arXiv subjects

Daniel B. Ennis

Publications and source records attributed to Daniel B. Ennis.

10 recordsLinked to original sources

arXiv2026

Image-Based Whole-Heart Cardiac Flow Simulations in Health and Congenital Heart Disease

Intracardiac flow patterns are shaped by the coupled motion of the cardiac chambers and heart valves and provide important information about cardiac function. However, clinical flow imaging remains limited by exam times, noise, resolution, and incomplete details of the three-dimensional flow. Computational fluid dynamics (CFD) can potentially provide detailed flow quantification and predictive insight into treatment outcomes, but clinical translation requires frameworks that reproduce patient-specific measurements while balancing physiological realism, computational cost, and modeling effort. Herein, we present an image-based, patient-specific computational framework for simulating whole-heart intracardiac hemodynamics that balances physiological fidelity with computational efficiency. The framework first employs machine learning-based segmentation and mesh propagation to reconstruct moving cardiac anatomies from time-resolved images. CFD simulations are then performed to resolve blood flow in deforming domains, while resistive immersed surfaces (RIS) are used to model all four cardiac valves with physiologically realistic opening and closing dynamics. The framework was applied to model hemodynamics in a healthy adult and a pediatric patient with complex congenital heart disease (CHD). In the healthy case, the simulations reproduced physiologic pressure-volume behavior, valve timing, and ventricular vortex formation. In the CHD case, simulated chamber and vessel pressures showed agreement with cardiac catheterization measurements. Simulated flow fields were qualitatively consistent with 4D-Flow MRI, while providing higher-resolution visualization of flow structures that were partially obscured by imaging artifacts. Comparison between the healthy and CHD cases further revealed altered diastolic flow organization and elevated normalized viscous dissipation in the CHD heart.

eess.IV↗

arXiv2026

Cardiac mechanics modeling: recent developments and current challenges

Patient-specific computational models of the heart are powerful tools for cardiovascular research and medicine, with demonstrated applications in treatment planning, device evaluation, and surgical decision-making. Yet constructing such models is inherently difficult, reflecting the extraordinary complexity of the heart itself. Numerous considerations are required, including reconstructing the anatomy from medical images, representing myocardial mesostructure, capturing material behavior, defining model geometry and boundary conditions, coupling multiple physics, and selecting numerical methods. Many of these choices involve a tradeoff between physiological fidelity and modeling complexity. In this review, we summarize recent advances and unresolved questions in each of these areas, with particular emphasis on cardiac tissue mechanics. We argue that clarifying which complexities are essential, and which can be safely simplified, will be key to enabling clinical translation of these models.

physics.med-ph↗

arXiv2025

Towards Modality- and Sampling-Universal Learning Strategies for Accelerating Cardiovascular Imaging: Summary of the CMRxRecon2024 Challenge

Cardiovascular health is vital to human well-being, and cardiac magnetic resonance (CMR) imaging is considered the {clinical reference standard} for diagnosing cardiovascular disease. However, its adoption is hindered by long scan times, complex contrasts, and inconsistent quality. While deep learning methods perform well on specific CMR imaging {sequences}, they often fail to generalize across modalities and sampling schemes. The lack of benchmarks for high-quality, fast CMR image reconstruction further limits technology comparison and adoption. The CMRxRecon2024 challenge, attracting over 200 teams from 18 countries, addressed these issues with two tasks: generalization to unseen {modalities} and robustness to diverse undersampling patterns. We introduced the largest public multi-{modality} CMR raw dataset, an open benchmarking platform, and shared code. Analysis of the best-performing solutions revealed that prompt-based adaptation and enhanced physics-driven consistency enabled strong cross-scenario performance. These findings establish principles for generalizable reconstruction models and advance clinically translatable AI in cardiovascular imaging.

eess.IV↗

arXiv2025

Comprehensive Analysis of Relative Pressure Estimation Methods Utilizing 4D Flow MRI

Magnetic resonance imaging (MRI) can estimate three-dimensional (3D) time-resolved relative pressure fields using 4D-flow MRI, thereby providing rich pressure field information. Clinical alternatives include catheterization and Doppler echocardiography, which only provide one-dimensional pressure drops. The accuracy of one-dimensional pressure drops derived from 4D-flow has been explored previously, but additional work is needed to evaluate the accuracy of 3D relative pressure field estimates. This work presents an analysis of three state-of-the-art relative pressure estimators: virtual Work-Energy Relative Pressure (vWERP), the Pressure Poisson Estimator (PPE), and the Stokes Estimator (STE). The spatiotemporal characteristics and sensitivity to noise were determined in silico. Estimators were then validated using a type B aortic dissection (TBAD) flow phantom with varying tear geometry and twelve catheter pressure measurements. Finally, the performance of each estimator was evaluated across eight patient cases. In silico pressure field errors were lower in STE compared to PPE, although PPE pressures were less noise sensitive. High velocity gradients and low spatial resolution contributed most significantly to local variations in 3D pressure field errors. Low temporal resolution lead to systematic underestimation of highly transient peak pressure events. In the flow phantom analysis, vWERP was the most accurate method, followed by STE and PPE. Each pressure estimator was strongly correlated with ground truth pressure values, despite the tendency to underestimate peak pressures. Patient case results demonstrated that each pressure estimator could be feasibly integrated into a clinical workflow.

physics.flu-dyn↗

arXiv2024

On the Foundation Model for Cardiac MRI Reconstruction

In recent years, machine learning (ML) based reconstruction has been widely investigated and employed in cardiac magnetic resonance (CMR) imaging. ML-based reconstructions can deliver clinically acceptable image quality under substantially accelerated scans. ML-based reconstruction, however, also requires substantial data and computational time to train the neural network, which is often optimized for a fixed acceleration rate or image contrast. In practice, imaging parameters are often tuned to best suit the diagnosis, which may differ from the training data. This can result in degraded image quality, and multiple trained networks are needed to fulfill the clinical demands. In this study, we propose a foundation model that uses adaptive unrolling, channel-shifting, and Pattern and Contrast-Prompt-UNet (PCP-UNet) to tackle the problem. In particular, the undersampled data goes through a different number of unrolled iterations according to its acceleration rate. Channel-shifting improves reconstructed data quality. The PCP-UNet is equipped with an image contrast and sampling pattern prompt. In vivo CMR experiments were performed using mixed combinations of image contrasts, acceleration rates, and (under)sampling patterns. The proposed foundation model has significantly improved image quality for a wide range of CMR protocols and outperforms the conventional ML-based method.

eess.IV↗

arXiv2023

SDF4CHD: Generative Modeling of Cardiac Anatomies with Congenital Heart Defects

Congenital heart disease (CHD) encompasses a spectrum of cardiovascular structural abnormalities, often requiring customized treatment plans for individual patients. Computational modeling and analysis of these unique cardiac anatomies can improve diagnosis and treatment planning and may ultimately lead to improved outcomes. Deep learning (DL) methods have demonstrated the potential to enable efficient treatment planning by automating cardiac segmentation and mesh construction for patients with normal cardiac anatomies. However, CHDs are often rare, making it challenging to acquire sufficiently large patient cohorts for training such DL models. Generative modeling of cardiac anatomies has the potential to fill this gap via the generation of virtual cohorts; however, prior approaches were largely designed for normal anatomies and cannot readily capture the significant topological variations seen in CHD patients. Therefore, we propose a type- and shape-disentangled generative approach suitable to capture the wide spectrum of cardiac anatomies observed in different CHD types and synthesize differently shaped cardiac anatomies that preserve the unique topology for specific CHD types. Our DL approach represents generic whole heart anatomies with CHD type-specific abnormalities implicitly using signed distance fields (SDF) based on CHD type diagnosis, which conveniently captures divergent anatomical variations across different types and represents meaningful intermediate CHD states. To capture the shape-specific variations, we then learn invertible deformations to morph the learned CHD type-specific anatomies and reconstruct patient-specific shapes. Our approach has the potential to augment the image-segmentation pairs for rarer CHD types for cardiac segmentation and generate cohorts of CHD cardiac meshes for computational simulation.

q-bio.TO↗

arXiv2023

Coil Sketching for computationally-efficient MR iterative reconstruction

Purpose: Parallel imaging and compressed sensing reconstructions of large MRI datasets often have a prohibitive computational cost that bottlenecks clinical deployment, especially for 3D non-Cartesian acquisitions. One common approach is to reduce the number of coil channels actively used during reconstruction as in coil compression. While effective for Cartesian imaging, coil compression inherently loses signal energy, producing shading artifacts that compromise image quality for 3D non-Cartesian imaging. We propose coil sketching, a general and versatile method for computationally-efficient iterative MR image reconstruction. Theory and Methods: We based our method on randomized sketching algorithms, a type of large-scale optimization algorithms well established in the fields of machine learning and big data analysis. We adapt the sketching theory to the MRI reconstruction problem via a structured sketching matrix that, similar to coil compression, considers high-energy virtual coils obtained from principal component analysis. But, unlike coil compression, it also considers random linear combinations of the remaining low-energy coils, effectively leveraging information from all coils. Results: First, we performed ablation experiments to validate the sketching matrix design on both Cartesian and non-Cartesian datasets. The resulting design yielded both improved computational efficiency and preserved signal-to-noise ratio (SNR) as measured by the inverse g-factor. Then, we verified the efficacy of our approach on high-dimensional non-Cartesian 3D cones datasets, where coil sketching yielded up to three-fold faster reconstructions with equivalent image quality. Conclusion: Coil sketching is a general and versatile reconstruction framework for computationally fast and memory-efficient reconstruction.

eess.IV↗

arXiv2023

Hemodynamic Effects of Entry and Exit Tear Size in Aortic Dissection Evaluated with In Vitro Magnetic Resonance Imaging and Fluid-Structure Interaction Simulation

Understanding the complex interplay between morphologic and hemodynamic features in aortic dissection is critical for risk stratification and for the development of individualized therapy. This work evaluates the effects of entry and exit tear size on the hemodynamics in type B aortic dissection by comparing fluid-structure interaction (FSI) simulations with in vitro 4D-flow magnetic resonance imaging (MRI). A baseline patient-specific 3D-printed model and two variants with modified tear size (smaller entry tear, smaller exit tear) were embedded into a flow- and pressure-controlled setup to perform MRI as well as 12-point catheter-based pressure measurements. The same models defined the wall and fluid domains for FSI simulations, for which boundary conditions were matched with measured data. Results showed exceptionally well matched complex flow patterns between 4D-flow MRI and FSI simulations. Compared to the baseline model, false lumen flow volume decreased with either a smaller entry tear (-17.8 and -18.5 %, for FSI simulation and 4D-flow MRI, respectively) or smaller exit tear (-16.0 and -17.3 %). True to false lumen pressure difference (initially 11.0 and 7.9 mmHg, for FSI simulation and catheter-based pressure measurements, respectively) increased with a smaller entry tear (28.9 and 14.6 mmHg), and became negative with a smaller exit tear (-20.6 and -13.2 mmHg). This work establishes quantitative and qualitative effects of entry or exit tear size on hemodynamics in aortic dissection, with particularly notable impact observed on FL pressurization. FSI simulations demonstrate acceptable qualitative and quantitative agreement with flow imaging, supporting its deployment in clinical studies.

physics.flu-dyn↗

arXiv2022

Validation of the Reduced Unified Continuum Formulation Against In Vitro 4D-Flow MRI

In our recent work, we introduced the reduced unified continuum formulation for vascular fluid-structure interaction (FSI) and demonstrated enhanced solver accuracy, scalability, and performance compared to conventional approaches. We further verified the formulation against Womersley's deformable wall theory. In this study, we assessed its performance in a compliant patient-specific aortic model by leveraging 3D printing, 2D magnetic resonance imaging (MRI), and 4D-flow MRI to extract high-resolution anatomical and hemodynamic information from an in vitro flow circuit. To accurately reflect experimental conditions, we additionally enabled in-plane vascular motion at each inlet and outlet, and implemented viscoelastic external tissue support and vascular tissue prestressing. Validation of our formulation is achieved through close quantitative agreement in pressures, lumen area changes, pulse wave velocity, and early systolic velocities, as well as qualitative agreement in late systolic flow structures. Our validated suite of FSI techniques can be used to investigate vascular disease initiation, progression, and treatment at a computational cost on the same order as that of rigid-walled simulations. This study is the first to validate a cardiovascular FSI formulation against an in vitro flow circuit involving a compliant vascular phantom of complex patient-specific anatomy.

physics.comp-ph↗

arXiv2021

Quantitative Hemodynamics in Aortic Dissection: Comparing in vitro MRI with FSI Simulation in a Compliant Model

The analysis of quantitative hemodynamics and luminal pressure may add valuable information to aid treatment strategies and prognosis for aortic dissections. This work directly compared in vitro 4D-flow magnetic resonance imaging (MRI), catheter-based pressure measurements, and computational fluid dynamics that integrated fluid-structure interaction (CFD FSI). Experimental data was acquired with a compliant 3D-printed model of a type-B aortic dissection (TBAD) that was embedded into a physiologically tuned flow circuit. In vitro flow and pressure information were used to tune the CFD FSI Windkessel boundary conditions. Results showed very good overall agreement of complex flow patterns, true to false lumen flow splits, and pressure distribution. This work demonstrates feasibility of a tunable experimental setup that integrates a patient-specific compliant model and provides a test bed for exploring critical imaging and modeling parameters that ultimately may improve the prognosis for patients with aortic dissections.

physics.flu-dyn↗