew D, Jezek, Filip, Pinsky, David J et al.2021 · 13 citationsPLoS computational biology. 2021;17(5):e1008861
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