Publications
Book Chapter
3D Simulations of Fetal and Maternal Ventricular Excitation for Investigating the Abdominal ECG
In Computational Physiology Simula Summer School 2021 - Student Reports, 13-24. Vol. 12. Cham: Springer International Publishing, 2022.Status: Published
3D Simulations of Fetal and Maternal Ventricular Excitation for Investigating the Abdominal ECG
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Book Chapter |
Year of Publication | 2022 |
Book Title | Computational Physiology Simula Summer School 2021 - Student Reports |
Volume | 12 |
Pagination | 13 - 24 |
Date Published | 05/2022 |
Publisher | Springer International Publishing |
Place Published | Cham |
ISBN Number | 978-3-031-05163-0 |
ISBN | 2512-1677 |
URL | https://doi.org/10.1007/978-3-031-05164-7_2 |
DOI | 10.1007/978-3-031-05164-7_2 |
Journal Article
A computational study of the effects of tachycardia-induced remodelling on calcium wave propagation in rabbit atrial myocytes
Frontiers in Physiology 12 (2021).Status: Published
A computational study of the effects of tachycardia-induced remodelling on calcium wave propagation in rabbit atrial myocytes
In atrial cardiomyocytes without a well-developed T-tubule system, calcium diffuses from the periphery towards the center creating a centripetal wave pattern. During atrial fibrillation, rapid activation of atrial myocytes induces complex remodelling in diffusion properties that result in failure of calcium to propagate in a fully regenerative manner towards the center; a phenomenon termed ``calcium silencing''. This has been observed in rabbit atrial myocytes after exposure to prolonged rapid pacing. Although experimental studies have pointed to possible mechanisms underlying calcium silencing, their individual effects and relative importance remain largely unknown.
In this study we used computational modelling of the rabbit atrial cardiomyocyte to query the individual effects and combined effects of the proposed mechanisms leading to calcium silencing and abnormal calcium wave propagation. We employed a population of models obtained from a newly developed model of the rabbit atrial myocyte with spatial representation of intracellular calcium handling. We selected parameters in the model that represent experimentally observed cellular remodelling which have been implicated in calcium silencing, and scaled their values in the population to match experimental observations. In particular, we changed the maximum conductances of I_CaL I_NCX, and I_NaK, RyR open probability, RyR density, Serca2a density, and calcium buffering strength. We incorporated remodelling in a population of 16 models by independently varying parameters that reproduce experimentally observed cellular remodelling, and quantified the resulting alterations in calcium dynamics and wave propagation patterns.
The results show a strong effect of I_CaL in driving calcium silencing, with I_NCX, I_NaK, and RyR density also resulting in calcium silencing in some models. Calcium alternans was observed in some models where I_NCX and Serca2a density had been changed. Simultaneously incorporating changes in all remodelled parameters resulted in calcium silencing in all models, indicating the predominant role of decreasing I_CaL in the population phenotype.
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Journal Article |
Year of Publication | 2021 |
Journal | Frontiers in Physiology |
Volume | 12 |
Publisher | Frontiers |
Keywords | calcium waves, computational model, population of models, rabbit atrial cardiomyocyte, spatial calcium dynamics, tachypacing |
Combined In-silico and Machine Learning Approaches Toward Predicting Arrhythmic Risk in Post-infarction Patients
Frontiers in physiology 12 (2021): 745349.Status: Published
Combined In-silico and Machine Learning Approaches Toward Predicting Arrhythmic Risk in Post-infarction Patients
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Journal Article |
Year of Publication | 2021 |
Journal | Frontiers in physiology |
Volume | 12 |
Pagination | 745349 |
Publisher | Frontiers |
Optimal pacing sites in cardiac resynchronization by left ventricular activation front analysis
Computers in Biology and Medicine 128 (2021): 104159.Status: Published
Optimal pacing sites in cardiac resynchronization by left ventricular activation front analysis
Cardiac resynchronization therapy (CRT) can substantially improve dyssynchronous heart failure and reduce mortality. However, about one-third of patients who are implanted, derive no measurable benefit from CRT. Non-response may partly be due to suboptimal activation of the left ventricle (LV) caused by electrophysiological heterogeneities. The goal of this study is to investigate the performance of a newly developed method used to analyze electrical wavefront propagation in a heart model including myocardial scar and compare this to clinical benchmark studies. We used computational models to measure the maximum activation front (MAF) in the LV during different pacing scenarios. Different heart geometries and scars were created based on cardiac MR images of three patients. The right ventricle (RV) was paced from the apex and the LV was paced from 12 different sites, single site, dual-site and triple site. Our results showed that for single LV site pacing, the pacing site with the largest MAF corresponded with the latest activated regions of the LV demonstrated during RV pacing, which also agrees with previous markers used for predicting optimal single-site pacing location. We then demonstrated the utility of MAF in predicting optimal electrode placements in more complex scenarios including scar and multi-site LV pacing. This study demonstrates the potential value of computational simulations in understanding and planning CRT.
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Journal Article |
Year of Publication | 2021 |
Journal | Computers in Biology and Medicine |
Volume | 128 |
Pagination | 104159 |
Publisher | Elsevier |
ISSN | 0010-4825 |
Keywords | Cardiac resynchronization therapy, Cardiology, Computational modeling, electrophysiology, Heart failure |
URL | http://www.sciencedirect.com/science/article/pii/S001048252030490X |
DOI | 10.1016/j.compbiomed.2020.104159 |
Poster
B-PO02-022 Combining simulation and machine learning to accurately predict arrhythmic risk in post-infarction patients
In Heart Rhythm. Vol. 18. Boston, MA: Elsevier, 2021.Status: Published
B-PO02-022 Combining simulation and machine learning to accurately predict arrhythmic risk in post-infarction patients
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Poster |
Year of Publication | 2021 |
Secondary Title | Heart Rhythm |
Publisher | Elsevier |
Place Published | Boston, MA |
Journal Article
A novel computational model of the rabbit atrial cardiomyocyte with spatial calcium dynamics
Frontiers in Physiology 11 (2020): 1205.Status: Published
A novel computational model of the rabbit atrial cardiomyocyte with spatial calcium dynamics
Afilliation | Scientific Computing |
Project(s) | AFib-TrainNet: EU Training Network on Novel Targets and Methods in Atrial Fibrillation, Department of Computational Physiology |
Publication Type | Journal Article |
Year of Publication | 2020 |
Journal | Frontiers in Physiology |
Volume | 11 |
Pagination | 1205 |
Publisher | Frontiers |
Embedding high-dimensional Bayesian optimization via generative modeling: Parameter personalization of cardiac electrophysiological models
Medical Image Analysis 62 (2020): 101670.Status: Published
Embedding high-dimensional Bayesian optimization via generative modeling: Parameter personalization of cardiac electrophysiological models
The estimation of patient-specific tissue properties in the form of model parameters is important for personalized physiological models. Because tissue properties are spatially varying across the underlying geometrical model, it presents a significant challenge of high-dimensional (HD) optimization at the presence of limited measurement data. A common solution to reduce the dimension of the parameter space is to explicitly partition the geometrical mesh. In this paper, we present a novel concept that uses a generative variational auto-encoder (VAE) to embed HD Bayesian optimization into a low-dimensional (LD) latent space that represents the generative code of HD parameters. We further utilize VAE-encoded knowledge about the generative code to guide the exploration of the search space. The presented method is applied to estimating tissue excitability in a cardiac electrophysiological model in a range of synthetic and real-data experiments, through which we demonstrate its improved accuracy and substantially reduced computational cost in comparison to existing methods that rely on geometry-based reduction of the HD parameter space.
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Journal Article |
Year of Publication | 2020 |
Journal | Medical Image Analysis |
Volume | 62 |
Pagination | 101670 |
Publisher | Elsevier |
ISSN | 1361-8415 |
Keywords | High-dimensional Bayesian optimization, personalized modeling, variational autoencoder |
URL | http://www.sciencedirect.com/science/article/pii/S1361841520300360 |
DOI | 10.1016/j.media.2020.101670 |
Multisite pacing and myocardial scars: a computational study
Computer Methods in Biomechanics and Biomedical Engineering 23, no. 6 (2020).Status: Published
Multisite pacing and myocardial scars: a computational study
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Journal Article |
Year of Publication | 2020 |
Journal | Computer Methods in Biomechanics and Biomedical Engineering |
Volume | 23 |
Issue | 6 |
Date Published | 01/2020 |
Publisher | Taylor and Francis |
ISSN | 1025-5842 |
URL | https://www.tandfonline.com/doi/full/10.1080/10255842.2020.1711885 |
DOI | 10.1080/10255842.2020.1711885 |
Regional Left Ventricular Fiber Stress Analysis for Cardiac Resynchronization Therapy Response
Journal of Cardiovascular Electrophysiology (2020).Status: Submitted
Regional Left Ventricular Fiber Stress Analysis for Cardiac Resynchronization Therapy Response
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Journal Article |
Year of Publication | 2020 |
Journal | Journal of Cardiovascular Electrophysiology |
Publisher | Wiley |
Technological and Clinical Challenges in Lead Placement for Cardiac Rhythm Management Devices
Annals of Biomedical Engineering 48 (2020): 26-46.Status: Published
Technological and Clinical Challenges in Lead Placement for Cardiac Rhythm Management Devices
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Journal Article |
Year of Publication | 2020 |
Journal | Annals of Biomedical Engineering |
Volume | 48 |
Pagination | 26 - 46 |
Date Published | 01/2020 |
Publisher | Springer Link |
ISSN | 0090-6964 |
DOI | 10.1007/s10439-019-02376-0 |
Poster
Efficient simulations of patient-specific electrical heart activity on the DGX-2
GPU Technology Conference (GTC) 2020, Silicon Valley, USA: Nvidia, 2020.Status: Published
Efficient simulations of patient-specific electrical heart activity on the DGX-2
Patients who have suffered a heart attack have an elevated risk of developing arrhythmia. The use of computer simulations of the electrical activity in the hearts of these patients, is emerging as an alternative to traditional, more invasive examinations performed by doctors today. Recent advances in personalised arrhythmia risk prediction show that computational models can provide not only safer but also more accurate results than invasive procedures. However, biophysically accurate simulations of the electrical activity in the heart require solving linear systems over fine meshes and time resolutions, which can take hours or even days. This limits the use of such simulations in the clinic where diagnosis and treatment planning can be time sensitive, even if it is just for the reason of operation schedules. Furthermore, the non-interactive, non-intuitive way of accessing simulations and their results makes it hard to study these collaboratively. Overcoming these limitations requires speeding up computations from hours to seconds, which requires a massive increase in computational capabilities.
We have developed a code that is capable of performing highly efficient heart simulations on the DGX-2, making use of all 16 V100 GPUs. Using a patient-specific unstructured tetrahedral mesh with 11.7 million cells, we are able to simulate the electrical heart activity at 1/30 of real-time. Moreover, we are able to show that the throughput achieved using all 16 GPUs in the DGX-2 is 77.6% of the theoretical maximum.
We achieved this through extensive optimisations of the two kernels constituting the body of the main loop in the simulator. In the kernel solving the diffusion equation (governing the spread of the electrical signal), constituting of a sparse matrix-vector multiplication, we minimise the memory traffic by reordering the mesh (and matrix) elements into clusters that fit in the V100's L2 cache. In the kernel solving the cell model (describing the complex interactions of ion channels in the cell membrane), we apply sophisticated domain-specific optimisations to reduce the number of floating point operations to the point where the kernel becomes memory bound. After optimisation, both kernels are memory bound, and we derive the minimum memory traffic, which we then divide by the aggregate memory bandwidth to obtain a lower bound on the execution time.
Topics discussed include optimisations for sparse matrix-vector multiplications, strategies for handling inter-device communication for unstructured meshes, and lessons we learnt while programming the DGX-2.
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology, Department of High Performance Computing |
Publication Type | Poster |
Year of Publication | 2020 |
Date Published | 03/2020 |
Publisher | Nvidia |
Place Published | GPU Technology Conference (GTC) 2020, Silicon Valley, USA |
Towards detailed Organ-Scale Simulations in Cardiac Electrophysiology
GPU Technology Conference (GTC), Silicon Valley, San Jose, USA, 2020.Status: Published
Towards detailed Organ-Scale Simulations in Cardiac Electrophysiology
Afilliation | Scientific Computing |
Project(s) | Meeting Exascale Computing with Source-to-Source Compilers, Department of High Performance Computing |
Publication Type | Poster |
Year of Publication | 2020 |
Place Published | GPU Technology Conference (GTC), Silicon Valley, San Jose, USA |
Type of Work | Poster |
Proceedings, refereed
Potential Roles of Purkinje Fibers in Ischemia-Induced Arrhythmias
In Computing in Cardiology. Vol. 47. IEEE, 2020.Status: Published
Potential Roles of Purkinje Fibers in Ischemia-Induced Arrhythmias
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology, MI-RISK: Risk factors for sudden cardiac death during acute myocardial infarction , Personalized Virtual Heart Models for Diagnosis and Treatment Planning in Patients with Heart Failure (MyVirtualHF) |
Publication Type | Proceedings, refereed |
Year of Publication | 2020 |
Conference Name | Computing in Cardiology |
Volume | 47 |
Publisher | IEEE |
Patent
System and method for personalized cardiac arrhythmia risk assessment by simulating arrhythmia inducibility
2020.Status: Published
System and method for personalized cardiac arrhythmia risk assessment by simulating arrhythmia inducibility
Project(s) | Department of Computational Physiology |
Publication Type | Patent |
Year of Publication | 2020 |
Notes | US Patent 10,827,983 |
System and method for planning a patient-specific cardiac procedure
2020.Status: Published
System and method for planning a patient-specific cardiac procedure
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology |
Publication Type | Patent |
Year of Publication | 2020 |
Notes | US Patent 10,765,336 |
Talks, contributed
A Combined In-Silico and Machine Learning Approach towards Predicting Arrhythmic Risk in Post-Infarction Patients
In Computing in Cardiology, Singapore, 2019.Status: Published
A Combined In-Silico and Machine Learning Approach towards Predicting Arrhythmic Risk in Post-Infarction Patients
Afilliation | Scientific Computing |
Project(s) | MI-RISK: Risk factors for sudden cardiac death during acute myocardial infarction , Department of Computational Physiology |
Publication Type | Talks, contributed |
Year of Publication | 2019 |
Location of Talk | Computing in Cardiology, Singapore |
Proceedings, refereed
Investigating the Pro- and Anti-Arrhythmic Properties of Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes in Post-Infarction Patient Hearts: A Modeling Study
In 6th International Conference on Computational and Mathematical Biomedical Engineering. Vol. 1. Zeta Computational Resources Ltd, 2019.Status: Published
Investigating the Pro- and Anti-Arrhythmic Properties of Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes in Post-Infarction Patient Hearts: A Modeling Study
Afilliation | Scientific Computing |
Project(s) | Department of Computational Physiology, MI-RISK: Risk factors for sudden cardiac death during acute myocardial infarction |
Publication Type | Proceedings, refereed |
Year of Publication | 2019 |
Conference Name | 6th International Conference on Computational and Mathematical Biomedical Engineering |
Volume | 1 |
Pagination | 357-360 |
Publisher | Zeta Computational Resources Ltd. |
ISSN Number | 2227-9385 |
Towards Detailed Real-Time Simulations of Cardiac Arrhythmia
In Computing in Cardiology. Vol. 46. IEEE, 2019.Status: Published
Towards Detailed Real-Time Simulations of Cardiac Arrhythmia
Recent advances in personalized arrhythmia risk pre- diction show that computational models can provide not only safer but also more accurate results than invasive pro- cedures. However, biophysically accurate simulations re- quire solving linear systems over fine meshes and time res- olutions, which can take hours or even days. This limits the use of such simulations in the clinic where diagnosis and treatment planning can be time sensitive, even if it is just for the reason of operation schedules. Furthermore, the non-interactive, non-intuitive way of accessing simula- tions and their results makes it hard to study these collab- oratively. Overcoming these limitations requires speeding up computations from hours to seconds, which requires a massive increase in computational capabilities.
Fortunately, the cost of computing has fallen dramati- cally in the past decade. A prominent reason for this is the recent introduction of manycore processors such as GPUs, which by now power the majority of the world’s leading supercomputers. These devices owe their success to the fact that they are optimized for massively parallel work- loads, such as applying similar ODE kernel computations to millions of mesh elements in scientific computing ap- plications. Unlike CPUs, which are typically optimized for sequential performance, this allows GPU architectures to dedicate more transistors to performing computations, thereby increasing parallel speed and energy efficiency.
Afilliation | Scientific Computing |
Project(s) | Meeting Exascale Computing with Source-to-Source Compilers |
Publication Type | Proceedings, refereed |
Year of Publication | 2019 |
Conference Name | Computing in Cardiology |
Volume | 46 |
Date Published | 12/2019 |
Publisher | IEEE |
Poster
Towards Detailed Real-Time Simulations of Cardiac Arrhythmia
International Conference in Computing in Cardiology, Singapore, 2019.Status: Published
Towards Detailed Real-Time Simulations of Cardiac Arrhythmia
Recent advances in personalized arrhythmia risk prediction show that computational models can provide not only safer but also more accurate results than invasive procedures. However, biophysically accurate simulations require solving linear systems over fine meshes and time resolutions, which can take hours or even days. This limits the use of such simulations in the clinic where diagnosis and treatment planning can be time sensitive, even if it is just for the reason of operation schedules. Furthermore, the non-interactive, non-intuitive way of accessing simulations and their results makes it hard to study these collaboratively.
Overcoming these limitations requires speeding up computations from hours to seconds, which requires a massive increase in computational capabilities.
Fortunately, the cost of computing has fallen dramatically in the past decade. A prominent reason for this is the recent introduction of manycore processors such as GPUs, which by now power the majority of the world’s leading supercomputers. These devices owe their success to the fact that they are optimized for massively parallel workloads, such as applying similar ODE kernel computations to millions of mesh elements in scientific computing applications. Unlike CPUs, which are typically optimized for sequential performance, this allows GPU architectures to dedicate more transistors to performing computations, thereby increasing parallel speed and energy efficiency.
In this poster, we present ongoing work on the parallelization of finite volume computations over an unstructured mesh as well as the challenges involved in building scalable simulation codes and discuss the steps needed to close the gap to accurate real-time computations.
Afilliation | Scientific Computing |
Project(s) | Meeting Exascale Computing with Source-to-Source Compilers, Department of High Performance Computing |
Publication Type | Poster |
Year of Publication | 2019 |
Date Published | 09/2019 |
Place Published | International Conference in Computing in Cardiology, Singapore |
Poster
A Novel Computational Model of the Rabbit Atrial Myocyte Offers Insight into Calcium Wave Propagation Failure
In Biophysical Journal. Cambridge, USA, 2018.Status: Published
A Novel Computational Model of the Rabbit Atrial Myocyte Offers Insight into Calcium Wave Propagation Failure
Atrial cardiomyocytes have a less well-developed T-tubule system than ventricular cells, resulting in intracellular calcium waves propagating from the membrane to the center via centripetal calcium diffusion. Failure of centripetal calcium-wave propagation (‘calcium silencing’) has been observed in a rabbit model of rapid atrial pacing and in patients with atrial fibrillation, but the underlying mechanisms remain incompletely understood. The goal of this study was to develop a novel computational model of the rabbit atrial cardiomyocyte that incorporates detailed compartmentalization of intracellular calcium dynamics, which can be used to investigate the mechanisms underpinning calcium silencing.
We incorporated ion-current formulations reflecting rabbit electrophysiology into a previously published human atrial cardiomyocyte model. The model was validated with published experimental data and the effects of altered rate of calcium diffusion between the calcium-release-unit space and the cytosol (τdiff) were investigated. τdiff modulates local calcium levels available to activate neighboring calcium-release sites, affecting wave propagation.
Simulation results showed that calcium-wave propagation was highly sensitive to τdiff during normal pacing at 2 Hz. We observed impaired calcium-wave propagation for a range of values of τdiff, with full calcium-wave propagation for values of τdiff exceeding 12.7 ms, and calcium silencing for values of τdiff below 10.6 ms due to insufficient local positive feedback for calcium-induced calcium release to maintain centripetal wave propagation. We also observed calcium alternans between propagating and non-propagating waves for intermediate values of τdiff.
This study provided new insight into the mechanisms of calcium-wave propagation failure in rabbit atrial cardiomyocytes and motivates further investigation of the effects of altered calcium diffusion on wave-propagation abnormalities and calcium-dependent arrhythmogenesis. Moreover, the newly developed model will be a useful tool for studying conditions which permit restoration of normal calcium wave propagation.
Afilliation | Scientific Computing |
Project(s) | AFib-TrainNet: EU Training Network on Novel Targets and Methods in Atrial Fibrillation |
Publication Type | Poster |
Year of Publication | 2018 |
Secondary Title | Biophysical Journal |
Date Published | Jan-02-2018 |
Place Published | Cambridge, USA |
ISSN Number | 00063495 |
URL | https://linkinghub.elsevier.com/retrieve/pii/S0006349517319124https://ap... |
DOI | 10.1016/j.bpj.2017.11.680 |
Towards Detailed Organ-Scale Simulations in Cardiac Electrophysiology
International Symposium on Computational Science at Scale (CoSaS), Erlangen, Germany, 2018.Status: Published
Towards Detailed Organ-Scale Simulations in Cardiac Electrophysiology
We present implementations of tissue-scale 3D simulations of the human cardiac ventricle using a physiologically realistic cell model. Computational challenges in such simulations arise from two factors, the first of which is the sheer amount of computation when simulating a large number of cardiac cells in a detailed model containing 10^4 calcium release units, 10^6 stochastically changing ryanodine receptors and 1.5 × 10^5 L-type calcium channels per cell.
Additional challenges arise from the fact that the computational tasks have various levels of arithmetic intensity and control complexity, which require careful adaptation of the simulation code to the target device. By exploiting the strengths of GPUs and manycore accelerators, we obtain a performance that is far superior to that of the basic CPU implementation, thus paving the way for detailed whole-heart simulations in future generations of leadership class supercomputers.
Afilliation | Scientific Computing |
Project(s) | Meeting Exascale Computing with Source-to-Source Compilers |
Publication Type | Poster |
Year of Publication | 2018 |
Date Published | 09/2018 |
Place Published | International Symposium on Computational Science at Scale (CoSaS), Erlangen, Germany |
Type of Work | Poster |
Keywords | Cardiac electrophysiology, GPU, Scientific Computing, Xeon Phi |
Journal Article
Computational Modeling of Electrophysiology and Pharmacotherapy of Atrial Fibrillation: Recent Advances and Future Challenges
Frontiers in Physiology 9 (2018): 1221.Status: Published
Computational Modeling of Electrophysiology and Pharmacotherapy of Atrial Fibrillation: Recent Advances and Future Challenges
Afilliation | Scientific Computing |
Project(s) | AFib-TrainNet: EU Training Network on Novel Targets and Methods in Atrial Fibrillation |
Publication Type | Journal Article |
Year of Publication | 2018 |
Journal | Frontiers in Physiology |
Volume | 9 |
Pagination | 1221 |
Date Published | Apr-09-2018 |
Publisher | Frontiers in Physiology |
URL | https://www.frontiersin.org/article/10.3389/fphys.2018.01221/fullhttps:/... |
DOI | 10.3389/fphys.2018.01221 |
Optimal contrast-enhanced MRI image thresholding for accurate prediction of ventricular tachycardia using ex-vivo high resolution models
Computers in biology and medicine 102 (2018): 426-432.Status: Published
Optimal contrast-enhanced MRI image thresholding for accurate prediction of ventricular tachycardia using ex-vivo high resolution models
Afilliation | Scientific Computing |
Project(s) | MI-RISK: Risk factors for sudden cardiac death during acute myocardial infarction |
Publication Type | Journal Article |
Year of Publication | 2018 |
Journal | Computers in biology and medicine |
Volume | 102 |
Pagination | 426-432 |
Publisher | Pergamon |
Personalized virtual-heart technology for guiding the ablation of infarct-related ventricular tachycardia
Nature Biomedical Engineering 2 (2018): 732-740.Status: Published
Personalized virtual-heart technology for guiding the ablation of infarct-related ventricular tachycardia
Afilliation | Scientific Computing |
Project(s) | MI-RISK: Risk factors for sudden cardiac death during acute myocardial infarction |
Publication Type | Journal Article |
Year of Publication | 2018 |
Journal | Nature Biomedical Engineering |
Volume | 2 |
Pagination | 732–740 |
Date Published | 09/2018 |
Publisher | Nature Research |
URL | http://www.nature.com/articles/s41551-018-0282-2 |
DOI | 10.1038/s41551-018-0282-2 |
Quantifying the uncertainty in model parameters using Gaussian process-based Markov chain Monte Carlo in cardiac electrophysiology
Medical Image Analysis 48 (2018): 43-57.Status: Published
Quantifying the uncertainty in model parameters using Gaussian process-based Markov chain Monte Carlo in cardiac electrophysiology
Afilliation | Scientific Computing |
Project(s) | No Simula project |
Publication Type | Journal Article |
Year of Publication | 2018 |
Journal | Medical Image Analysis |
Volume | 48 |
Pagination | 43 - 57 |
Date Published | Jan-08-2018 |
Publisher | Medical Image Analysis |
ISSN | 13618415 |
URL | https://linkinghub.elsevier.com/retrieve/pii/S1361841518302925https://ap... |
DOI | 10.1016/j.media.2018.05.007 |
Proceedings, refereed
Electromechanical Model to Predict Cardiac Resynchronization Therapy
In 2018 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC). IEEE, 2018.Status: Published
Electromechanical Model to Predict Cardiac Resynchronization Therapy
Afilliation | Scientific Computing |
Project(s) | MI-RISK: Risk factors for sudden cardiac death during acute myocardial infarction |
Publication Type | Proceedings, refereed |
Year of Publication | 2018 |
Conference Name | 2018 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) |
Pagination | 5446-5459 |
Publisher | IEEE |
DOI | 10.1109/EMBC.2018.8513539 |
Journal Article
A computational framework for testing arrhythmia marker sensitivities to model parameters in functionally calibrated populations of atrial cells
Chaos 27, no. 9 (2017).Status: Published
A computational framework for testing arrhythmia marker sensitivities to model parameters in functionally calibrated populations of atrial cells
Afilliation | Scientific Computing |
Project(s) | AFib-TrainNet: EU Training Network on Novel Targets and Methods in Atrial Fibrillation, Center for Biomedical Computing (SFF) |
Publication Type | Journal Article |
Year of Publication | 2017 |
Journal | Chaos |
Volume | 27 |
Issue | 9 |
Publisher | AIP |
DOI | 10.1063/1.4999476 |
Spatially Adaptive Multi-Scale Optimization for Local Parameter Estimation in Cardiac Electrophysiology
IEEE Transactions on Medical Imaging 36, no. 9 (2017): 1966-1978.Status: Published
Spatially Adaptive Multi-Scale Optimization for Local Parameter Estimation in Cardiac Electrophysiology
Afilliation | Scientific Computing |
Project(s) | No Simula project |
Publication Type | Journal Article |
Year of Publication | 2017 |
Journal | IEEE Transactions on Medical Imaging |
Volume | 36 |
Issue | 9 |
Pagination | 1966 - 1978 |
Date Published | Jan-09-2017 |
Publisher | IEEE Transactions on Medical Imaging |
ISSN | 0278-0062 |
URL | http://ieeexplore.ieee.org/document/7911242/http://ieeexplore.ieee.org/i... |
DOI | 10.1109/TMI.2017.2697820 |
Poster
A data-driven framework uncovers arrhythmogenic mechanisms in a 'functionally calibrated' population of models
Biophysical Society 61st Annual Meeting, New Orleans, Louisiana, USA, 2017.Status: Published
A data-driven framework uncovers arrhythmogenic mechanisms in a 'functionally calibrated' population of models
Human atrial cell models have been used to establish electrophysiological properties in normal sinus rhythm (nSR) or in atrial fibrillation (AF). However, the complexity of these models makes elucidation of the mechanisms underlying arrhythmigenic behavior difficult. This study presents a data-driven methodology that can be used to identify novel arrhythmogenic mechanisms in a 'functionally calibrated' populations of models.
Afilliation | Scientific Computing |
Project(s) | AFib-TrainNet: EU Training Network on Novel Targets and Methods in Atrial Fibrillation, Center for Biomedical Computing (SFF) |
Publication Type | Poster |
Year of Publication | 2017 |
Place Published | Biophysical Society 61st Annual Meeting, New Orleans, Louisiana, USA |
Proceedings, refereed
A multiple kernel learning framework to investigate the relationship between ventricular fibrillation and first myocardial infarction
In Functional Imaging and Modelling of the Heart. Springer, 2017.Status: Published
A multiple kernel learning framework to investigate the relationship between ventricular fibrillation and first myocardial infarction
Afilliation | Scientific Computing |
Project(s) | Center for Biomedical Computing (SFF) |
Publication Type | Proceedings, refereed |
Year of Publication | 2017 |
Conference Name | Functional Imaging and Modelling of the Heart |
Publisher | Springer |
ISBN Number | 978-3-319-59448-4 |
DOI | 10.1007/978-3-319-59448-4_16 |
Journal Article
A feasibility study of arrhythmia risk prediction in patients with myocardial infarction and preserved ejection fraction
EP Europace 18122835229411747171359456711565640366286299284923(Suppl 6)21052047111011842101213110, no. suppl_43 (2016): iv60-iv66.Status: Published
A feasibility study of arrhythmia risk prediction in patients with myocardial infarction and preserved ejection fraction
Afilliation | Scientific Computing |
Project(s) | No Simula project |
Publication Type | Journal Article |
Year of Publication | 2016 |
Journal | EP Europace |
Volume | 18122835229411747171359456711565640366286299284923(Suppl 6)21052047111011842101213110 |
Issue | suppl_43 |
Pagination | iv60 - iv66 |
Date Published | Nov-12-2017 |
Publisher | EP Europace |
ISSN | 1099-5129 |
URL | https://academic.oup.com/europace/article/18/suppl_4/iv60/2737179http://... |
DOI | 10.1093/europace/euw351 |
Arrhythmia risk stratification of patients after myocardial infarction using personalized heart models
Nature Communications 7 (2016).Status: Published
Arrhythmia risk stratification of patients after myocardial infarction using personalized heart models
Afilliation | Scientific Computing |
Project(s) | Center for Biomedical Computing (SFF) |
Publication Type | Journal Article |
Year of Publication | 2016 |
Journal | Nature Communications |
Volume | 7 |
Date Published | 05/2016 |
Publisher | Nature Publishing Group |
DOI | 10.1038/ncomms11437 |
Computational rabbit models to investigate the initiation, perpetuation, and termination of ventricular arrhythmia
Progress in Biophysics and Molecular Biology 121, no. 2 (2016): 185-194.Status: Published
Computational rabbit models to investigate the initiation, perpetuation, and termination of ventricular arrhythmia
Afilliation | Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2016 |
Journal | Progress in Biophysics and Molecular Biology |
Volume | 121 |
Issue | 2 |
Pagination | 185-194 |
Publisher | Elsevier |
Optogenetic defibrillation terminates ventricular arrhythmia in mouse hearts and human simulations
The Journal of Clnical Investigation 126, no. 10 (2016).Status: Published
Optogenetic defibrillation terminates ventricular arrhythmia in mouse hearts and human simulations
Afilliation | Scientific Computing |
Project(s) | Center for Biomedical Computing (SFF) |
Publication Type | Journal Article |
Year of Publication | 2016 |
Journal | The Journal of Clnical Investigation |
Volume | 126 |
Issue | 10 |
Publisher | American Society for Clinical Investigation |
DOI | 10.1172/JCI88950 |
Proceedings, refereed
From MR image to patient-specific simulation and population-based analysis:Tutorial for an openly available image-processing pipeline
In MICCAI Workshop on Statistical Atlases and Cardiac Models of the Heart. Berlin: Springer, 2016.Status: Published
From MR image to patient-specific simulation and population-based analysis:Tutorial for an openly available image-processing pipeline
Afilliation | Scientific Computing |
Project(s) | Center for Biomedical Computing (SFF) |
Publication Type | Proceedings, refereed |
Year of Publication | 2016 |
Conference Name | MICCAI Workshop on Statistical Atlases and Cardiac Models of the Heart |
Publisher | Springer |
Place Published | Berlin |
Journal Article
Accuracy of prediction of infarct-related arrhythmic circuits from image-based models reconstructed from low and high resolution MRI
Frontiers in Physiology 6, no. 282 (2015).Status: Published
Accuracy of prediction of infarct-related arrhythmic circuits from image-based models reconstructed from low and high resolution MRI
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2015 |
Journal | Frontiers in Physiology |
Volume | 6 |
Issue | 282 |
Publisher | Frontiers Media SA |
Image-based reconstruction of three-dimensional myocardial infarct geometry for patient-specific modeling of cardiac electrophysiology
Medical Physics 42, no. 8 (2015): 4579-90.Status: Published
Image-based reconstruction of three-dimensional myocardial infarct geometry for patient-specific modeling of cardiac electrophysiology
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2015 |
Journal | Medical Physics |
Volume | 42 |
Issue | 8 |
Pagination | 4579-90 |
Publisher | American Association of Physicists in Medicine |
Myocardial Infarct Segmentation from Magnetic Resonance Images for Personalized Modeling of Cardiac Electrophysiology
IEEE Transactions on Medical Imaaging (2015).Status: Published
Myocardial Infarct Segmentation from Magnetic Resonance Images for Personalized Modeling of Cardiac Electrophysiology
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2015 |
Journal | IEEE Transactions on Medical Imaaging |
Publisher | IEEE |
ISSN | 0278-0062 |
DOI | 10.1109/TMI.2015.2512711 |
Journal Article
Methodology for image-based reconstruction of ventricular geometry for patient-specific modeling of cardiac electrophysiology
Progress in Biophysics and Molecular Biology 115 (2014): 226-34.Status: Published
Methodology for image-based reconstruction of ventricular geometry for patient-specific modeling of cardiac electrophysiology
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2014 |
Journal | Progress in Biophysics and Molecular Biology |
Volume | 115 |
Pagination | 226-34 |
Publisher | Pergamon |
Sodium current reduction unmasks a structure-dependent substrate for arrhythmogenesis in the normal ventricles
PLOS ONE (2014).Status: Published
Sodium current reduction unmasks a structure-dependent substrate for arrhythmogenesis in the normal ventricles
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2014 |
Journal | PLOS ONE |
Publisher | Public Library of Science |
Journal Article
Feasibility of image-based simulation to estimate ablation target in human ventricular arrhythmia
Heart Rhythm (2013).Status: Published
Feasibility of image-based simulation to estimate ablation target in human ventricular arrhythmia
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2013 |
Journal | Heart Rhythm |
Publisher | Elsevier |
Tachycardia in post-infarction hearts: insights from 3D image-based ventricular models
PLOS ONE (2013).Status: Published
Tachycardia in post-infarction hearts: insights from 3D image-based ventricular models
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2013 |
Journal | PLOS ONE |
Publisher | PLOS ONE |
Journal Article
Image-based estimation of ventricular fiber orientations for personalized modeling of cardiac electrophysiology
IEEE Transactions on Medical Imaging 31, no. 5 (2012): 1051-1060.Status: Published
Image-based estimation of ventricular fiber orientations for personalized modeling of cardiac electrophysiology
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2012 |
Journal | IEEE Transactions on Medical Imaging |
Volume | 31 |
Issue | 5 |
Pagination | 1051-1060 |
Publisher | IEEE |
Three-dimensional mechanisms of increased vulnerability to electric shocks in myocardial infarction: Altered virtual electrode polarizations and conduction delay in the peri-infarct zone
Journal of Physiology 590 (2012): 4537-51.Status: Published
Three-dimensional mechanisms of increased vulnerability to electric shocks in myocardial infarction: Altered virtual electrode polarizations and conduction delay in the peri-infarct zone
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2012 |
Journal | Journal of Physiology |
Volume | 590 |
Pagination | 4537-51 |
Publisher | Blackwell Publishing Ltd |
Journal Article
Susceptibility to Reentry in the Infarcted Heart Depends on the Active Fibroblast Density
Biophysical Journal 110 (2011): 1307-15.Status: Published
Susceptibility to Reentry in the Infarcted Heart Depends on the Active Fibroblast Density
Afilliation | , Scientific Computing, Scientific Computing |
Project(s) | Center for Biomedical Computing (SFF) |
Publication Type | Journal Article |
Year of Publication | 2011 |
Journal | Biophysical Journal |
Volume | 110 |
Number | 6 |
Pagination | 1307-15 |
Date Published | September |
Journal Article
Fibroblast-Myocote Coupling Induces Alterations in Potassium Currents That Trigger Regional Action Potensial During (APD) Prolongation in Infarcted Myocardium
Heart Rhythm 7 (2010): 163-164.Status: Published
Fibroblast-Myocote Coupling Induces Alterations in Potassium Currents That Trigger Regional Action Potensial During (APD) Prolongation in Infarcted Myocardium
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2010 |
Journal | Heart Rhythm |
Volume | 7 |
Number | 5 |
Pagination | 163-164 |
Image-based models of cardiac structure in health and disease
Wiley Interdisciplinary Reviews: Systems Biology and Medicine (2010).Status: Published
Image-based models of cardiac structure in health and disease
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2010 |
Journal | Wiley Interdisciplinary Reviews: Systems Biology and Medicine |
Publisher | John Wiley & Sons, Inc. |
Poster
Effects of Fibroblast-Myocyte Coupling in the Infarcted Rabbit Heart
In Heart Rhythm. Vol. 6, 2009.Status: Published
Effects of Fibroblast-Myocyte Coupling in the Infarcted Rabbit Heart
Afilliation | Scientific Computing, , Scientific Computing |
Project(s) | Center for Biomedical Computing (SFF) |
Publication Type | Poster |
Year of Publication | 2009 |
Secondary Title | Heart Rhythm |
Date Published | May/2009 |
Journal Article
Towards predictive modelling of the electrophysiology of the heart
Experimental Physiology (2009).Status: Published
Towards predictive modelling of the electrophysiology of the heart
Afilliation | Scientific Computing, Scientific Computing |
Publication Type | Journal Article |
Year of Publication | 2009 |
Journal | Experimental Physiology |
Publisher | Blackwell Publishing Ltd |