Segmentation-based blood flow parameter refinement in cerebrovascular structures using 4D arterial spin labeling MRA

Objective: Cerebrovascular diseases are one of the main global causes of death and disability in the adult population. The preferred imaging modality for the diagnostic routine is digital subtraction angiography, an invasive modality. Time-resolved three-dimensional arterial spin labeling magnetic resonance angiography (4D ASL MRA) is an alternative non-invasive modality, which captures morphological and blood flow data of the cerebrovascular system, with high spatial and temporal resolution. This work proposes advanced medical image processing methods that extract the anatomical and hemodynamic information contained in 4D ASL MRA datasets. Methods: A previously published segmentation method, which uses blood flow data to improve its accuracy, is extended to estimate blood flow parameters by fitting a mathematical model to the measured vascular signal. The estimated values are then refined using regression techniques within the cerebrovascular segmentation. The proposed method was evaluated using fifteen 4D ASL MRA phantoms, with ground-truth morphological and hemodynamic data, fifteen 4D ASL MRA datasets acquired from healthy volunteers, and two 4D ASL MRA datasets from patients with a stenosis. Results: The proposed method reached an average Dice similarity coefficient of 0.957 and 0.938 in the phantom and real dataset segmentation evaluations, respectively. The estimated blood flow parameter values are more similar to the ground-truth values after the refinement step, when using phantoms. A qualitative analysis showed that the refined blood flow estimation is more realistic compared to the raw hemodynamic parameters. Conclusion: The proposed method can provide accurate segmentations and blood flow parameter estimations in the cerebrovascular system using 4D ASL MRA datasets. Significance: The information obtained with the proposed method can help clinicians and researchers to study the cerebrovascular system non-invasively

Coronary Artery Segmentation and Motion Modelling

Conventional coronary artery bypass surgery requires invasive sternotomy and the use of a cardiopulmonary bypass, which leads to long recovery period and has high infectious potential. Totally endoscopic coronary artery bypass (TECAB) surgery based on image guided robotic surgical approaches have been developed to allow the clinicians to conduct the bypass surgery off-pump with only three pin holes incisions in the chest cavity, through which two robotic arms and one stereo endoscopic camera are inserted. However, the restricted field of view of the stereo endoscopic images leads to possible vessel misidentification and coronary artery mis-localization. This results in 20-30% conversion rates from TECAB surgery to the conventional approach. We have constructed patient-specific 3D + time coronary artery and left ventricle motion models from preoperative 4D Computed Tomography Angiography (CTA) scans. Through temporally and spatially aligning this model with the intraoperative endoscopic views of the patient's beating heart, this work assists the surgeon to identify and locate the correct coronaries during the TECAB precedures. Thus this work has the prospect of reducing the conversion rate from TECAB to conventional coronary bypass procedures. This thesis mainly focus on designing segmentation and motion tracking methods of the coronary arteries in order to build pre-operative patient-specific motion models. Various vessel centreline extraction and lumen segmentation algorithms are presented, including intensity based approaches, geometric model matching method and morphology-based method. A probabilistic atlas of the coronary arteries is formed from a group of subjects to facilitate the vascular segmentation and registration procedures. Non-rigid registration framework based on a free-form deformation model and multi-level multi-channel large deformation diffeomorphic metric mapping are proposed to track the coronary motion. The methods are applied to 4D CTA images acquired from various groups of patients and quantitatively evaluated

Magnetic Resonance Imaging of the Neonatal Cardiovascular System : Impact of Patent Ductus Arteriosus

The incidence of premature birth is increasing in absolute number and as a proportion of all births around the world. Many pathologies seen in this cohort are related to abnormal blood supply. Fetal and premature cardiovascular systems differ greatly as to maintain adequate blood flow to the developing organs in the uterine and extra-uterine environments require very different circulations. Subsequently following preterm birth the immature cardiovascular system undergoes abrupt adaptations, often resulting in the prolonged patency of the fetal shunt, ductus arteriosus. The impact of a patent ductus arteriosus (PDA) is poorly understood. However it is thought that large ductal shunt volumes may result in congestive cardiac failure and systemic hypo-­‐perfusion. Cardiac MRI has contributed greatly to the understanding of many cardiovascular diseases and congenital defects in paediatric and adult patients. Translating these imaging techniques to assess the preterm cardiovascular system requires careful optimization due to their condition, size and significantly increased heart rate. The work presented in this thesis employs multiple functional CMR techniques to investigate the preterm cardiovascular system in the presence and absence of PDA and the resultant cardiac function. A novel technique utilizing PC MRI to quantify PDA shunt volume and its impact on flow distribution is presented. Despite large shunt volumes, systemic circulation remained within normal range, although slight reduction is detectable when assessed at group level. Subsequently the impact of PDA and associated increased work load on left ventricular dimensions and function was then investigated using SSFP imaging. Results indicated that cardiac function was maintained even in the presence of large shunt volumes. Finally 4D PC sequences were employed to evaluate pulse wave velocity and flow regime within the preterm aorta, demonstrating the feasibility of hemodynamic assessment in this cohort. The findings of these studies provide insight into the impact of PDA. The reliable measurement and assessment of preterm cardiovascular system provides the potential to improve the understanding of the development and effects of certain pathologies seen in this cohort.Open Acces

From the macro- to the microvasculature : temporal and spatial visualization using arterial spin labeling

For many cerebrovascular diseases, visualization of blood flow through the large vasculature, as well as quantitative information on tissue perfusion, is very important. Arterial Spin labelling (ASL) magnetic resonance (MR) imaging enables the visualization of arterial flow by labelling the magnetization of arterial blood using radiofrequency pulses. The labelled arterial blood acts as an endogenous tracer and allows, which can avoid the reliance on the use of contrast agents. In this doctoral thesis, several new techniques for dynamic MR angiography and perfusion imaging were developed based on ASL techniques, which include pulsed ASL, pseudo-continuous ASL (pCASL), vessel-encoded pCASL, time-encoded pCASL as well as simultaneous multi-slice pCASL. The underlying motivation of these development is to reduce the burden on patients by employing non-invasive ASL techniques as potential alternatives to X-ray digital subtraction angiography, contrast-enhanced MR angiography and perfusion imaging. In each study, the optimum ASL techniques was carefully chosen by considering the pros and cons of the technique to achieve better clinical usability, while improving robustness against potential artifacts.LUMC / Geneeskund

Optimized 4D time‐of‐flight MR angiography using saturation pulse

13301甲第4704号博士（保健学）金沢大学博士論文本文Full 以下に掲載：Journal of Magnetic Resonance Imaging 43(6) pp.1320-1326 2016. Wiley. 共著者：Shuhei Shibukawa, Hiroaki Nishio, Tetsu Niwa, Makoto Obara, Tosiaki Miyati, Takuya Hara, Yutaka Imai, Isao Mur

Advancements to Magnetic Resonance Flow Imaging in the Brain

abstract: Magnetic resonance flow imaging techniques provide quantitative and qualitative information that can be attributed to flow related clinical pathologies. Clinical use of MR flow quantification requires fast acquisition and reconstruction schemes, and minimization of post processing errors. The purpose of this work is to provide improvements to the post processing of volumetric phase contrast MRI (PCMRI) data, identify a source of flow bias for cine PCMRI that has not been previously reported in the literature, and investigate a dynamic approach to image bulk cerebrospinal fluid (CSF) drainage in ventricular shunts. The proposed improvements are implemented as three research projects. In the first project, the improvements to post processing are made by proposing a new approach to estimating noise statistics for a single spiral acquisition, and using the estimated noise statistics to generate a mask distinguishing flow regions from background noise and static tissue in an image volume. The mask is applied towards reducing the computation time of phase unwrapping. The proposed noise estimation is shown to have comparable noise statistics as that of a vendor specific noise dynamic scan, with the added advantage of reduced scan time. The sparse flow region subset of the image volume is shown to speed up phase unwrapping for multidirectional velocity encoded 3D PCMRI scans. The second research project explores the extent of bias in cine PCMRI based flow estimates is investigated for CSF flow in the cerebral aqueduct. The dependance of the bias on spatial and temporal velocity gradient components is described. A critical velocity threshold is presented to prospectively determine the extent of bias as a function of scan acquisition parameters. Phase contrast MR imaging is not sensitive to measure bulk CSF drainage. A dynamic approach using a CSF label is investigated in the third project to detect bulk flow in a ventricular shunt. The proposed approach uses a preparatory pulse to label CSF signal and a variable delay between the preparatory pulse and data acquisition enables tracking of the CSF bulk flow.Dissertation/ThesisDoctoral Dissertation Biomedical Engineering 201