Automated generation of 0D and 1D reduced-order models of patient-specific blood flow

Three-dimensional (3D) cardiovascular fluid dynamics simulations typically require hours to days of computing time on a high-performance computer. One-dimensional (1D) and lumped-parameter zero-dimensional (0D) models show great promise for accurately predicting blood flow and pressure with only a fraction of the cost. They can accelerate uncertainty quantification, optimization, and design parameterization studies. Previously, these models needed to be created laboriously by hand, and this limited assessment of their approximation accuracy to very few models in prior studies. This work proposes a fully automated and openly available framework to generate and simulate 0D and 1D models from 3D patient-specific geometries. Our only input is the 3D geometry; we do not use any prior knowledge from 3D simulations. All computational tools presented in this work are implemented in the open-source software platform SimVascular. We demonstrate the reduced-order approximation quality against full 3D solutions in a comprehensive comparison with N = 73 publicly available models from various anatomies, vessel types, and disease conditions. Relative average approximation errors of flows and pressures typically ranged from 1 % to 10 % for both 0D and 1D models, at the caps and inside the vessel branches. Though they have minimally higher approximation errors than 1D, we recommend using 0D models due to their robustness and computational efficiency. Automatically generated reduced-order models can significantly speed up model development and shift the computational load from high-performance to personal computers.

[1]  S. Diamond,et al.  A 1D–3D Hybrid Model of Patient-Specific Coronary Hemodynamics , 2021, Cardiovascular Engineering and Technology.

[2]  J. Alastruey,et al.  A systematic comparison between 1‐D and 3‐D hemodynamics in compliant arterial models , 2014, International journal for numerical methods in biomedical engineering.

[3]  S. Sherwin,et al.  Pulse wave propagation in a model human arterial network: Assessment of 1-D visco-elastic simulations against in vitro measurements , 2011, Journal of biomechanics.

[4]  Charles A. Taylor,et al.  Computational simulations for aortic coarctation: representative results from a sampling of patients. , 2011, Journal of biomechanical engineering.

[5]  C Chnafa,et al.  Improved reduced-order modelling of cerebrovascular flow distribution by accounting for arterial bifurcation pressure drops. , 2017, Journal of biomechanics.

[6]  Uri M. Ascher,et al.  Computer methods for ordinary differential equations and differential-algebraic equations , 1998 .

[7]  Alison L. Marsden,et al.  Multi-fidelity estimators for coronary circulation models under clinically-informed data uncertainty , 2019 .

[8]  T David,et al.  One-dimensional and three-dimensional models of cerebrovascular flow. , 2005, Journal of biomechanical engineering.

[9]  Vartan Kurtcuoglu,et al.  Reduced-order modeling of blood flow for noninvasive functional evaluation of coronary artery disease , 2019, Biomechanics and Modeling in Mechanobiology.

[10]  Simone Deparis,et al.  Model order reduction of flow based on a modular geometrical approximation of blood vessels , 2020, Computer methods in applied mechanics and engineering.

[11]  Mette S Olufsen,et al.  Structured tree outflow condition for blood flow in larger systemic arteries. , 1999, American journal of physiology. Heart and circulatory physiology.

[12]  S. Diamond,et al.  Reduced order models for transstenotic pressure drop in the coronary arteries. , 2019, Journal of biomechanical engineering.

[13]  J. P. Mynard,et al.  A unified method for estimating pressure losses at vascular junctions , 2015, International journal for numerical methods in biomedical engineering.

[14]  Thomas J. R. Hughes,et al.  In vivo validation of a one-dimensional finite-element method for predicting blood flow in cardiovascular bypass grafts , 2003, IEEE Transactions on Biomedical Engineering.

[15]  Paolo Crosetto,et al.  Physiological simulation of blood flow in the aorta: comparison of hemodynamic indices as predicted by 3-D FSI, 3-D rigid wall and 1-D models. , 2013, Medical engineering & physics.

[16]  Lucas O. Müller,et al.  A benchmark study of numerical schemes for one‐dimensional arterial blood flow modelling , 2015, International journal for numerical methods in biomedical engineering.

[17]  N. Stergiopulos,et al.  Validation of a one-dimensional model of the systemic arterial tree. , 2009, American journal of physiology. Heart and circulatory physiology.

[18]  Timothy J. Gundert,et al.  Optical Coherence Tomography for Patient-specific 3D Artery Reconstruction and Evaluation of Wall Shear Stress in a Left Circumflex Coronary Artery , 2011 .

[19]  Lucas O. Müller,et al.  On the anatomical definition of arterial networks in blood flow simulations: comparison of detailed and simplified models , 2020, Biomechanics and Modeling in Mechanobiology.

[20]  Charles A. Taylor,et al.  Outflow boundary conditions for one-dimensional finite element modeling of blood flow and pressure waves in arteries , 2004 .

[21]  A. Marsden,et al.  Predictive modeling of the virtual Hemi-Fontan operation for second stage single ventricle palliation: two patient-specific cases. , 2013, Journal of biomechanics.

[22]  William J. Schroeder,et al.  Visualizing with VTK: A Tutorial , 2000, IEEE Computer Graphics and Applications.

[23]  P. Perdikaris,et al.  Machine learning in cardiovascular flows modeling: Predicting arterial blood pressure from non-invasive 4D flow MRI data using physics-informed neural networks , 2019 .

[24]  Alison L. Marsden,et al.  Optimization of shunt placement for the Norwood surgery using multi-domain modeling. , 2012, Journal of biomechanical engineering.

[25]  Alfio Quarteroni,et al.  Geometric multiscale modeling of the cardiovascular system, between theory and practice , 2016 .

[26]  Yuri Bazilevs,et al.  A new preconditioning technique for implicitly coupled multidomain simulations with applications to hemodynamics , 2013 .

[27]  Charles A. Taylor,et al.  Patient-Specific Modeling of Blood Flow and Pressure in Human Coronary Arteries , 2010, Annals of Biomedical Engineering.

[28]  Charles A. Taylor,et al.  Computational simulations demonstrate altered wall shear stress in aortic coarctation patients treated by resection with end-to-end anastomosis. , 2011, Congenital heart disease.

[29]  Alison L. Marsden,et al.  Fluid Mechanics of Mixing in the Vertebrobasilar System: Comparison of Simulation and MRI , 2012, Cardiovascular Engineering and Technology.

[30]  Masaharu Kobayashi,et al.  Development of a Numerical Method for Patient-Specific Cerebral Circulation Using 1D–0D Simulation of the Entire Cardiovascular System with SPECT Data , 2015, Annals of Biomedical Engineering.

[31]  L. Franca,et al.  Stabilized finite element methods. II: The incompressible Navier-Stokes equations , 1992 .

[32]  A. Quarteroni,et al.  Model reduction techniques for fast blood flow simulation in parametrized geometries , 2012, International journal for numerical methods in biomedical engineering.

[33]  Dorin Comaniciu,et al.  Non-Invasive Hemodynamic Assessment of Aortic Coarctation: Validation with In Vivo Measurements , 2013, Annals of Biomedical Engineering.

[34]  I. Vignon-Clementel,et al.  Three-dimensional simulations in Glenn patients: clinically based boundary conditions, hemodynamic results and sensitivity to input data. , 2011, Journal of biomechanical engineering.

[35]  Charles A. Taylor,et al.  Outflow boundary conditions for three-dimensional finite element modeling of blood flow and pressure in arteries , 2006 .

[36]  Alison L. Marsden,et al.  The effects of clinically‐derived parametric data uncertainty in patient‐specific coronary simulations with deformable walls , 2019, International journal for numerical methods in biomedical engineering.

[37]  Charles A. Taylor,et al.  Predicting changes in blood flow in patient-specific operative plans for treating aortoiliac occlusive disease , 2005, Computer aided surgery : official journal of the International Society for Computer Aided Surgery.

[38]  Justin S Tran,et al.  Automated Tuning for Parameter Identification and Uncertainty Quantification in Multi-scale Coronary Simulations. , 2017, Computers & fluids.

[39]  Nikos Stergiopulos,et al.  Patient-specific mean pressure drop in the systemic arterial tree, a comparison between 1-D and 3-D models. , 2012, Journal of biomechanics.

[40]  Alison L. Marsden,et al.  SimVascular: An Open Source Pipeline for Cardiovascular Simulation , 2017, Annals of Biomedical Engineering.

[41]  A. Quarteroni,et al.  Analysis of lumped parameter models for blood flow simulations and their relation with 1D models , 2004 .

[42]  A. Avolio,et al.  Multi-branched model of the human arterial system , 1980, Medical and Biological Engineering and Computing.

[43]  B. P. Patel,et al.  Computationally efficient finite element formulation for blood flow analysis in multi‐layered aorta modeled as viscoelastic material , 2021, International Journal for Numerical Methods in Engineering.

[44]  S. Shadden,et al.  A Distributed Lumped Parameter Model of Blood Flow , 2020, Annals of Biomedical Engineering.

[45]  G. Karniadakis,et al.  Modeling Blood Flow Circulation in Intracranial Arterial Networks: A Comparative 3D/1D Simulation Study , 2010, Annals of Biomedical Engineering.

[46]  Thomas J. R. Hughes,et al.  Finite element modeling of blood flow in arteries , 1998 .

[47]  S. Sherwin,et al.  Pulse wave propagation in a model human arterial network: assessment of 1-D numerical simulations against in vitro measurements. , 2007, Journal of biomechanics.

[48]  Lucas O Müller,et al.  A global multiscale mathematical model for the human circulation with emphasis on the venous system , 2014, International journal for numerical methods in biomedical engineering.

[49]  Nathan M Wilson,et al.  The Vascular Model Repository: A Public Resource of Medical Imaging Data and Blood Flow Simulation Results. , 2013, Journal of medical devices.

[50]  J. Murillo,et al.  Computational hemodynamics in arteries with the one-dimensional augmented fluid-structure interaction system: viscoelastic parameters estimation and comparison with in-vivo data , 2019, Journal of biomechanics.

[51]  S. Błoński,et al.  Impact of inertia and channel angles on flow distribution in microfluidic junctions , 2020 .

[52]  Ryan J. Pewowaruk,et al.  Accelerated Estimation of Pulmonary Artery Stenosis Pressure Gradients with Distributed Lumped Parameter Modeling vs. 3D CFD with Instantaneous Adaptive Mesh Refinement: Experimental Validation in Swine , 2021, Annals of Biomedical Engineering.

[53]  F. Migliavacca,et al.  Multiscale modelling in biofluidynamics: application to reconstructive paediatric cardiac surgery. , 2006, Journal of biomechanics.

[54]  Thomas J. R. Hughes,et al.  On the one-dimensional theory of blood flow in the larger vessels , 1973 .

[55]  Jing Wan,et al.  A One-dimensional Finite Element Method for Simulation-based Medical Planning for Cardiovascular Disease , 2002, Computer methods in biomechanics and biomedical engineering.

[56]  Kenneth E. Jansen,et al.  Developing computational methods for three-dimensional finite element simulations of coronary blood flow , 2010 .

[57]  C A Taylor,et al.  Outflow boundary conditions for 3D simulations of non-periodic blood flow and pressure fields in deformable arteries , 2010, Computer methods in biomechanics and biomedical engineering.

[58]  J. LaDisa,et al.  A coupled experimental and computational approach to quantify deleterious hemodynamics, vascular alterations, and mechanisms of long-term morbidity in response to aortic coarctation. , 2012, Journal of pharmacological and toxicological methods.

[59]  Giancarlo Pennati,et al.  Patient‐specific parameter estimation in single‐ventricle lumped circulation models under uncertainty , 2017, International journal for numerical methods in biomedical engineering.

[60]  Alison L. Marsden,et al.  On the periodicity of cardiovascular fluid dynamics simulations , 2021, Annals of biomedical engineering.

[61]  Alison L. Marsden,et al.  A modular numerical method for implicit 0D/3D coupling in cardiovascular finite element simulations , 2013, J. Comput. Phys..

[62]  Gianluca Geraci,et al.  Multilevel and multifidelity uncertainty quantification for cardiovascular hemodynamics. , 2019, Computer methods in applied mechanics and engineering.

[63]  A. Marsden,et al.  Image-based modeling of hemodynamics in coronary artery aneurysms caused by Kawasaki disease , 2011, Biomechanics and Modeling in Mechanobiology.

[64]  Alison L. Marsden,et al.  A concurrent implementation of the surrogate management framework with application to cardiovascular shape optimization , 2020, Optimization and Engineering.

[65]  David A. Steinman,et al.  An image-based modeling framework for patient-specific computational hemodynamics , 2008, Medical & Biological Engineering & Computing.

[66]  David A. Steinman,et al.  A Framework for Geometric Analysis of Vascular Structures: Application to Cerebral Aneurysms , 2009, IEEE Transactions on Medical Imaging.

[67]  A F W van der Steen,et al.  Geometry-based pressure drop prediction in mildly diseased human coronary arteries. , 2014, Journal of biomechanics.

[68]  Charles A. Taylor,et al.  A new multiparameter approach to computational simulation for Fontan assessment and redesign. , 2010, Congenital heart disease.

[69]  Kenneth E. Jansen,et al.  A stabilized finite element method for the incompressible Navier–Stokes equations using a hierarchical basis , 2001 .

[71]  Alison L. Marsden,et al.  Patient-Specific Multiscale Modeling of Blood Flow for Coronary Artery Bypass Graft Surgery , 2012, Annals of Biomedical Engineering.

[72]  I E Vignon-Clementel,et al.  Uncertainty quantification in virtual surgery hemodynamics predictions for single ventricle palliation , 2016, International journal for numerical methods in biomedical engineering.