A publicly available virtual cohort of fourchamber heart meshes for cardiac electromechanics simulations

Marina Strocchi; Christoph M. Augustin; Matthias A.F. Gsell; Elias Karabelas; Aurel Neic; Karli Gillette; Orod Razeghi; Anton J. Prassl; Edward J. Vigmond; Edward J. Vigmond; Jonathan M. Behar; Jonathan M. Behar; Justin Gould; Justin Gould; Baldeep Sidhu; Baldeep Sidhu; Christopher A. Rinaldi; Christopher A. Rinaldi; Martin J. Bishop; Gernot Plank; Steven A. Niederer

doi:10.1371/journal.pone.0235145

A publicly available virtual cohort of fourchamber heart meshes for cardiac electromechanics simulations

Marina Strocchi^*, Christoph M. Augustin, Matthias A.F. Gsell, Elias Karabelas, Aurel Neic, Karli Gillette, Orod Razeghi, Anton J. Prassl, Edward J. Vigmond, Edward J. Vigmond, Jonathan M. Behar, Jonathan M. Behar, Justin Gould, Justin Gould, Baldeep Sidhu, Baldeep Sidhu, Christopher A. Rinaldi, Christopher A. Rinaldi, Martin J. Bishop, Gernot PlankSteven A. Niederer

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

54 Citations (Scopus)

Abstract

Computational models of the heart are increasingly being used in the development of devices, patient diagnosis and therapy guidance. While software techniques have been developed for simulating single hearts, there remain significant challenges in simulating cohorts of virtual hearts from multiple patients. To facilitate the development of new simulation and model analysis techniques by groups without direct access to medical data, image analysis techniques and meshing tools, we have created the first publicly available virtual cohort of twenty-four four-chamber hearts. Our cohort was built from heart failure patients, age 67±14 years. We segmented four-chamber heart geometries from end-diastolic (ED) CT images and generated linear tetrahedral meshes with an average edge length of 1.1 ±0.2mm. Ventricular fibres were added in the ventricles with a rule-based method with an orientation of -60° and 80° at the epicardium and endocardium, respectively. We additionally refined the meshes to an average edge length of 0.39±0.10mm to show that all given meshes can be resampled to achieve an arbitrary desired resolution. We ran simulations for ventricular electrical activation and free mechanical contraction on all 1.1mm-resolution meshes to ensure that our meshes are suitable for electro-mechanical simulations. Simulations for electrical activation resulted in a total activation time of 149±16ms. Free mechanical contractions gave an average left ventricular (LV) and right ventricular (RV) ejection fraction (EF) of 35±1% and 30±2%, respectively, and a LV and RV stroke volume (SV) of 95±28mL and 65±11mL, respectively. By making the cohort publicly available, we hope to facilitate large cohort computational studies and to promote the development of cardiac computational electro-mechanics for clinical applications.

Original language	English
Article number	e0235145
Journal	PLoS ONE
Volume	15
Issue number	6 June
DOIs	https://doi.org/10.1371/journal.pone.0235145
Publication status	Published - Jun 2020

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Strocchi, M., Augustin, C. M., Gsell, M. A. F., Karabelas, E., Neic, A., Gillette, K., Razeghi, O., Prassl, A. J., Vigmond, E. J., Vigmond, E. J., Behar, J. M., Behar, J. M., Gould, J., Gould, J., Sidhu, B., Sidhu, B., Rinaldi, C. A., Rinaldi, C. A., Bishop, M. J., ... Niederer, S. A. (2020). A publicly available virtual cohort of fourchamber heart meshes for cardiac electromechanics simulations. PLoS ONE, 15(6 June), [e0235145]. https://doi.org/10.1371/journal.pone.0235145

@article{8e89c4c2261b4d24b69a970fbe326399,

title = "A publicly available virtual cohort of fourchamber heart meshes for cardiac electromechanics simulations",

abstract = "Computational models of the heart are increasingly being used in the development of devices, patient diagnosis and therapy guidance. While software techniques have been developed for simulating single hearts, there remain significant challenges in simulating cohorts of virtual hearts from multiple patients. To facilitate the development of new simulation and model analysis techniques by groups without direct access to medical data, image analysis techniques and meshing tools, we have created the first publicly available virtual cohort of twenty-four four-chamber hearts. Our cohort was built from heart failure patients, age 67±14 years. We segmented four-chamber heart geometries from end-diastolic (ED) CT images and generated linear tetrahedral meshes with an average edge length of 1.1 ±0.2mm. Ventricular fibres were added in the ventricles with a rule-based method with an orientation of -60° and 80° at the epicardium and endocardium, respectively. We additionally refined the meshes to an average edge length of 0.39±0.10mm to show that all given meshes can be resampled to achieve an arbitrary desired resolution. We ran simulations for ventricular electrical activation and free mechanical contraction on all 1.1mm-resolution meshes to ensure that our meshes are suitable for electro-mechanical simulations. Simulations for electrical activation resulted in a total activation time of 149±16ms. Free mechanical contractions gave an average left ventricular (LV) and right ventricular (RV) ejection fraction (EF) of 35±1% and 30±2%, respectively, and a LV and RV stroke volume (SV) of 95±28mL and 65±11mL, respectively. By making the cohort publicly available, we hope to facilitate large cohort computational studies and to promote the development of cardiac computational electro-mechanics for clinical applications.",

author = "Marina Strocchi and Augustin, {Christoph M.} and Gsell, {Matthias A.F.} and Elias Karabelas and Aurel Neic and Karli Gillette and Orod Razeghi and Prassl, {Anton J.} and Vigmond, {Edward J.} and Vigmond, {Edward J.} and Behar, {Jonathan M.} and Behar, {Jonathan M.} and Justin Gould and Justin Gould and Baldeep Sidhu and Baldeep Sidhu and Rinaldi, {Christopher A.} and Rinaldi, {Christopher A.} and Bishop, {Martin J.} and Gernot Plank and Niederer, {Steven A.}",

year = "2020",

month = jun,

doi = "10.1371/journal.pone.0235145",

language = "English",

volume = "15",

journal = "PLoS ONE",

issn = "1932-6203",

publisher = "Public Library of Science",

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Strocchi, M, Augustin, CM, Gsell, MAF, Karabelas, E, Neic, A, Gillette, K, Razeghi, O, Prassl, AJ, Vigmond, EJ, Vigmond, EJ, Behar, JM, Behar, JM, Gould, J , Gould, J , Sidhu, B, Sidhu, B, Rinaldi, CA , Rinaldi, CA , Bishop, MJ, Plank, G & Niederer, SA 2020, 'A publicly available virtual cohort of fourchamber heart meshes for cardiac electromechanics simulations', PLoS ONE, vol. 15, no. 6 June, e0235145. https://doi.org/10.1371/journal.pone.0235145

TY - JOUR

T1 - A publicly available virtual cohort of fourchamber heart meshes for cardiac electromechanics simulations

AU - Strocchi, Marina

AU - Augustin, Christoph M.

AU - Gsell, Matthias A.F.

AU - Karabelas, Elias

AU - Neic, Aurel

AU - Gillette, Karli

AU - Razeghi, Orod

AU - Prassl, Anton J.

AU - Vigmond, Edward J.

AU - Behar, Jonathan M.

AU - Gould, Justin

AU - Sidhu, Baldeep

AU - Rinaldi, Christopher A.

AU - Bishop, Martin J.

AU - Plank, Gernot

AU - Niederer, Steven A.

PY - 2020/6

Y1 - 2020/6

N2 - Computational models of the heart are increasingly being used in the development of devices, patient diagnosis and therapy guidance. While software techniques have been developed for simulating single hearts, there remain significant challenges in simulating cohorts of virtual hearts from multiple patients. To facilitate the development of new simulation and model analysis techniques by groups without direct access to medical data, image analysis techniques and meshing tools, we have created the first publicly available virtual cohort of twenty-four four-chamber hearts. Our cohort was built from heart failure patients, age 67±14 years. We segmented four-chamber heart geometries from end-diastolic (ED) CT images and generated linear tetrahedral meshes with an average edge length of 1.1 ±0.2mm. Ventricular fibres were added in the ventricles with a rule-based method with an orientation of -60° and 80° at the epicardium and endocardium, respectively. We additionally refined the meshes to an average edge length of 0.39±0.10mm to show that all given meshes can be resampled to achieve an arbitrary desired resolution. We ran simulations for ventricular electrical activation and free mechanical contraction on all 1.1mm-resolution meshes to ensure that our meshes are suitable for electro-mechanical simulations. Simulations for electrical activation resulted in a total activation time of 149±16ms. Free mechanical contractions gave an average left ventricular (LV) and right ventricular (RV) ejection fraction (EF) of 35±1% and 30±2%, respectively, and a LV and RV stroke volume (SV) of 95±28mL and 65±11mL, respectively. By making the cohort publicly available, we hope to facilitate large cohort computational studies and to promote the development of cardiac computational electro-mechanics for clinical applications.

AB - Computational models of the heart are increasingly being used in the development of devices, patient diagnosis and therapy guidance. While software techniques have been developed for simulating single hearts, there remain significant challenges in simulating cohorts of virtual hearts from multiple patients. To facilitate the development of new simulation and model analysis techniques by groups without direct access to medical data, image analysis techniques and meshing tools, we have created the first publicly available virtual cohort of twenty-four four-chamber hearts. Our cohort was built from heart failure patients, age 67±14 years. We segmented four-chamber heart geometries from end-diastolic (ED) CT images and generated linear tetrahedral meshes with an average edge length of 1.1 ±0.2mm. Ventricular fibres were added in the ventricles with a rule-based method with an orientation of -60° and 80° at the epicardium and endocardium, respectively. We additionally refined the meshes to an average edge length of 0.39±0.10mm to show that all given meshes can be resampled to achieve an arbitrary desired resolution. We ran simulations for ventricular electrical activation and free mechanical contraction on all 1.1mm-resolution meshes to ensure that our meshes are suitable for electro-mechanical simulations. Simulations for electrical activation resulted in a total activation time of 149±16ms. Free mechanical contractions gave an average left ventricular (LV) and right ventricular (RV) ejection fraction (EF) of 35±1% and 30±2%, respectively, and a LV and RV stroke volume (SV) of 95±28mL and 65±11mL, respectively. By making the cohort publicly available, we hope to facilitate large cohort computational studies and to promote the development of cardiac computational electro-mechanics for clinical applications.

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U2 - 10.1371/journal.pone.0235145

DO - 10.1371/journal.pone.0235145

M3 - Article

C2 - 32589679

AN - SCOPUS:85087321059

SN - 1932-6203

VL - 15

JO - PLoS ONE

JF - PLoS ONE

IS - 6 June

M1 - e0235145

ER -

A publicly available virtual cohort of fourchamber heart meshes for cardiac electromechanics simulations

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