Download or read book Towards Easy and Efficient Processing of Ultra high Resolution Brain Images written by Valerie Hayot-Sasson and published by . This book was released on 2017 with total page 48 pages. Available in PDF, EPUB and Kindle. Book excerpt: Ultra-high resolution 3D brain imaging is of great importance to the field of neuroscience as it provides a deep insight into brain anatomy and function. Such images may range between a few 100 gigabytes to terabytes in size and do not typically fit into computer memory. Lack of accessibility to the processing of these images is a threat to open science. This thesis aims to design a web system that will handle the storage and processing of ultra-high resolution neuroimaging data.The system architecture uses technologies such as Hadoop Distributed File System and Apache Spark. For the seamless integration neuroimaging pipelines into our system, we adopted NIfTI as our distributed data format and require that all neuroimaging pipelines be described in common formats such as Boutiques or BIDS. The large images are split into chunks, and also, recreated from the chunks. The effects of 2D slices and 3D blocks are investigated. Different algorithms to minimize number of seeks were designed and implemented. Results indicate that clustered reading of blocks achieves a significant reduction in processing time, and partitioning data into slices is most effective. The scalability of processing large images with Spark using a simple non-containerized and containerized pipeline was investigated. It was found that processing time of both algorithms scale well. As data may need to be written to and read from disk for containerized pipeline processing, the speedup provided by Spark's in-memory computing was also investigated. In-memory computing was found to provide significant speedup, however, this speedup may be less significant in more compute-intensive pipelines.
Download or read book A Parameter Efficient Deep Dense Residual Convolutional Neural Network for Volumetric Brain Tissue Segmentation from Magnetic Resonance Images written by Ramesh Basnet and published by . This book was released on 2020 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Brain tissue segmentation is a common medical image processing problem that deals with identifying a region of interest in the human brain from medical scans. It is a fundamental step towards neuroscience research and clinical diagnosis. Magnetic resonance (MR) images are widely used for segmentation in view of their non-invasive acquisition, and high spatial resolution and various contrast information. Accurate segmentation of brain tissues from MR images is very challenging due to the presence of motion artifacts, low signal-to-noise ratio, intensity overlaps, and intra- and inter-subject variability. Convolutional neural networks (CNNs) recently employed for segmentation provide remarkable advantages over the traditional and manual segmentation methods, however, their complex architectures and the large number of parameters make them computationally expensive and difficult to optimize. In this thesis, a novel learning-based algorithm using a three-dimensional deep convolutional neural network is proposed for efficient parameter reduction and compact feature representation to learn end-to-end mapping of T1-weighted (T1w) and/or T2-weighted (T2w) brain MR images to the probability scores of each voxel belonging to the different labels of brain tissues, namely, white matter (WM), gray matter (GM) and cerebrospinal fluid (CSF) for segmentation. The basic idea in the proposed method is to use densely connected convolutional layers and residual skip-connections to increase representation capacity, facilitate better gradient flow, improve learning, and significantly reduce the number of parameters in the network. The network is independently trained on three different loss functions, cross-entropy, dice similarity, and a combination of the two and the results are compared with each other to investigate better loss function for the training. The model has the number of network parameters reduced by a significant amount compared to that of the state-of-the-art methods in brain tissue segmentation. Experiments are performed using the single-modality IBSR18 dataset containing high-resolution T1-weighted MR scans of diverse age groups, and the multi-modality iSeg-2017 dataset containing T1w and T2w MR scans of infants. It is shown that the proposed method provides the best performance on the test sets of both datasets amongst all the existing deep-learning based methods for brain tissue segmentation using the MR images and achieves competitive performance in the iSeg-2017 challenge with the number of parameters that is 47% to 98% lower than that of the other deep-learning based architectures.
Download or read book Handbook of MRI Pulse Sequences written by Matt A. Bernstein and published by Elsevier. This book was released on 2004-09-21 with total page 1041 pages. Available in PDF, EPUB and Kindle. Book excerpt: Magnetic Resonance Imaging (MRI) is among the most important medical imaging techniques available today. There is an installed base of approximately 15,000 MRI scanners worldwide. Each of these scanners is capable of running many different "pulse sequences", which are governed by physics and engineering principles, and implemented by software programs that control the MRI hardware. To utilize an MRI scanner to the fullest extent, a conceptual understanding of its pulse sequences is crucial. Handbook of MRI Pulse Sequences offers a complete guide that can help the scientists, engineers, clinicians, and technologists in the field of MRI understand and better employ their scanner. Explains pulse sequences, their components, and the associated image reconstruction methods commonly used in MRI Provides self-contained sections for individual techniques Can be used as a quick reference guide or as a resource for deeper study Includes both non-mathematical and mathematical descriptions Contains numerous figures, tables, references, and worked example problems
Download or read book Make Life Visible written by Yoshiaki Toyama and published by Springer Nature. This book was released on 2019-10-02 with total page 292 pages. Available in PDF, EPUB and Kindle. Book excerpt: This open access book describes marked advances in imaging technology that have enabled the visualization of phenomena in ways formerly believed to be completelyimpossible. These technologies have made major contributions to the elucidation of the pathology of diseases as well as to their diagnosis and therapy. The volume presents various studies from molecular imaging to clinical imaging. It also focuses on innovative, creative, advanced research that gives full play to imaging technology inthe broad sense, while exploring cross-disciplinary areas in which individual research fields interact and pursuing the development of new techniques where they fuse together. The book is separated into three parts, the first of which addresses the topic of visualizing and controlling molecules for life. Th e second part is devoted to imaging of disease mechanisms, while the final part comprises studies on the application of imaging technologies to diagnosis and therapy. Th e book contains the proceedings of the 12th Uehara International Symposium 2017, “Make Life Visible” sponsored by the Uehara Memorial Foundation and held from June 12 to 14, 2017. It is written by leading scientists in the field and is an open access publication under a CC BY 4.0 license.
Download or read book MRI Atlas of Human White Matter written by Kenichi Oishi and published by Academic Press. This book was released on 2010-11-12 with total page 266 pages. Available in PDF, EPUB and Kindle. Book excerpt: MRI Atlas of Human White Matter presents an atlas to the human brain on the basis of T 1-weighted imaging and diffusion tensor imaging. A general background on magnetic resonance imaging is provided, as well as the basics of diffusion tensor imaging. An overview of the principles and limitations in using this methodology in fiber tracking is included. This book describes the core white-matter structures, as well as the superficial white matter, the deep gray matter, and the cortex. It also presents a three-dimensional reconstruction and atlas of the brain white-matter tracts. The Montreal Neurological Institute coordinates, which are the most widely used, are adopted in this book as the primary coordinate system. The Talairach coordinate system is used as the secondary coordinate system. Based on magnetic resonance imaging and diffusion tensor imaging, the book offers a full segmentation of 220 white-matter and gray-matter structures with boundaries. Visualization of brain white matter anatomy via 3D diffusion tensor imaging (DTI) contrasts and enhances relationship of anatomy to function Full segmentation of 170+ brain regions more clearly defines structure boundaries than previous point-and-annotate anatomical labeling, and connectivity is mapped in a way not provided by traditional atlases
Download or read book Deep Learning and Data Labeling for Medical Applications written by Gustavo Carneiro and published by Springer. This book was released on 2016-10-07 with total page 289 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of two workshops held at the 19th International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2016, in Athens, Greece, in October 2016: the First Workshop on Large-Scale Annotation of Biomedical Data and Expert Label Synthesis, LABELS 2016, and the Second International Workshop on Deep Learning in Medical Image Analysis, DLMIA 2016. The 28 revised regular papers presented in this book were carefully reviewed and selected from a total of 52 submissions. The 7 papers selected for LABELS deal with topics from the following fields: crowd-sourcing methods; active learning; transfer learning; semi-supervised learning; and modeling of label uncertainty.The 21 papers selected for DLMIA span a wide range of topics such as image description; medical imaging-based diagnosis; medical signal-based diagnosis; medical image reconstruction and model selection using deep learning techniques; meta-heuristic techniques for fine-tuning parameter in deep learning-based architectures; and applications based on deep learning techniques.
Download or read book Susceptibility Weighted Imaging in MRI written by E. Mark Haacke and published by John Wiley & Sons. This book was released on 2014-03-25 with total page 817 pages. Available in PDF, EPUB and Kindle. Book excerpt: MRI Susceptibility Weighted Imaging discusses the promising new MRI technique called Susceptibility Weighted Imaging (SWI), a powerful tool for the diagnosis and treatment of acute stroke, allowing earlier detection of acute stroke hemorrhage and easier detection of microbleeds in acute ischemia. The book is edited by the originators of SWI and features contributions from the top leaders in the science. Presenting an even balance between technical/scientific aspects of the modality and clinical application, this book includes over 100 super high-quality radiographic images and 100 additional graphics and tables.
Download or read book Advanced Optical Methods for Brain Imaging written by Fu-Jen Kao and published by Springer. This book was released on 2018-05-14 with total page 342 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book highlights the rapidly developing field of advanced optical methods for structural and functional brain imaging. As is known, the brain is the most poorly understood organ of a living body. It is indeed the most complex structure in the known universe and, thus, mapping of the brain has become one of the most exciting frontlines of contemporary research. Starting from the fundamentals of the brain, neurons and synapses, this book presents a streamlined and focused coverage of the core principles, theoretical and experimental approaches, and state-of-the-art applications of most of the currently used imaging methods in brain research. It presents contributions from international leaders on different photonics-based brain imaging modalities and techniques. Included are comprehensive descriptions of many of the technology driven spectacular advances made over the past few years that have allowed novel insights of the structural and functional details of neurons. The book is targeted at researchers, engineers and scientists who are working in the field of brain imaging, neuroscience and connectomics. Although this book is not intended to serve as a textbook, it will appeal to undergraduate students engaged in the specialization of brain imaging.
Download or read book Brain Inspired Computing written by Katrin Amunts and published by Springer. This book was released on 2016-12-10 with total page 204 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes revised selected papers from the Second International Workshop on Brain-Inspired Computing, BrainComp 2015, held in Cetraro, Italy, in July 2015. The 14 papers presented in this volume were carefully reviewed and selected for inclusion in this book. They deal with brain structure and function; computational models and brain-inspired computing methods with practical applications; high performance computing; and visualization for brain simulations.
Download or read book Recent Advances and the Future Generation of Neuroinformatics Infrastructure written by Xi Cheng and published by Frontiers Media SA. This book was released on 2015-12-11 with total page 390 pages. Available in PDF, EPUB and Kindle. Book excerpt: The huge volume of multi-modal neuroimaging data across different neuroscience communities has posed a daunting challenge to traditional methods of data sharing, data archiving, data processing and data analysis. Neuroinformatics plays a crucial role in creating advanced methodologies and tools for the handling of varied and heterogeneous datasets in order to better understand the structure and function of the brain. These tools and methodologies not only enhance data collection, analysis, integration, interpretation, modeling, and dissemination of data, but also promote data sharing and collaboration. This Neuroinformatics Research Topic aims to summarize the state-of-art of the current achievements and explores the directions for the future generation of neuroinformatics infrastructure. The publications present solutions for data archiving, data processing and workflow, data mining, and system integration methodologies. Some of the systems presented are large in scale, geographically distributed, and already have a well-established user community. Some discuss opportunities and methodologies that facilitate large-scale parallel data processing tasks under a heterogeneous computational environment. We wish to stimulate on-going discussions at the level of the neuroinformatics infrastructure including the common challenges, new technologies of maximum benefit, key features of next generation infrastructure, etc. We have asked leading research groups from different research areas of neuroscience/neuroimaging to provide their thoughts on the development of a state of the art and highly-efficient neuroinformatics infrastructure. Such discussions will inspire and help guide the development of a state of the art, highly-efficient neuroinformatics infrastructure.
Download or read book In Vivo NMR Spectroscopy written by Robin A. de Graaf and published by John Wiley & Sons. This book was released on 2019-03-11 with total page 584 pages. Available in PDF, EPUB and Kindle. Book excerpt: Presents basic concepts, experimental methodology and data acquisition, and processing standards of in vivo NMR spectroscopy This book covers, in detail, the technical and biophysical aspects of in vivo NMR techniques and includes novel developments in the field such as hyperpolarized NMR, dynamic 13C NMR, automated shimming, and parallel acquisitions. Most of the techniques are described from an educational point of view, yet it still retains the practical aspects appreciated by experimental NMR spectroscopists. In addition, each chapter concludes with a number of exercises designed to review, and often extend, the presented NMR principles and techniques. The third edition of In Vivo NMR Spectroscopy: Principles and Techniques has been updated to include experimental detail on the developing area of hyperpolarization; a description of the semi-LASER sequence, which is now a method of choice; updated chemical shift data, including the addition of 31P data; a troubleshooting section on common problems related to shimming, water suppression, and quantification; recent developments in data acquisition and processing standards; and MatLab scripts on the accompanying website for helping readers calculate radiofrequency pulses. Provide an educational explanation and overview of in vivo NMR, while maintaining the practical aspects appreciated by experimental NMR spectroscopists Features more experimental methodology than the previous edition End-of-chapter exercises that help drive home the principles and techniques and offer a more in-depth exploration of quantitative MR equations Designed to be used in conjunction with a teaching course on the subject In Vivo NMR Spectroscopy: Principles and Techniques, 3rd Edition is aimed at all those involved in fundamental and/or diagnostic in vivo NMR, ranging from people working in dedicated in vivo NMR institutes, to radiologists in hospitals, researchers in high-resolution NMR and MRI, and in areas such as neurology, physiology, chemistry, and medical biology.
Download or read book Brain Imaging Methods Editor s Pick 2021 written by Vince D. Calhoun and published by Frontiers Media SA. This book was released on 2021-07-01 with total page 440 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Digital Health in Focus of Predictive Preventive and Personalised Medicine written by Lotfi Chaari and published by Springer Nature. This book was released on 2020-09-30 with total page 164 pages. Available in PDF, EPUB and Kindle. Book excerpt: The edition will cover proceedings of the second International conference on digital health Technologies (ICDHT 2019). The conference will address the topic of P4 medicine from the information technology point of view, and will be focused on the following topics: - Artificial Intelligence for health • Knowledge extraction • Decision-aid systems • Data analysis and risk prediction • Machine learning, deep learning - Health data processing • Data preprocessing, cleaning, management and mining • Computer-aided detection • Big data analysis, prediction and prevention • Cognitive algorithms for healthcare handling dynamic context management • Augmented reality, Motion detection and activity recognition - Devices, infrastructure and communication • Wearable & connected devices • Communication infrastructures, architectures and standards Blockchain for e-Health • Computing/storage infrastructures for e-Health • IoT devices & architectures for Smart Healthcare - Health information systems • Telemedicine, Teleservices • Computing/storage infrastructures for e-Health • Clinical Data Visualisation Standards - Security and privacy for e-health • Health data Analytics for Security and Privacy • E-health Software and Hardware Security • Embedded Security for e-health - Applications in P4 medicine
Download or read book Academic Press Library in Signal Processing written by and published by Academic Press. This book was released on 2013-09-14 with total page 1131 pages. Available in PDF, EPUB and Kindle. Book excerpt: This fourth volume, edited and authored by world leading experts, gives a review of the principles, methods and techniques of important and emerging research topics and technologies in Image, Video Processing and Analysis, Hardware, Audio, Acoustic and Speech Processing. With this reference source you will: Quickly grasp a new area of research Understand the underlying principles of a topic and its application Ascertain how a topic relates to other areas and learn of the research issues yet to be resolved Quick tutorial reviews of important and emerging topics of research in Image, Video Processing and Analysis, Hardware, Audio, Acoustic and Speech Processing Presents core principles and shows their application Reference content on core principles, technologies, algorithms and applications Comprehensive references to journal articles and other literature on which to build further, more specific and detailed knowledge Edited by leading people in the field who, through their reputation, have been able to commission experts to write on a particular topic
Download or read book Biomedical Image Synthesis and Simulation written by Ninon Burgos and published by Academic Press. This book was released on 2022-06-18 with total page 676 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biomedical Image Synthesis and Simulation: Methods and Applications presents the basic concepts and applications in image-based simulation and synthesis used in medical and biomedical imaging. The first part of the book introduces and describes the simulation and synthesis methods that were developed and successfully used within the last twenty years, from parametric to deep generative models. The second part gives examples of successful applications of these methods. Both parts together form a book that gives the reader insight into the technical background of image synthesis and how it is used, in the particular disciplines of medical and biomedical imaging. The book ends with several perspectives on the best practices to adopt when validating image synthesis approaches, the crucial role that uncertainty quantification plays in medical image synthesis, and research directions that should be worth exploring in the future. Gives state-of-the-art methods in (bio)medical image synthesis Explains the principles (background) of image synthesis methods Presents the main applications of biomedical image synthesis methods
Download or read book Atlas of Regional Anatomy of the Brain Using MRI written by Jean C. Tamraz and published by Springer Science & Business Media. This book was released on 2006-02-08 with total page 344 pages. Available in PDF, EPUB and Kindle. Book excerpt: A unique review of the essential topographical anatomy of the brain from an MRI perspective, correlating high-quality anatomical plates with high-resolution MRI images. The book includes a historical review of brain mapping and an analysis of the essential reference planes used. It provides a detailed review of the sulcal and the gyral anatomy of the human cortex, guiding readers through an interpretation of the individual brain atlas provided by high-resolution MRI. The relationship between brain structure and function is approached in a topographical fashion with an analysis of the necessary imaging methodology and displayed anatomy. An extensive coronal atlas rounds off the book.
Download or read book Encyclopedia of Biomaterials and Biomedical Engineering written by Gary Wnek and published by CRC Press. This book was released on 2008-05-28 with total page 3145 pages. Available in PDF, EPUB and Kindle. Book excerpt: Written by more than 400 subject experts representing diverse academic and applied domains, this multidisciplinary resource surveys the vanguard of biomaterials and biomedical engineering technologies utilizing biomaterials that lead to quality-of-life improvements. Building on traditional engineering principles, it serves to bridge advances in materials science, life sciences, nanotechnology, and cell biology to innovations in solving medical problems with applications in tissue engineering, prosthetics, drug delivery, biosensors, and medical devices. In nearly 300 entries, this four-volume Encyclopedia of Biomaterials and Biomedical Engineering, Second Edition, covers: essential topics integral to tissue engineering research: bioreactors, scaffolding materials and fabrication, tissue mechanics, cellular interaction, and development of major tissues and organs being attempted by researchers worldwide; artificial lungs and muscles, bio-artificial livers, and corneal, dental, inner ear, and total hip implants; tissue engineering of blood vessels, heart valves, ligaments, microvascular networks, skeletal muscle, and skin; bone remodeling, bone cement, and bioabsorbable bone plates and screws; controlled drug delivery, insulin delivery, and transdermal and ocular implant-based drug delivery; endovascular stent grafts, vascular grafts, and xenografts; 3-D medical imaging, electrical impedance imaging, and intravascular ultrasound; biomedical, protein adsorption, and in vivo cardiovascular modeling; polymer foams, biofunctional and conductive polymers, and electroactive polymeric materials; blood–material interactions, the bone–implant interface, host reactions, and foreign body responses and much more.
