Positions

Selected Publications

Academic Article

Year Title Altmetric
2020 A Rapid Electromechanical Model To Predict Reverse Remodeling Following Cardiac Resynchronization Therapy 2020
2020 Computational model predicts paracrine and intracellular drivers of fibroblast phenotype after myocardial infarction 2020
2020 Predictions of hypertrophy and its regression in response to pressure overloadBiomechanics and Modeling in Mechanobiology.  19:1079-1089. 2020
2020 A multiscale model of cardiac concentric hypertrophy incorporating both mechanical and hormonal drivers of growthBiomechanics and Modeling in Mechanobiology2020
2019 Computational Model Predicts Paracrine and Intracellular Drivers of Fibroblast Phenotype After Myocardial Infarction 2019
2018 Multiscale computational model of Achilles tendon wound healing: Untangling the effects of repair and loadingPLoS Computational Biology.  14. 2018
2018 Potential strain-dependent mechanisms defining matrix alignment in healing tendonsBiomechanics and Modeling in Mechanobiology.  17:1569-1580. 2018
2018 Surgical reinforcement alters collagen alignment and turnover in healing myocardial infarcts 2018
2018 Guidelines for experimental models of myocardial ischemia and infarction 2018
2018 Predicting the time course of ventricular dilation and thickening using a rapid compartmental modelJournal of Cardiovascular Translational Research.  11:109-122. 2018
2018 Clinical Applications of Patient-Specific Models: The Case for a Simple ApproachJournal of Cardiovascular Translational Research.  1-9. 2018
2018 Role of boundary conditions in determining cell alignment in response to stretch 2018
2017 A Comparison of Phenomenologic Growth Laws for Myocardial HypertrophyJournal of Elasticity.  129:257-281. 2017
2017 Imaging left-ventricular mechanical activation in heart failure patients using cine DENSE MRI: Validation and implications for cardiac resynchronization therapyJournal of Magnetic Resonance Imaging.  46:887-896. 2017
2017 Effect of ablation pattern on mechanical function in the atriumPacing and Clinical Electrophysiology.  40:648-654. 2017
2016 Special Issue: Spotlight of the Future of Cardiovascular Engineering Frontiers and Challenges in Cardiovascular BiomechanicsJournal of Biomechanical Engineering.  138. 2016
2016 Crossing into the Next Frontier of Cardiac Extracellular Matrix ResearchCirculation Research.  119:1040-1045. 2016
2016 Emergence of Collagen Orientation Heterogeneity in Healing Infarcts and an Agent-Based ModelBiophysical Journal.  110:2266-2277. 2016
2016 A computational model of cardiac fibroblast signaling predicts context-dependent drivers of myofibroblast differentiationJournal of Molecular and Cellular Cardiology.  94:72-81. 2016
2016 Computational modeling of cardiac fibroblasts and fibrosisJournal of Molecular and Cellular Cardiology.  93:73-83. 2016
2016 Modifying the mechanics of healing infarcts: Is better the enemy of good?Journal of Molecular and Cellular Cardiology.  93:115-124. 2016
2016 High temporal-resolution phase-contrast MRI demonstrates impaired left-ventricular diastolic relaxation in mice fed a high-fat high-sucrose diet.Journal of Cardiovascular Magnetic Resonance.  18. 2016
2016 Making better scar: Emerging approaches for modifying mechanical and electrical properties following infarction and ablation 2016
2015 Physiological implications of myocardial scar structureComprehensive Physiology.  5:1877-1909. 2015
2015 Why Is Infarct Expansion Such an Elusive Therapeutic Target?Journal of Cardiovascular Translational Research.  8:421-430. 2015
2015 Effect of Scar Compaction on the Therapeutic Efficacy of Anisotropic Reinforcement Following Myocardial Infarction in the DogJournal of Cardiovascular Translational Research.  8:353-361. 2015
2015 Changes in Global and Regional Mechanics Due to Atrial Fibrillation: Insights from a Coupled Finite-Element and Circulation ModelAnnals of Biomedical Engineering.  43:1600-1613. 2015
2015 An Ultrasound-Driven Kinematic Model for Deformation of the Infarcted Mouse Left Ventricle Incorporating a Near-Incompressibility ConstraintUltrasound in Medicine and Biology.  41:532-541. 2015
2015 Comparison of quantitative wall-motion analysis and strain for detection of coronary stenosis with three-dimensional dobutamine stress echocardiography 2015
2014 Impact of mechanical activation, scar, and electrical timing on cardiac resynchronization therapy response and clinical outcomesJournal of the American College of Cardiology.  63:1657-1666. 2014
2014 Mechanical boundary conditions bias fibroblast invasion in a collagen-fibrin wound modelBiophysical Journal.  106:932-943. 2014
2014 Effects of stretch and shortening on gene expression in intact myocardiumPhysiological Genomics.  46:57-65. 2014
2014 Coupled agent-based and finite-element models for predicting scar structure following myocardial infarction 2014
2014 Identification of a novel mitochondrial uncoupler that does not depolarize the plasma membraneMolecular Metabolism.  3:114-123. 2014
2014 Postprocedure mapping of cardiac resynchronization lead position using standard fluoroscopy systems: Implications for the nonresponder with scarPacing and Clinical Electrophysiology.  37:757-767. 2014
2013 Wall-motion based analysis of global and regional left atrial mechanicsIEEE Transactions on Medical Imaging.  32:1765-1776. 2013
2013 Sequencing of mRNA identifies re-expression of fetal splice variants in cardiac hypertrophyJournal of Molecular and Cellular Cardiology.  62:99-107. 2013
2012 Mechanical regulation of fibroblast migration and collagen remodelling in healing myocardial infarcts 2012
2012 Structural mechanism for alteration of collagen gel mechanics by glutaraldehyde crosslinkingConnective Tissue Research.  53:285-297. 2012
2012 Anisotropic reinforcement of acute anteroapical infarcts improves pump functionCirculation: Heart Failure.  5:515-522. 2012
2012 Mechanics of cell growthMechanics Research Communications.  42:118-125. 2012
2012 Regional mechanics determine collagen fiber structure in healing myocardial infarctsJournal of Molecular and Cellular Cardiology.  52:1083-1090. 2012
2012 Cardiovascular solid mechanics grows and remodelsJournal of Biomechanics.  45:727. 2012
2011 Strains at the myotendinous junction predicted by a micromechanical modelJournal of Biomechanics.  44:2795-2801. 2011
2011 Model-based design of mechanical therapies for myocardial infarctionJournal of Cardiovascular Translational Research.  4:82-91. 2011
2011 A novel method for quantitating delayed enhancement of the left atrium.Journal of Cardiovascular Magnetic Resonance.  13:P248-P248. 2011
2010 Quantitative three-dimensional wall motion analysis predicts ischemic region size and locationAnnals of Biomedical Engineering.  38:1367-1376. 2010
2010 Contribution of extracellular matrix to the mechanical properties of the heartJournal of Molecular and Cellular Cardiology.  48:490-496. 2010
2010 Evolution of scar structure, mechanics, and ventricular function after myocardial infarction in the rat 2010
2009 Simultaneous variation of ventricular pacing site and timing with biventricular pacing in acute ventricular failure improves function by interventricular assist 2009
2009 Quantitative validation of optical flow based myocardial strain measures using sonomicrometry 2009
2009 Region-Based Endocardium Tracking on Real-Time Three-Dimensional UltrasoundUltrasound in Medicine and Biology.  35:256-265. 2009
2008 Remodeling of engineered tissue anisotropy in response to altered loading conditionsAnnals of Biomedical Engineering.  36:1322-1334. 2008
2007 Induction of hypertrophy in vitro by mechanical loading in adult rabbit myocardium 2007
2007 Isometric contraction induces rapid myocyte remodeling in cultured rat right ventricular papillary muscles 2007
2007 Theoretical quality assessment of myocardial elastography with in vivo validationIEEE Transactions on Ultrasonics, Ferroelectrics and Frequency Control.  54:2233-2245. 2007
2007 Tissue engineering of skeletal muscle 2007
2007 Collagen fiber alignment does not explain mechanical anisotropy in fibroblast populated collagen gelsJournal of Biomechanical Engineering.  129:642-650. 2007
2007 Mechanical load initiates hypertrophic scar formation through decreased cellular apoptosisThe FASEB Journal.  21:3250-3261. 2007
2006 Advanced tools for tissue engineering: Scaffolds, bioreactors, and signaling 2006
2006 Imaging cardiac mechanics: What information do we need to extract from cardiac images?Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings.  1545-1547. 2006
2006 Model-based screening of wall motion measures for detection of ischemia in three-dimensional cardiac imagesAnnual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings.  628-631. 2006
2006 Effects of sequential biventricular pacing during acute right ventricular pressure overload 2006
2006 Nitrite-induced cross-linking alters remodeling and mechanical properties of collagenous engineered tissuesConnective Tissue Research.  47:163-176. 2006
2006 Teaching from classic papers: Hill's model of muscle contractionAdvances in Physiology Education.  30:67-72. 2006
2005 The development of structural and mechanical anisotropy in fibroblast populated collagen gelsJournal of Biomechanical Engineering.  127:742-750. 2005
2005 Segmentation of real-time three-dimensional ultrasound for quantification of ventricular function: A clinical study on right and left ventriclesUltrasound in Medicine and Biology.  31:1143-1158. 2005
2005 Structure and mechanics of healing myocardial infarctsAnnual Review of Biomedical Engineering.  7:223-253. 2005
2005 Mechanical strain alters gene expression in an in vitro model of hypertrophic scarringAnnals of Plastic Surgery.  55:69-75. 2005
2005 Parameterization of left ventricular wall motion for detection of regional ischemiaAnnals of Biomedical Engineering.  33:912-919. 2005
2005 Left ventricular assist device support normalizes left and right ventricular beta-adrenergic pathway propertiesJournal of the American College of Cardiology.  45:668-676. 2005
2004 Candidate mechanical stimuli for hypertrophy during volume overload 2004
2004 Regional functional depression immediately after ventricular septal defect closureJournal of The American Society of Echocardiography.  17:1066-1072. 2004
2004 Determinants of left ventricular shape change during fillingJournal of Biomechanical Engineering.  126:98-103. 2004
2003 Creating alignment and anisotropy in engineered heart tissue: Role of boundary conditions in a model three-dimensional culture system 2003
2002 Isotonic biaxial loading of fibroblast-populated collagen gels: A versatile, low-cost system for the study of mechanobiologyBiomechanics and Modeling in Mechanobiology.  1:59-67. 2002
2002 Energetics of the Frank-Starling effect in rabbit myocardium: Economy and efficiency depend on muscle length 2002
2001 Normalized diastolic properties after left ventricular assist result from reverse remodeling of chamber geometryCirculation.  104. 2001
2001 Comparison of right and left ventricular responses to left ventricular assist device support in patients with severe heart failure: A primary role of mechanical unloading underlying reverse remodelingCirculation.  104:670-675. 2001
2001 LV volume quantification via spatiotemporal analysis of real-time 3-D echocardiographyIEEE Transactions on Medical Imaging.  20:457-469. 2001
2000 Chronic unloading by left ventricular assist device reverses contractile dysfunction and alters gene expression in end-stage heart failureCirculation.  102:2713-2719. 2000
2000 Left ventricular assist device-induced reverse ventricular remodelingProgress in Cardiovascular Diseases.  43:19-26. 2000
2000 Structural and mechanical factors influencing infarct scar collagen organization 2000
1998 Frequency-dependence of myocardial energetics in failing human myocardium as quantified by a new method for the measurement of oxygen consumption in muscle strip preparationsJournal of Molecular and Cellular Cardiology.  30:1459-1470. 1998
1997 Functional implications of myocardial scar structure 1997
1996 Enhanced regional deformation at the anterior papillary muscle insertion site after chordal transsectionCirculation.  93:585-593. 1996
1995 Depressed regional deformation near anterior papillary muscle 1995
1995 Impaired subendocardial function in tachycardia-induced cardiac failure 1995
1994 Scar remodeling and transmural deformation after infarction in the pigCirculation.  90:411-420. 1994

Education And Training

  • Doctor of Medicine, University of California San Diego 1998
  • Doctor of Philosophy in Bioengineering and Biomedical Engineering, University of California San Diego 1995
  • Bachelor of Science or Mathematics in Biomedical / Medical Engineering, Johns Hopkins University 1989
  • Full Name

  • Jeffrey Holmes