Real-time Tracking of Guidewire Robot Tips using Deep Convolutional Neural Networks on Successive Localized Frames

Studies are proceeded to stabilize cardiac surgery using thin micro-guidewires and catheter robots. To control the robot to a desired position and pose, it is necessary to accurately track the robot tip in real time but tracking and accurately delineating the thin and small tip is challenging. To address this problem, a novel image analysis-based tracking method using deep convolutional neural networks (CNN) has been proposed in this paper. The proposed tracker consists of two parts; (1) a detection network for rough detection of the tip position and (2) a segmentation network for accurate tip delineation near the tip position. To learn a robust real-time tracker, we extract small image patches, including the tip in successive frames and then learn the informative spatial and motion features for the segmentation network. During inference, the tip bounding box is first estimated in the initial frame via the detection network, thereafter tip delineation is consecutively performed through the segmentation network in the following frames. The proposed method enables accurate delineation of the tip in real time and automatically restarts tracking via the detection network when tracking fails in challenging frames. Experimental results show that the proposed method achieves better tracking accuracy than existing methods, with a considerable real-time speed of 19ms.1

Fast catheter segmentation from echocardiographic sequences based on segmentation from corresponding X-ray fluoroscopy for cardiac catheterization interventions

© 2014 IEEE. Echocardiography is a potential alternative to X-ray fluoroscopy in cardiac catheterization given its richness in soft tissue information and its lack of ionizing radiation. However, its small field of view and acoustic artifacts make direct automatic segmentation of the catheters very challenging. In this study, a fast catheter segmentation framework for echocardiographic imaging guided by the segmentation of corresponding X-ray fluoroscopic imaging is proposed. The complete framework consists of: 1) catheter initialization in the first X-ray frame; 2) catheter tracking in the rest of the X-ray sequence; 3) fast registration of corresponding X-ray and ultrasound frames; and 4) catheter segmentation in ultrasound images guided by the results of both X-ray tracking and fast registration. The main contributions include: 1) a Kalman filter-based growing strategy with more clinical data evalution; 2) a SURF detector applied in a constrained search space for catheter segmentation in ultrasound images; 3) a two layer hierarchical graph model to integrate and smooth catheter fragments into a complete catheter; and 4) the integration of these components into a system for clinical applications. This framework is evaluated on five sequences of porcine data and four sequences of patient data comprising more than 3000 X-ray frames and more than 1000 ultrasound frames. The results show that our algorithm is able to track the catheter in ultrasound images at 1.3 s per frame, with an error of less than 2 mm. However, although this may satisfy the accuracy for visualization purposes and is also fast, the algorithm still needs to be further accelerated for real-time clinical applications

Dynamic Analysis of X-ray Angiography for Image-Guided Coronary Interventions

Percutaneous coronary intervention (PCI) is a minimally-invasive procedure for treating patients with coronary artery disease. PCI is typically performed with image guidance using X-ray angiograms (XA) in which coronary arter

Fast catheter segmentation and tracking based on x-ray fluoroscopic and echocardiographic modalities for catheter-based cardiac minimally invasive interventions

X-ray fluoroscopy and echocardiography imaging (ultrasound, US) are two imaging modalities that are widely used in cardiac catheterization. For these modalities, a fast, accurate and stable algorithm for the detection and tracking of catheters is required to allow clinicians to observe the catheter location in real-time. Currently X-ray fluoroscopy is routinely used as the standard modality in catheter ablation interventions. However, it lacks the ability to visualize soft tissue and uses harmful radiation. US does not have these limitations but often contains acoustic artifacts and has a small field of view. These make the detection and tracking of the catheter in US very challenging. The first contribution in this thesis is a framework which combines Kalman filter and discrete optimization for multiple catheter segmentation and tracking in X-ray images. Kalman filter is used to identify the whole catheter from a single point detected on the catheter in the first frame of a sequence of x-ray images. An energy-based formulation is developed that can be used to track the catheters in the following frames. We also propose a discrete optimization for minimizing the energy function in each frame of the X-ray image sequence. Our approach is robust to tangential motion of the catheter and combines the tubular and salient feature measurements into a single robust and efficient framework. The second contribution is an algorithm for catheter extraction in 3D ultrasound images based on (a) the registration between the X-ray and ultrasound images and (b) the segmentation of the catheter in X-ray images. The search space for the catheter extraction in the ultrasound images is constrained to lie on or close to a curved surface in the ultrasound volume. The curved surface corresponds to the back-projection of the extracted catheter from the X-ray image to the ultrasound volume. Blob-like features are detected in the US images and organized in a graphical model. The extracted catheter is modelled as the optimal path in this graphical model. Both contributions allow the use of ultrasound imaging for the improved visualization of soft tissue. However, X-ray imaging is still required for each ultrasound frame and the amount of X-ray exposure has not been reduced. The final contribution in this thesis is a system that can track the catheter in ultrasound volumes automatically without the need for X-ray imaging during the tracking. Instead X-ray imaging is only required for the system initialization and for recovery from tracking failures. This allows a significant reduction in the amount of X-ray exposure for patient and clinicians.Open Acces

Exploiting Temporal Image Information in Minimally Invasive Surgery

Minimally invasive procedures rely on medical imaging instead of the surgeons direct vision. While preoperative images can be used for surgical planning and navigation, once the surgeon arrives at the target site real-time intraoperative imaging is needed. However, acquiring and interpreting these images can be challenging and much of the rich temporal information present in these images is not visible. The goal of this thesis is to improve image guidance for minimally invasive surgery in two main areas. First, by showing how high-quality ultrasound video can be obtained by integrating an ultrasound transducer directly into delivery devices for beating heart valve surgery. Secondly, by extracting hidden temporal information through video processing methods to help the surgeon localize important anatomical structures. Prototypes of delivery tools, with integrated ultrasound imaging, were developed for both transcatheter aortic valve implantation and mitral valve repair. These tools provided an on-site view that shows the tool-tissue interactions during valve repair. Additionally, augmented reality environments were used to add more anatomical context that aids in navigation and in interpreting the on-site video. Other procedures can be improved by extracting hidden temporal information from the intraoperative video. In ultrasound guided epidural injections, dural pulsation provides a cue in finding a clear trajectory to the epidural space. By processing the video using extended Kalman filtering, subtle pulsations were automatically detected and visualized in real-time. A statistical framework for analyzing periodicity was developed based on dynamic linear modelling. In addition to detecting dural pulsation in lumbar spine ultrasound, this approach was used to image tissue perfusion in natural video and generate ventilation maps from free-breathing magnetic resonance imaging. A second statistical method, based on spectral analysis of pixel intensity values, allowed blood flow to be detected directly from high-frequency B-mode ultrasound video. Finally, pulsatile cues in endoscopic video were enhanced through Eulerian video magnification to help localize critical vasculature. This approach shows particular promise in identifying the basilar artery in endoscopic third ventriculostomy and the prostatic artery in nerve-sparing prostatectomy. A real-time implementation was developed which processed full-resolution stereoscopic video on the da Vinci Surgical System

Computer Vision Techniques for Transcatheter Intervention

Minimally invasive transcatheter technologies have demonstrated substantial promise for the diagnosis and treatment of cardiovascular diseases. For example, TAVI is an alternative to AVR for the treatment of severe aortic stenosis and TAFA is widely used for the treatment and cure of atrial fibrillation. In addition, catheter-based IVUS and OCT imaging of coronary arteries provides important information about the coronary lumen, wall and plaque characteristics. Qualitative and quantitative analysis of these cross-sectional image data will be beneficial for the evaluation and treatment of coronary artery diseases such as atherosclerosis. In all the phases (preoperative, intraoperative, and postoperative) during the transcatheter intervention procedure, computer vision techniques (e.g., image segmentation, motion tracking) have been largely applied in the field to accomplish tasks like annulus measurement, valve selection, catheter placement control, and vessel centerline extraction. This provides beneficial guidance for the clinicians in surgical planning, disease diagnosis, and treatment assessment. In this paper, we present a systematical review on these state-of-the-art methods.We aim to give a comprehensive overview for researchers in the area of computer vision on the subject of transcatheter intervention. Research in medical computing is multi-disciplinary due to its nature, and hence it is important to understand the application domain, clinical background, and imaging modality so that methods and quantitative measurements derived from analyzing the imaging data are appropriate and meaningful. We thus provide an overview on background information of transcatheter intervention procedures, as well as a review of the computer vision techniques and methodologies applied in this area

3D shape instantiation for intra-operative navigation from a single 2D projection

Unlike traditional open surgery where surgeons can see the operation area clearly, in robot-assisted Minimally Invasive Surgery (MIS), a surgeon’s view of the region of interest is usually limited. Currently, 2D images from fluoroscopy, Magnetic Resonance Imaging (MRI), endoscopy or ultrasound are used for intra-operative guidance as real-time 3D volumetric acquisition is not always possible due to the acquisition speed or exposure constraints. 3D reconstruction, however, is key to navigation in complex in vivo geometries and can help resolve this issue. Novel 3D shape instantiation schemes are developed in this thesis, which can reconstruct the high-resolution 3D shape of a target from limited 2D views, especially a single 2D projection or slice. To achieve a complete and automatic 3D shape instantiation pipeline, segmentation schemes based on deep learning are also investigated. These include normalization schemes for training U-Nets and network architecture design of Atrous Convolutional Neural Networks (ACNNs). For U-Net normalization, four popular normalization methods are reviewed, then Instance-Layer Normalization (ILN) is proposed. It uses a sigmoid function to linearly weight the feature map after instance normalization and layer normalization, and cascades group normalization after the weighted feature map. Detailed validation results potentially demonstrate the practical advantages of the proposed ILN for effective and robust segmentation of different anatomies. For network architecture design in training Deep Convolutional Neural Networks (DCNNs), the newly proposed ACNN is compared to traditional U-Net where max-pooling and deconvolutional layers are essential. Only convolutional layers are used in the proposed ACNN with different atrous rates and it has been shown that the method is able to provide a fully-covered receptive field with a minimum number of atrous convolutional layers. ACNN enhances the robustness and generalizability of the analysis scheme by cascading multiple atrous blocks. Validation results have shown the proposed method achieves comparable results to the U-Net in terms of medical image segmentation, whilst reducing the trainable parameters, thus improving the convergence and real-time instantiation speed. For 3D shape instantiation of soft and deforming organs during MIS, Sparse Principle Component Analysis (SPCA) has been used to analyse a 3D Statistical Shape Model (SSM) and to determine the most informative scan plane. Synchronized 2D images are then scanned at the most informative scan plane and are expressed in a 2D SSM. Kernel Partial Least Square Regression (KPLSR) has been applied to learn the relationship between the 2D and 3D SSM. It has been shown that the KPLSR-learned model developed in this thesis is able to predict the intra-operative 3D target shape from a single 2D projection or slice, thus permitting real-time 3D navigation. Validation results have shown the intrinsic accuracy achieved and the potential clinical value of the technique. The proposed 3D shape instantiation scheme is further applied to intra-operative stent graft deployment for the robot-assisted treatment of aortic aneurysms. Mathematical modelling is first used to simulate the stent graft characteristics. This is then followed by the Robust Perspective-n-Point (RPnP) method to instantiate the 3D pose of fiducial markers of the graft. Here, Equally-weighted Focal U-Net is proposed with a cross-entropy and an additional focal loss function. Detailed validation has been performed on patient-specific stent grafts with an accuracy between 1-3mm. Finally, the relative merits and potential pitfalls of all the methods developed in this thesis are discussed, followed by potential future research directions and additional challenges that need to be tackled.Open Acces

A Platform for Robot-Assisted Intracardiac Catheter Navigation

Steerable catheters are routinely deployed in the treatment of cardiac arrhythmias. During invasive electrophysiology studies, the catheter handle is manipulated by an interventionalist to guide the catheter's distal section toward endocardium for pacing and ablation. Catheter manipulation requires dexterity and experience, and exposes the interventionalist to ionizing radiation. Through the course of this research, a platform was developed to assist and enhance the navigation of the catheter inside the cardiac chambers. This robotic platform replaces the interventionalist's hand in catheter manipulation and provides the option to force the catheter tip in arbitrary directions using a 3D input device or to automatically navigate the catheter to desired positions within a cardiac chamber by commanding the software to do so. To accomplish catheter navigation, the catheter was modeled as a continuum manipulator, and utilizing robot kinematics, catheter tip position control was designed and implemented. An electromagnetic tracking system was utilized to measure the position and orientation of two key points in catheter model, for position feedback to the control system. A software platform was developed to implement the navigation and control strategies and to interface with the robot, the 3D input device and the tracking system. The catheter modeling was validated through in-vitro experiments with a static phantom, and in-vivo experiments on three live swines. The feasibility of automatic navigation was also veri ed by navigating to three landmarks in the beating heart of swine subjects, and comparing their performance with that of an experienced interventionalist using quasi biplane fluoroscopy. The platform realizes automatic, assisted, and motorized navigation under the interventionalist's control, thus reducing the dependence of successful navigation on the dexterity and manipulation skills of the interventionalist, and providing a means to reduce the exposure to X-ray radiation. Upon further development, the platform could be adopted for human deployment

Transcatheter Aortic Valve Therapies : Insights and Solutions for Clinical Complications and Future Perspectives

This thesis contemplates current challenges of transcatheter aortic valve implantation (TAVI) and focuses on three important entities. Conduction disorders remain a frequent issue. Daily ECG analysis after the procedure may help predict the fate of acquired conduction abnormalities at an earlier stage and identify the patients who would benefit from (early) permanent pacemaker implantation. Access site management relies on suture-based techniques and has inherent limitations. Collagen plug based closure is a different mechanism, may be easier to adopt and globally reduce vascular complications. Brain injury seems omnipresent after TAVI and is difficult to reconcile with the “primum non nocere” principle. Filter based embolic protection hold promise to mitigate the effects of cerebral embolization, especially if complete protection is achieved. TAVI has now matured into a simplified procedure under local anesthesia and the performance of the latest transcatheter valve iterations approach or even supersede what can be achieved with a surgical bioprosthesis. Bicuspid aortic disease, severe aortic regurgitation and moderate aortic stenosis in heart failure are potential new indications for TAVI. Furthermore, TAVI is attractive for treatment in patients at lower risk who are younger and have a longer life expectancy

ITErRoot: High Throughput Segmentation of 2-Dimensional Root System Architecture

Root system architecture (RSA) analysis is a form of high-throughput plant phenotyping which has recently benefited from the application of various deep learning techniques. A typical RSA pipeline includes a segmentation step, where the root system is extracted from 2D images. The segmented image is then passed to subsequent steps for processing, which result in some representation of the architectural properties of the root system. This representation is then used for trait computation, which can be used to identify various desirable properties of a plant’s RSA. Errors which arise at the segmentation stage can propagate themselves throughout the remainder of the pipeline and impact results of trait analysis. This work aims to design an iterative neural network architecture, called ITErRoot, which is particularly well suited to the segmentation of root structure from 2D images in the presence of non-root objects. A novel 2D root image dataset is created along with a ground truth annotation tool designed to facilitate consistent manual annotation of RSA. The proposed architecture is able to take advantage of the root structure to obtain a high quality segmentation and is generalizable to root systems with thin roots, showing improved quality over recent approaches to RSA segmentation. We provide rigorous analysis designed to identify the strengths and weaknesses of the proposed model as well as to validate the effectiveness of the approach for producing high-quality segmentations