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SFB: Mathematical Optimization with Applications in Biomedical Sciences

Abstract: In this project, a realistic computer model of the heart, a Virtual Heart simulator will be developed to investigate mechanisms underlying the formation of arrhythmias, the most frequent cause of death in the industrialized world, and their termination by electrical shocks (electrical defibrillation). During the first phase, research will focus on different aspects of defibrillation with the goal to optimize the procedure to allow safe termination of arrhythmias with a fraction of energy requirements of current devices. For the first time, defibrillation will be formulated as an optimization problem using optimal control techniques to devise novel shock strategies. Further, techniques for the generation of microscopically accurate cardiac tissue models will be developed by applying novel strategies for segmentation and multi-modal registration allowing the fusion of image stacks obtained with different imaging modalities (histological sections and MRI). To deal with the computational burden imposed by the resulting large systems (5-50 Mio dof), parallel algebraic MG and BEM/FEM coupling techniques will be applied to render parameters studies involving whole heart bidomain simulations including a torso possible.
Long term goals include advanced techniques to optimize the exploration of complex parameter spaces associated with defibrillation with OPTIM, inverse methods will be considered to compute cardiac surface potentials from electrical or optical recordings, and we will incorporate a mechanical contraction model and a fluid mechanical model to investigate electromechanical coupling and mechano-electrical feedback mechanisms and to link modelling results to clinically relevant quantities.

Keywords: digital image processing and graphics; supercomputing; Numeric Computation; biophysics; electrical and biomedical technics; cardiology; Bidomain Modell; Defibrillation; Parallel linear Gleichungslöser; Segmentierung und Registrierung; Virtuelles Herz

Local Subprojectlead:: Plank Gernot

Duration:: 01.05.2007-30.04.2011

Programme:: Spezialforschungsbereiche (SFB)

Type of Research: basic research

Further information:

Staff: Plank, Gernot, Project Leader; Prassl, Anton, Co-worker; Hofer, Ernst, Co-worker; Ahammer, Helmut, Co-worker

MUG Research Units: Division of Medical Physics and Biophysics

Project partners: Department of Physiology, Anatomy and Genetics/University of Oxford, United Kingdom
Contact person: P. Kohl;; Johns Hopkins University, Institute of Computational Medicine, United States (USA)
Contact person: N. Trayanova;; Oxford University Computing Laboratory, Computational Biology Group/University of Oxford, United Kingdom
Contact person: D. Gavaghan;; Technical University Karlsruhe, Institute of Biomedical Engineering, Germany
Contact person: G. Seemann;; University of Calgary, Department of Electrical and Computer Engineering, Canada
Contact person: E.J. Vigmond;; University of Oxford, Wolfson Medical Vision Laboratory, United Kingdom
Contact person: V. Grau;

Funded by: FWF, Fonds zur Förderung der Wissenschaftlichen Forschung, Wien, Austria

Project results published: > Automating image-based mesh generation and manipul... SoftwareX. 2020; 11: 100454-100454.; > An Inverse Eikonal Method for Identifying Ventricu... J Comput Phys. 2020; 419:; > Multiscale-multiphysics models of total heart func... "Dreiländertagung" of the Swiss, Austrian and German Societies for Biomedical Engineering; Oct 4-6, 2016; Basel, Switzerland. 2016.; > Three-dimensional atrial wall thickness maps to in... Europace. 2016; 18(3):376-383; > Local Gradients in Electrotonic Loading Modulate t... IEEE Trans Biomed Eng. 2015; 62(9):2251-2259; > Electroanatomical characterization of atrial micro... IEEE Trans Biomed Eng. 2013; 60(8):2339-2349; > Tachycardia in post-infarction hearts: insights fr... PLoS One. 2013; 8(7):e68872-e68872; > The Functional Role of Electrophysiological Hetero... Am J Physiol Heart Circ Physiol. 2013; 304(9):H1240-H1252; > Investigating the role of the coronary vasculature... Circ Arrhythm Electrophysiol. 2012; 5(1): 210-219.; > Accelerating Cardiac Bidomain Simulations Using Gr... IEEE Trans Biomed Eng. 2012; 59(8):2281-2290; > The role of fine-scale anatomical structure in the... J Physiol. 2012; 590(Pt 18):4515-4535; > A novel rule-based algorithm for assigning myocard... Ann Biomed Eng. 2012; 40(10):2243-2254; > Influence of ischemic core muscle fibers on surfac... Med Biol Eng Comput. 2012; 50(5):461-472; > Cardiac bidomain bath-loading effects during arrhy... Biophys J. 2011; 101(12):2871-2881; > Simulating human cardiac electrophysiology on clin... Front Physiol. 2011; 2(1):14-14; > Representing cardiac bidomain bath-loading effects... IEEE Trans Biomed Eng. 2011; 58(4): 1066-1075.; > Length-dependent tension in the failing heart and ... Cardiovasc Res. 2011; 89(2): 336-343.; > Estimation of local orientations in fibrous struct... IEEE Trans Biomed Eng. 2011; 58(6): 1762-1772.; > Accelerating cardiac excitation spread simulations... CONCURR COMPUT-PRACT EXP. 2011; 23(7): 708-720.; > The role of photon scattering in voltage-calcium f... Biophys J. 2011; 101(2): 307-318.; > Bidomain ECG simulations using an augmented monodo... IEEE Trans Biomed Eng. 2011; 58(8):; > Application of optimal control approaches to the c... Optimization, Design and Control; SEPT 16-17, 2010; Oxford, UK. 2010.; > Development of an anatomically detailed MRI-derive... Am J Physiol Heart Circ Physiol. 2010; 298(2): H699-H718.; > Purkinje-mediated Effects in the Response of Quies... Ann Biomed Eng. 2010; 38(2): 456-468.; > Computing a heart beat at near-realtime performanc... Cardiac Modeling Workshop 2010 at Simula Research Laboratory; JUNE 29, 2010; Oslo, AUSTRIA. 2010.; > Modeling Cardiac Electrophyiology at the Organ Lev... American Institute of Physics2010; -8th International Conference of Numerical Analysis and Applied Mathematics; SEPT 19-26, 2010; Rhodes, GREECE.; > Modeling the role of the coronary vasculature duri... IEEE Trans Biomed Eng. 2010; 57(10): 2335-2345.; > Arrhythmogenic mechanisms of the Purkinje system d... Heart Rhythm. 2009; 6(12): 1782-1789.; > Solving the coupled system improves computational ... IEEE Trans Biomed Eng. 2009; 56(10): 2404-2412.; > Towards predictive modelling of the electrophysiol... Exp Physiol. 2009; 94(5): 563-577.; > Automatically generated, anatomically accurate mes... IEEE Trans Biomed Eng. 2009; 56(5): 1318-1330.; > Low energy defibrillation in human cardiac tissue:... Biophys J. 2009; 96(4): 1364-1373.; > Image-based models of cardiac structure with appli... J Electrocardiol. 2009; 42(2): 157.e1-157.10.; > Generation of histo-anatomically representative mo... Philos Transact A Math Phys Eng Sci. 2009; 367(1896): 2257-2292.; > Largescale numerical solution of the cardiac bidom... The European Society of Mathematics in Industry Meeting ; JUN 30 - JUL 4, 2008; London. 2008.; > Evaluating intramural virtual electrodes in the my... Biophys J. 2008; 94(5): 1904-1915.; > From mitochondrial ion channels to arrhythmias in ... Philos Transact A Math Phys Eng Sci. 2008; 366(1879):3381-3409; > Modeling the influence of the VV delay for CRT on ... P SOC PHOTO-OPT INSTRUM ENG. 2008; 6918: G9182-G9182.; > High performance computer simulations of cardiac e... LECT NOTE COMPUT SCI. 2008; 5101: 571-580.; > Nonlinear filtering for extracting orientation and... . 2008; 260-263.; > Role of Purkinje system in cardiac arrhythmias.... Conf Proc IEEE Eng Med Biol Soc. 2008; 2008(4):149-152; > Magnetic resonance imaging-based three-dimensional... European Society of Cardiology; AUG 30-SEPT 3, 2008; Munich. 2008.; > Assessing influence of conductivity in heart model... P SOC PHOTO-OPT INSTRUM ENG. 2008; 6916: 91627-91627.; > Reduced-order preconditioning for bidomain simulat... IEEE Trans Biomed Eng. 2007; 54(5): 938-942.; > Arrhythmogenesis research: A perspective from comp... PROC ANN INT CONF IEEE EMBS. 2007; 406-409.; > An iterative method for registration of high-resol... . 2007; 572-575.