A completely automated pipeline for 3D reconstruction of human heart from 2D cine magnetic resonance slices

Cardiac magnetic resonance (CMR) imaging is a valuable modality in the diagnosis and characterization of cardiovascular diseases, since it can identify abnormalities in structure and function of the myocardium non-invasively and without the need for ionizing radiation. However, in clinical practice, it is commonly acquired as a collection of separated and independent 2D image planes, which limits its accuracy in 3D analysis. This paper presents a completely automated pipeline for generating patient-specific 3D biventricular heart models from cine magnetic resonance (MR) slices. Our pipeline automatically selects the relevant cine MR images, segments them using a deep learning-based method to extract the heart contours, and aligns the contours in 3D space correcting possible misalignments due to breathing or subject motion first using the intensity and contours information from the cine data and next with the help of a statistical shape model. Finally, the sparse 3D representation of the contours is used to generate a smooth 3D biventricular mesh. The computational pipeline is applied and evaluated in a CMR dataset of 20 healthy subjects. Our results show an average reduction of misalignment artefacts from 1.82 ± 1.60 mm to 0.72 ± 0.73 mm over 20 subjects, in terms of distance from the final reconstructed mesh. The high-resolution 3D biventricular meshes obtained with our computational pipeline are used for simulations of electrical activation patterns, showing agreement with non-invasive electrocardiographic imaging. The automatic methodologies presented here for patient-specific MR imaging-based 3D biventricular representations contribute to the efficient realization of precision medicine, enabling the enhanced interpretability of clinical data, the digital twin vision through patient-specific image-based modelling and simulation, and augmented reality applications. This article is part of the theme issue ‘Advanced computation in cardiovascular physiology: new challenges and opportunities’.

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The ENIGMA Brain Injury Working Group: Approach, Challenges, and Potential Benefits

10.31234/osf.io/t96xb ◽

2019 ◽

Cited By ~ 7

Author(s):

Elisabeth A. Wilde ◽

Emily L. Dennis ◽

David F Tate

Keyword(s):

Brain Injury ◽

Working Group ◽

Meta Analysis ◽

Special Issue ◽

Group Approach ◽

Challenges And Opportunities ◽

Brain Structure And Function ◽

Potential Benefits ◽

And Function ◽

Neuroimaging Genetics

The Enhancing NeuroImaging Genetics through Meta-Analysis (ENIGMA) consortium brings together researchers from around the world to try to identify the genetic underpinnings of brain structure and function, along with robust, generalizable effects of neurological and psychiatric disorders. The recently-formed ENIGMA Brain Injury working group includes 8 subgroups, based largely on injury mechanism and patient population. This introduction to the special issue summarizes the history, organization, and objectives of ENIGMA Brain Injury, and includes a discussion of strategies, challenges, opportunities and goals common across 6 of the subgroups under the umbrella of ENIGMA Brain Injury. The following articles in this special issue, including 6 articles from different subgroups, will detail the challenges and opportunities specific to each subgroup.

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Value of Magnetic Resonance Imaging in Assessing Patency and Function of Coronary Artery Bypass Grafts

Circulation ◽

10.1161/01.cir.93.4.660 ◽

1996 ◽

Vol 93 (4) ◽

pp. 660-666 ◽

Cited By ~ 81

Author(s):

Michel A. Galjee ◽

Albert C. van Rossum ◽

Teddo Doesburg ◽

Machiel J. van Eenige ◽

Cees A. Visser

Keyword(s):

Magnetic Resonance Imaging ◽

Coronary Artery ◽

Magnetic Resonance ◽

Coronary Artery Bypass ◽

Artery Bypass ◽

Coronary Artery Bypass Grafts ◽

Resonance Imaging ◽

Bypass Grafts ◽

And Function

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Custom, spray coated receive coils for magnetic resonance imaging

Scientific Reports ◽

10.1038/s41598-021-81833-0 ◽

2021 ◽

Vol 11 (1) ◽

Author(s):

A. M. Zamarayeva ◽

K. Gopalan ◽

J. R. Corea ◽

M. Z. Liu ◽

K. Pang ◽

...

Keyword(s):

Magnetic Resonance Imaging ◽

Magnetic Resonance ◽

Silver Nanoparticle ◽

Material Selection ◽

Spray Deposition ◽

Dielectric Materials ◽

Patient Specific ◽

High Signal ◽

Resonance Imaging ◽

3D Printed

AbstractWe have developed a process for fabricating patient specific Magnetic Resonance Imaging (MRI) Radio-frequency (RF) receive coil arrays using additive manufacturing. Our process involves spray deposition of silver nanoparticle inks and dielectric materials onto 3D printed substrates to form high-quality resonant circuits. In this paper, we describe the material selection and characterization, process optimization, and design and testing of a prototype 4-channel neck array for carotid imaging. We show that sprayed polystyrene can form a low loss dielectric layer in a parallel plate capacitor. We also demonstrate that by using sprayed silver nanoparticle ink as conductive traces, our devices are still dominated by sample noise, rather than material losses. These results are critical for maintaining high Signal-to-Noise-Ratio (SNR) in clinical settings. Finally, our prototype patient specific coil array exhibits higher SNR (5 × in the periphery, 1.4 × in the center) than a commercially available array designed to fit the majority of subjects when tested on our custom neck phantom. 3D printed substrates ensure an optimum fit to complex body parts, improve diagnostic image quality, and enable reproducible placement on subjects.

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Variation of the Three-Dimensional Femoral J-Curve in the Native Knee

Journal of Personalized Medicine ◽

10.3390/jpm11070592 ◽

2021 ◽

Vol 11 (7) ◽

pp. 592

Author(s):

Sonja A. G. A. Grothues ◽

Klaus Radermacher

Keyword(s):

Geometric Parameter ◽

Knee Kinematics ◽

Size Variation ◽

Principal Component ◽

Parameter Analysis ◽

Patient Specific ◽

3D Analysis ◽

Relative Location ◽

Shape Variation ◽

J Curve

The native femoral J-Curve is known to be a relevant determinant of knee biomechanics. Similarly, after total knee arthroplasty, the J-Curve of the femoral implant component is reported to have a high impact on knee kinematics. The shape of the native femoral J-Curve has previously been analyzed in 2D, however, the knee motion is not planar. In this study, we investigated the J-Curve in 3D by principal component analysis (PCA) and the resulting mean shapes and modes by geometric parameter analysis. Surface models of 90 cadaveric femora were available, 56 male, 32 female and two without respective information. After the translation to a bone-specific coordinate system, relevant contours of the femoral condyles were derived using virtual rotating cutting planes. For each derived contour, an extremum search was performed. The extremum points were used to define the 3D J-Curve of each condyle. Afterwards a PCA and a geometric parameter analysis were performed on the medial and lateral 3D J-Curves. The normalized measures of the mean shapes and the aspects of shape variation of the male and female 3D J-Curves were found to be similar. When considering both female and male J-Curves in a combined analysis, the first mode of the PCA primarily consisted of changes in size, highlighting size differences between female and male femora. Apart from changes in size, variation regarding aspect ratio, arc lengths, orientation, circularity, as well as regarding relative location of the 3D J-Curves was found. The results of this study are in agreement with those of previous 2D analyses on shape and shape variation of the femoral J-Curves. The presented 3D analysis highlights new aspects of shape variability, e.g., regarding curvature and relative location in the transversal plane. Finally, the analysis presented may support the design of (patient-specific) femoral implant components for TKA.

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A feasibility study of a novel, task-specific movement training intervention for women with patellofemoral pain

Clinical Rehabilitation ◽

10.1177/0269215517723055 ◽

2017 ◽

Vol 32 (2) ◽

pp. 179-190 ◽

Cited By ~ 4

Author(s):

Gretchen B Salsich ◽

Barbara Yemm ◽

Karen Steger-May ◽

Catherine E Lang ◽

Linda R Van Dillen

Keyword(s):

Weight Bearing ◽

Knee Kinematics ◽

Frontal Plane ◽

Patellofemoral Pain ◽

Patient Specific ◽

Training Intervention ◽

Specific Training ◽

Intervention Effects ◽

And Function ◽

Treatment Credibility

Objective: To investigate whether a novel, task-specific training intervention that focused on correcting pain-producing movement patterns was feasible and whether it would improve hip and knee kinematics, pain, and function in women with patellofemoral pain. Design: Prospective, non-randomized, within-group, double baseline, feasibility intervention study. Subjects: A total of 25 women with patellofemoral pain were enrolled. Intervention: The intervention, delivered 2×/week for six weeks, consisted of supervised, high-repetition practice of daily weight-bearing and recreational activities. Activities were selected and progressed based on participants’ interest and ability to maintain optimal alignment without increasing pain. Main measures: Primary feasibility outcomes were recruitment, retention, adherence, and treatment credibility (Credibility/Expectancy Questionnaire). Secondary outcomes assessing intervention effects were hip and knee kinematics, pain (visual analog scale: current, average in past week, maximum in past week), and function (Patient-Specific Functional Scale). Results: A total of 25 participants were recruited and 23 were retained (92% retention). Self-reported average daily adherence was 79% and participants were able to perform their prescribed home program correctly (reduced hip and knee frontal plane angles) by the second intervention visit. On average, treatment credibility was rated 25 (out of 27) and expectancy was rated 22 (out of 27). Hip and knee kinematics, pain, and function improved following the intervention when compared to the control phase. Conclusion: Based on the feasibility outcomes and preliminary intervention effects, this task-specific training intervention warrants further investigation and should be evaluated in a larger, randomized clinical trial.

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