Literature DB >> 29238826

A Re-Engineered Software Interface and Workflow for the Open-Source SimVascular Cardiovascular Modeling Package.

Hongzhi Lan1, Adam Updegrove2, Nathan M Wilson3, Gabriel D Maher4, Shawn C Shadden2, Alison L Marsden5,4,6.   

Abstract

Patient-specific simulation plays an important role in cardiovascular disease research, diagnosis, surgical planning and medical device design, as well as education in cardiovascular biomechanics. simvascular is an open-source software package encompassing an entire cardiovascular modeling and simulation pipeline from image segmentation, three-dimensional (3D) solid modeling, and mesh generation, to patient-specific simulation and analysis. SimVascular is widely used for cardiovascular basic science and clinical research as well as education, following increased adoption by users and development of a GATEWAY web portal to facilitate educational access. Initial efforts of the project focused on replacing commercial packages with open-source alternatives and adding increased functionality for multiscale modeling, fluid-structure interaction (FSI), and solid modeling operations. In this paper, we introduce a major SimVascular (SV) release that includes a new graphical user interface (GUI) designed to improve user experience. Additional improvements include enhanced data/project management, interactive tools to facilitate user interaction, new boundary condition (BC) functionality, plug-in mechanism to increase modularity, a new 3D segmentation tool, and new computer-aided design (CAD)-based solid modeling capabilities. Here, we focus on major changes to the software platform and outline features added in this new release. We also briefly describe our recent experiences using SimVascular in the classroom for bioengineering education.

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Year:  2018        PMID: 29238826      PMCID: PMC5816252          DOI: 10.1115/1.4038751

Source DB:  PubMed          Journal:  J Biomech Eng        ISSN: 0148-0731            Impact factor:   2.097


  55 in total

1.  Coronary angiography with multi-slice computed tomography.

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2.  Hemodynamic shear stress and its role in atherosclerosis.

Authors:  A M Malek; S L Alper; S Izumo
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3.  Wall shear stress exposure time: a Lagrangian measure of near-wall stagnation and concentration in cardiovascular flows.

Authors:  Amirhossein Arzani; Alberto M Gambaruto; Guoning Chen; Shawn C Shadden
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4.  Outflow boundary conditions for 3D simulations of non-periodic blood flow and pressure fields in deformable arteries.

Authors:  I E Vignon-Clementel; C A Figueroa; K E Jansen; C A Taylor
Journal:  Comput Methods Biomech Biomed Engin       Date:  2010-10       Impact factor: 1.763

5.  Carotid bifurcation atherosclerosis. Quantitative correlation of plaque localization with flow velocity profiles and wall shear stress.

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6.  Flow simulations and validation for the first cohort of patients undergoing the Y-graft Fontan procedure.

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7.  Noninvasive CT-Derived FFR Based on Structural and Fluid Analysis: A Comparison With Invasive FFR for Detection of Functionally Significant Stenosis.

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Journal:  JACC Cardiovasc Imaging       Date:  2016-10-19

8.  Reduced expression of endothelial nitric oxide synthase in the lungs of patients with pulmonary hypertension.

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Journal:  N Engl J Med       Date:  1995-07-27       Impact factor: 91.245

9.  Automated medical image segmentation techniques.

Authors:  Neeraj Sharma; Lalit M Aggarwal
Journal:  J Med Phys       Date:  2010-01

10.  Topology of blood transport in the human left ventricle by novel processing of Doppler echocardiography.

Authors:  Sahar Hendabadi; Javier Bermejo; Yolanda Benito; Raquel Yotti; Francisco Fernández-Avilés; Juan C del Álamo; Shawn C Shadden
Journal:  Ann Biomed Eng       Date:  2013-07-02       Impact factor: 3.934

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  16 in total

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2.  An Experimental-Computational Approach to Quantify Blood Rheology in Sickle Cell Disease.

Authors:  Marisa S Bazzi; José M Valdez; Victor H Barocas; David K Wood
Journal:  Biophys J       Date:  2020-10-20       Impact factor: 4.033

3.  Fluid-structure interaction modeling of blood flow in the pulmonary arteries using the unified continuum and variational multiscale formulation.

Authors:  Ju Liu; Weiguang Yang; Ingrid S Lan; Alison L Marsden
Journal:  Mech Res Commun       Date:  2020-06-27       Impact factor: 2.254

4.  The effects of clinically-derived parametric data uncertainty in patient-specific coronary simulations with deformable walls.

Authors:  Jongmin Seo; Daniele E Schiavazzi; Andrew M Kahn; Alison L Marsden
Journal:  Int J Numer Method Biomed Eng       Date:  2020-06-25       Impact factor: 2.747

5.  Experimental and Mouse-Specific Computational Models of the Fbln4SMKO Mouse to Identify Potential Biomarkers for Ascending Thoracic Aortic Aneurysm.

Authors:  Marisa S Bazzi; Ramin Balouchzadeh; Shawn N Pavey; James D Quirk; Hiromi Yanagisawa; Vijay Vedula; Jessica E Wagenseil; Victor H Barocas
Journal:  Cardiovasc Eng Technol       Date:  2022-01-22       Impact factor: 2.305

6.  The comparative effects of high fat diet or disturbed blood flow on glycocalyx integrity and vascular inflammation.

Authors:  Ronodeep Mitra; Ju Qiao; Sudharsan Madhavan; Gerard L O'Neil; Bailey Ritchie; Praveen Kulkarni; Srinivas Sridhar; Anne L van de Ven; Erica M Cherry Kemmerling; Craig Ferris; James A Hamilton; Eno E Ebong
Journal:  Transl Med Commun       Date:  2018-11-22

7.  Numerical Study of Atrial Fibrillation Effects on Flow Distribution in Aortic Circulation.

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Journal:  Ann Biomed Eng       Date:  2020-01-14       Impact factor: 3.934

8.  Patient-Specific Computational Fluid Dynamics Reveal Localized Flow Patterns Predictive of Post-Left Ventricular Assist Device Aortic Incompetence.

Authors:  Rohan Shad; Alexander D Kaiser; Sandra Kong; Robyn Fong; Nicolas Quach; Cayley Bowles; Patpilai Kasinpila; Yasuhiro Shudo; Jeffrey Teuteberg; Y Joseph Woo; Alison L Marsden; William Hiesinger
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Review 9.  Exercise MRI highlights heterogeneity in cardiovascular mechanics among patients with Fontan circulation: proposed protocol for routine evaluation.

Authors:  Francisco Contijoch; Bochao Li; Weiguang Yang; Jose A Silva-Sepulveda; Irine Vodkin; Beth Printz; Vera Vavinskaya; Sanjeet Hegde; Alison Marsden; Hannah El-Sabrout; Laith Alshawabkeh; John W Moore; Howaida El-Said
Journal:  J Thorac Dis       Date:  2020-03       Impact factor: 3.005

10.  Patient-specific computational flow modelling for assessing hemodynamic changes following fenestrated endovascular aneurysm repair.

Authors:  Kenneth Tran; Weiguang Yang; Alison Marsden; Jason T Lee
Journal:  JVS Vasc Sci       Date:  2021-03-03
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