583 research outputs found
Development of ultrasonic methods for hemodynamic measurements
A transcutanous method to measure instantaneous mean blood flow in peripheral arteries of the human body was defined. Transcutanous and implanted cuff ultrasound velocity measurements were evaluated, and the accuracies of velocity, flow, and diameter measurements were assessed for steady flow. Performance criteria were established for the pulsed Doppler velocity meter (PUDVM), and performance tests were conducted. Several improvements are suggested
Which spring is the best? Comparison of methods for virtual stenting.
This paper presents a methodology for modeling the deployment of implantable devices used in minimally invasive vascular interventions. Motivated by the clinical need to perform preinterventional rehearsals of a stent deployment, we have developed methods enabling virtual device placement inside arteries, under the constraint of real-time application. This requirement of rapid execution narrowed down the search for a suitable method to the concept of a dynamic mesh. Inspired by the idea of a mesh of springs, we have found a novel way to apply it to stent modeling. The experiments conducted in this paper investigate properties of the stent models based on three different spring types: lineal, semitorsional, and torsional springs. Furthermore, this paper compares the results of various deployment scenarios for two different classes of devices: a stent graft and a flow diverter. The presented results can be of a high-potential clinical value, enabling the predictive evaluation of the outcome of a stent deployment treatment
Characterizing Single Ventricle Patient-Specific Anatomy Using Segmentation of MRI and 3D Reconstruction to Aid Surgical Planning
Single ventricle congenital heart defects occur 2 per every 1000 live births in the USA. In these cases, cyanosis occurs due to the mixing of venous deoxygenated blood and oxygenated blood from the lungs. These defects are surgically treated by the total cavo-pulmonary connection (TCPC), where the superior and inferior vena cavae are connected to the pulmonary arteries routing the systemic venous return directly to the lungs. However, this Fontan repair results in high energy losses and therefore the optimization of this connection prior to the surgery could significantly improve post-operative performance. In this paper, the in-house segmentation and 3D reconstruction scheme is used in the following studies. First, 3D geometrical analysis of the TCPCs is used to determine the advantages and disadvantages of two commonly performed TCPC palliations intra-atrial and extra-cardiac configurations. Then, a surgical planning outline is proposed with segmentation of pre and post surgical Magnetic Resonance Imaging (MRI) data followed by the 3D reconstruction with emphasis on extracting surrounding vessels and structures. A pediatric surgeon performs a virtual surgery on the reconstruction of the patient s pre-Fontan anatomy prior to the actual surgery. A segmentation of the heart, aorta and surrounding vessels superimposed with the Glenn, when used with the SURGEM® tool, simulates the actual Fontan operation. This outline allows the surgeon to envision numerous scenarios of possible surgical options, and accordingly to predict the post operative procedures. The segmentation tool is improved upon to increase the accuracy and efficiency of the process and enhance the quality of the anatomical reconstructions.Committee Member/Second Reader: Kartik S. Sundareswaran; Faculty Mentor: Dr. Ajit P. Yoganatha
Modeling and hexahedral meshing of cerebral arterial networks from centerlines
Computational fluid dynamics (CFD) simulation provides valuable information
on blood flow from the vascular geometry. However, it requires extracting
precise models of arteries from low-resolution medical images, which remains
challenging. Centerline-based representation is widely used to model large
vascular networks with small vessels, as it encodes both the geometric and
topological information and facilitates manual editing. In this work, we
propose an automatic method to generate a structured hexahedral mesh suitable
for CFD directly from centerlines. We addressed both the modeling and meshing
tasks. We proposed a vessel model based on penalized splines to overcome the
limitations inherent to the centerline representation, such as noise and
sparsity. The bifurcations are reconstructed using a parametric model based on
the anatomy that we extended to planar n-furcations. Finally, we developed a
method to produce a volume mesh with structured, hexahedral, and flow-oriented
cells from the proposed vascular network model. The proposed method offers
better robustness to the common defects of centerlines and increases the mesh
quality compared to state-of-the-art methods. As it relies on centerlines
alone, it can be applied to edit the vascular model effortlessly to study the
impact of vascular geometry and topology on hemodynamics. We demonstrate the
efficiency of our method by entirely meshing a dataset of 60 cerebral vascular
networks. 92% of the vessels and 83% of the bifurcations were meshed without
defects needing manual intervention, despite the challenging aspect of the
input data. The source code is released publicly
Inferring Geodesic Cerebrovascular Graphs: Image Processing, Topological Alignment and Biomarkers Extraction
A vectorial representation of the vascular network that embodies quantitative features - location, direction, scale, and bifurcations - has many potential neuro-vascular applications. Patient-specific models support computer-assisted surgical procedures in neurovascular interventions, while analyses on multiple subjects are essential for group-level studies on which clinical prediction and therapeutic inference ultimately depend. This first motivated the development of a variety of methods to segment the cerebrovascular system. Nonetheless, a number of limitations, ranging from data-driven inhomogeneities, the anatomical intra- and inter-subject variability, the lack of exhaustive ground-truth, the need for operator-dependent processing pipelines, and the highly non-linear vascular domain, still make the automatic inference of the cerebrovascular topology an open problem. In this thesis, brain vessels’ topology is inferred by focusing on their connectedness. With a novel framework, the brain vasculature is recovered from 3D angiographies by solving a connectivity-optimised anisotropic level-set over a voxel-wise tensor field representing the orientation of the underlying vasculature. Assuming vessels joining by minimal paths, a connectivity paradigm is formulated to automatically determine the vascular topology as an over-connected geodesic graph. Ultimately, deep-brain vascular structures are extracted with geodesic minimum spanning trees. The inferred topologies are then aligned with similar ones for labelling and propagating information over a non-linear vectorial domain, where the branching pattern of a set of vessels transcends a subject-specific quantized grid. Using a multi-source embedding of a vascular graph, the pairwise registration of topologies is performed with the state-of-the-art graph matching techniques employed in computer vision. Functional biomarkers are determined over the neurovascular graphs with two complementary approaches. Efficient approximations of blood flow and pressure drop account for autoregulation and compensation mechanisms in the whole network in presence of perturbations, using lumped-parameters analog-equivalents from clinical angiographies. Also, a localised NURBS-based parametrisation of bifurcations is introduced to model fluid-solid interactions by means of hemodynamic simulations using an isogeometric analysis framework, where both geometry and solution profile at the interface share the same homogeneous domain. Experimental results on synthetic and clinical angiographies validated the proposed formulations. Perspectives and future works are discussed for the group-wise alignment of cerebrovascular topologies over a population, towards defining cerebrovascular atlases, and for further topological optimisation strategies and risk prediction models for therapeutic inference. Most of the algorithms presented in this work are available as part of the open-source package VTrails
Computerized Analysis of Magnetic Resonance Images to Study Cerebral Anatomy in Developing Neonates
The study of cerebral anatomy in developing neonates is of great importance for
the understanding of brain development during the early period of life. This
dissertation therefore focuses on three challenges in the modelling of cerebral
anatomy in neonates during brain development. The methods that have been
developed all use Magnetic Resonance Images (MRI) as source data.
To facilitate study of vascular development in the neonatal period, a set of image
analysis algorithms are developed to automatically extract and model cerebral
vessel trees. The whole process consists of cerebral vessel tracking from
automatically placed seed points, vessel tree generation, and vasculature
registration and matching. These algorithms have been tested on clinical Time-of-
Flight (TOF) MR angiographic datasets.
To facilitate study of the neonatal cortex a complete cerebral cortex segmentation
and reconstruction pipeline has been developed. Segmentation of the neonatal
cortex is not effectively done by existing algorithms designed for the adult brain
because the contrast between grey and white matter is reversed. This causes pixels
containing tissue mixtures to be incorrectly labelled by conventional methods. The
neonatal cortical segmentation method that has been developed is based on a novel
expectation-maximization (EM) method with explicit correction for mislabelled
partial volume voxels. Based on the resulting cortical segmentation, an implicit
surface evolution technique is adopted for the reconstruction of the cortex in
neonates. The performance of the method is investigated by performing a detailed
landmark study.
To facilitate study of cortical development, a cortical surface registration algorithm
for aligning the cortical surface is developed. The method first inflates extracted
cortical surfaces and then performs a non-rigid surface registration using free-form
deformations (FFDs) to remove residual alignment. Validation experiments using
data labelled by an expert observer demonstrate that the method can capture local
changes and follow the growth of specific sulcus
High-quality conforming hexahedral meshes of patient-specific abdominal aortic aneurysms including their intraluminal thrombi
In order to perform finite element (FE) analyses of patient-specific abdominal aortic aneurysms, geometries derived from medical images must be meshed with suitable elements. We propose a semi-automatic method for generating conforming hexahedral meshes directly from contours segmented from medical images. Magnetic resonance images are generated using a protocol developed to give the abdominal aorta high contrast against the surrounding soft tissue. These data allow us to distinguish between the different structures of interest. We build novel quadrilateral meshes for each surface of the sectioned geometry and generate conforming hexahedral meshes by combining the quadrilateral meshes. The three-layered morphology of both the arterial wall and thrombus is incorporated using parameters determined from experiments. We demonstrate the quality of our patient-specific meshes using the element Scaled Jacobian. The method efficiently generates high-quality elements suitable for FE analysis, even in the bifurcation region of the aorta into the iliac arteries. For example, hexahedral meshes of up to 125,000 elements are generated in less than 130 s, with 94.8 % of elements well suited for FE analysis. We provide novel input for simulations by independently meshing both the arterial wall and intraluminal thrombus of the aneurysm, and their respective layered morphologies
Vessel Tree Reconstruction with Divergence Prior
Accurate structure analysis of high-resolution 3D biomedical images of vessels is a challenging issue and in demand for medical diagnosis nowadays. Previous curvature regularization based methods [10, 31] give promising results. However, their mathematical models are not designed for bifurcations and generate significant artifacts in such areas. To address the issue, we propose a new geometric regularization principle for reconstructing vector fields based on prior knowledge about their divergence. In our work, we focus on vector fields modeling blood flow pattern that should be divergent in arteries and convergent in veins. We show that this previously ignored regularization constraint can significantly improve the quality of vessel tree reconstruction particularly around bifurcations where non-zero divergence is concentrated. Our divergence prior is critical for resolving (binary) sign ambiguity in flow orientations produced by standard vessel filters, e:g: Frangi. Our vessel tree centerline reconstruction combines divergence constraints with robust curvature regularization. Our unsupervised method can reconstruct complete vessel trees with near-capillary details on both synthetic and real 3D volumes. Also, our method reduces angular reconstruction errors at bifurcations by a factor of two
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