Calibration of single-cell model parameters based on membrane resistance improves the accuracy of cardiac tissue simulations

Pouranbarani, Elnaz; Berg, Lucas Arantes; Oliveira, Rafael Sachetto; Santos, Rodrigo Weber dos; Nygren, Anders

doi:10.1016/j.jocs.2021.101375

Cited by 2 publications

(4 citation statements)

References 37 publications

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“…Fig 10 shows the case where we assimilate the new data to create a new populations of solutions PO • , that comprises the 300 solutions with smallest overall fitness, see Eq (7) . A Pareto front [ 35 ] can be easily spotted highlighting the compromise between the two different datasets. Figs 11 and 12 show how these new populations evaluated under the SCI protocol, PO TP | SCI , and PO ST | SCI , can better reproduce the two different data for the TP| SCI , and ST| SCI cases, respectively.…”

Section: Resultsmentioning

confidence: 99%

“…However, it is worth noting from Figs 11 and 12 that the propagation of the uncertainties in the parameters [ 36 ] have a high impact on the waveforms of [ Ca ] i . Since both x 2 and x 3 are related to calcium-dependent inactivation, it is worth including both I CaL and [ Ca ] i in a future work that uses multi-ojective optimization tools, such as those described in [ 35 , 37 ].…”

Section: Resultsmentioning

confidence: 99%

“…Nevertheless, the population’s average error of some biomarkers (see Table 1 ) increased from 4–5%, for the control case (or training data), to 20–30%, for the new data (test data). In the case this new level of error is unacceptable, the solution would be to repeat the calibration process including the new data via multi-objective optimization tools, such as those described in [ 35 , 37 ], and further speedup up the process with emulators as described in [ 40 ].…”

Section: Discussionmentioning

confidence: 99%

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An ensemble of parameters from a robust Markov-based model reproduces L-type calcium currents from different human cardiac myocytes

et al. 2022

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The development of modeling structures at the channel level that can integrate subcellular and cell models and properly reproduce different experimental data is of utmost importance in cardiac electrophysiology. In contrast to gate-based models, Markov Chain models are well suited to promote the integration of the subcellular level of the cardiomyocyte to the whole cell. In this paper, we develop Markov Chain models for the L-type Calcium current that can reproduce the electrophysiology of two established human models for the ventricular and Purkinje cells. In addition, instead of presenting a single set of parameters, we present a collection of set of parameters employing Differential Evolution algorithms that can properly reproduce very different protocol data. We show the importance of using an ensemble of a set of parameter values to obtain proper results when considering a second protocol that suppresses calcium inactivation and mimics a pathological condition. We discuss how model discrepancy, data availability, and parameter identifiability can influence the choice of the size of the collection. In summary, we have modified two cardiac models by proposing new Markov Chain models for the L-type Calcium. We keep the original whole-cell dynamics by reproducing the same characteristic action potential and calcium dynamics, whereas the Markov chain-based description of the L-type Calcium channels allows novel small spatial scale simulations of subcellular processes. Finally, the use of collections of parameters was crucial for addressing model discrepancy, identifiability issues, and avoiding fitting parameters overly precisely, i.e., overfitting.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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An ensemble of parameters from a robust Markov-based model reproduces L-type calcium currents from different human cardiac myocytes

et al. 2022

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“…Os artigos publicados associados à tese [Berg 2022] são: [Ulysses et al 2018, Berg et al 2019, Walz et al 2020, Lawson et al 2020, Pouranbarani et al 2020, Pouranbarani et al 2021].…”

Section: Produc ¸ãO Científicaunclassified

Generation and Uncertainty Quantification of Patient-specific Purkinje Network Models

Berg,

Queiroz,

Cherry

et al. 2023

Anais Estendidos Do XXIII Simpósio Brasileiro De Computação Aplicada À Saúde (SBCAS 2023)

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As redes de Purkinje são uma parte fundamental do sistema de condução cardíaco e são conhecidas por iniciar uma variedade de arritmias. No entanto, a modelagem específica das redes de Purkinje de um paciente permanece desafiadora devido à alta complexidade morfológica e à falta de técnicas de imagem não invasivas para identificar estas estruturas. Esta tese tem como objetivo apresentar um novo método baseado em princípios de otimização para a geração de redes de Purkinje que combinam precisão geométrica e elétrica no tamanho do ramo, ângulos de bifurcação e ativação das Junções-Músculo-Purkinje. Os resultados demonstram que o novo método é capaz de gerar redes de Purkinje específicas de paciente com métricas morfológicas controladas e tempos de ativação especificados nas Junções-Músculo-Purkinje.

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Calibration of single-cell model parameters based on membrane resistance improves the accuracy of cardiac tissue simulations

Cited by 2 publications

References 37 publications

An ensemble of parameters from a robust Markov-based model reproduces L-type calcium currents from different human cardiac myocytes

An ensemble of parameters from a robust Markov-based model reproduces L-type calcium currents from different human cardiac myocytes

Generation and Uncertainty Quantification of Patient-specific Purkinje Network Models

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