Guest Editorial Special Issue on Medical Imaging and Image Computing in Computational Physiology

International audienceThe January 2013 Special Issue of IEEE transactions on medical imaging discusses papers on medical imaging and image computing in computational physiology. Aslanid and co-researchers present an experimental technique based on stained micro computed tomography (CT) images to construct very detailed atrial models of the canine heart. The paper by Sebastian proposes a model of the cardiac conduction system (CCS) based on structural information derived from stained calf tissue. Ho, Mithraratne and Hunter present a numerical simulation of detailed cerebral venous flow. The third category of papers deals with computational methods for simulating medical imagery and incorporate knowledge of imaging physics and physiology/biophysics. The work by Morales showed how the combination of device modeling and virtual deployment, in addition to patient-specific image-based anatomical modeling, can help to carry out patient-specific treatment plans and assess alternative therapeutic strategies

Roadmap on signal processing for next generation measurement systems

Signal processing is a fundamental component of almost any sensor-enabled system, with a wide range of applications across different scientific disciplines. Time series data, images, and video sequences comprise representative forms of signals that can be enhanced and analysed for information extraction and quantification. The recent advances in artificial intelligence and machine learning are shifting the research attention towards intelligent, data-driven, signal processing. This roadmap presents a critical overview of the state-of-the-art methods and applications aiming to highlight future challenges and research opportunities towards next generation measurement systems. It covers a broad spectrum of topics ranging from basic to industrial research, organized in concise thematic sections that reflect the trends and the impacts of current and future developments per research field. Furthermore, it offers guidance to researchers and funding agencies in identifying new prospects.AerodynamicsMicrowave Sensing, Signals & System

The EU Center of Excellence for Exascale in Solid Earth (ChEESE): Implementation, results, and roadmap for the second phase

publishedVersio

SMART Cables for Observing the Global Ocean: Science and Implementation

The ocean is key to understanding societal threats including climate change, sea level rise, ocean warming, tsunamis, and earthquakes. Because the ocean is difficult and costly to monitor, we lack fundamental data needed to adequately model, understand, and address these threats. One solution is to integrate sensors into future undersea telecommunications cables. This is the mission of the SMART subsea cables initiative (Science Monitoring And Reliable Telecommunications). SMART sensors would “piggyback” on the power and communications infrastructure of a million kilometers of undersea fiber optic cable and thousands of repeaters, creating the potential for seafloor-based global ocean observing at a modest incremental cost. Initial sensors would measure temperature, pressure, and seismic acceleration. The resulting data would address two critical scientific and societal issues: the long-term need for sustained climate-quality data from the under-sampled ocean (e.g., deep ocean temperature, sea level, and circulation), and the near-term need for improvements to global tsunami warning networks. A Joint Task Force (JTF) led by three UN agencies (ITU/WMO/UNESCO-IOC) is working to bring this initiative to fruition. This paper explores the ocean science and early warning improvements available from SMART cable data, and the societal, technological, and financial elements of realizing such a global network. Simulations show that deep ocean temperature and pressure measurements can improve estimates of ocean circulation and heat content, and cable-based pressure and seismic-acceleration sensors can improve tsunami warning times and earthquake parameters. The technology of integrating these sensors into fiber optic cables is discussed, addressing sea and land-based elements plus delivery of real-time open data products to end users. The science and business case for SMART cables is evaluated. SMART cables have been endorsed by major ocean science organizations, and JTF is working with cable suppliers and sponsors, multilateral development banks and end users to incorporate SMART capabilities into future cable projects. By investing now, we can build up a global ocean network of long-lived SMART cable sensors, creating a transformative addition to the Global Ocean Observing System

Enhancing the information content of geophysical data for nuclear site characterisation

Our knowledge and understanding to the heterogeneous structure and processes occurring in the Earth’s subsurface is limited and uncertain. The above is true even for the upper 100m of the subsurface, yet many processes occur within it (e.g. migration of solutes, landslides, crop water uptake, etc.) are important to human activities. Geophysical methods such as electrical resistivity tomography (ERT) greatly improve our ability to observe the subsurface due to their higher sampling frequency (especially with autonomous time-lapse systems), larger spatial coverage and less invasive operation, in addition to being more cost-effective than traditional point-based sampling. However, the process of using geophysical data for inference is prone to uncertainty. There is a need to better understand the uncertainties embedded in geophysical data and how they translate themselves when they are subsequently used, for example, for hydrological or site management interpretations and decisions. This understanding is critical to maximize the extraction of information in geophysical data. To this end, in this thesis, I examine various aspects of uncertainty in ERT and develop new methods to better use geophysical data quantitatively. The core of the thesis is based on two literature reviews and three papers. In the first review, I provide a comprehensive overview of the use of geophysical data for nuclear site characterization, especially in the context of site clean-up and leak detection. In the second review, I survey the various sources of uncertainties in ERT studies and the existing work to better quantify or reduce them. I propose that the various steps in the general workflow of an ERT study can be viewed as a pipeline for information and uncertainty propagation and suggested some areas have been understudied. One of these areas is measurement errors. In paper 1, I compare various methods to estimate and model ERT measurement errors using two long-term ERT monitoring datasets. I also develop a new error model that considers the fact that each electrode is used to make multiple measurements. In paper 2, I discuss the development and implementation of a new method for geoelectrical leak detection. While existing methods rely on obtaining resistivity images through inversion of ERT data first, the approach described here estimates leak parameters directly from raw ERT data. This is achieved by constructing hydrological models from prior site information and couple it with an ERT forward model, and then update the leak (and other hydrological) parameters through data assimilation. The approach shows promising results and is applied to data from a controlled injection experiment in Yorkshire, UK. The approach complements ERT imaging and provides a new way to utilize ERT data to inform site characterisation. In addition to leak detection, ERT is also commonly used for monitoring soil moisture in the vadose zone, and increasingly so in a quantitative manner. Though both the petrophysical relationships (i.e., choices of appropriate model and parameterization) and the derived moisture content are known to be subject to uncertainty, they are commonly treated as exact and error‐free. In paper 3, I examine the impact of uncertain petrophysical relationships on the moisture content estimates derived from electrical geophysics. Data from a collection of core samples show that the variability in such relationships can be large, and they in turn can lead to high uncertainty in moisture content estimates, and they appear to be the dominating source of uncertainty in many cases. In the closing chapters, I discuss and synthesize the findings in the thesis within the larger context of enhancing the information content of geophysical data, and provide an outlook on further research in this topic

8th Annual Jackson School of Geosciences Student Research Symposium, February 2, 2019

ConocoPhillipsGeological Science

Mechanical Characterization of the Vessel Wall by Data Assimilation of Intravascular Ultrasound Studies

Atherosclerotic plaque rupture and erosion are the most important mechanisms underlying the sudden plaque growth, responsible for acute coronary syndromes and even fatal cardiac events. Advances in the understanding of the culprit plaque structure and composition are already reported in the literature, however, there is still much work to be done toward in-vivo plaque visualization and mechanical characterization to assess plaque stability, patient risk, diagnosis and treatment prognosis. In this work, a methodology for the mechanical characterization of the vessel wall plaque and tissues is proposed based on the combination of intravascular ultrasound (IVUS) imaging processing, data assimilation and continuum mechanics models within a high performance computing (HPC) environment. Initially, the IVUS study is gated to obtain volumes of image sequences corresponding to the vessel of interest at different cardiac phases. These sequences are registered against the sequence of the end-diastolic phase to remove transversal and longitudinal rigid motions prescribed by the moving environment due to the heartbeat. Then, optical flow between the image sequences is computed to obtain the displacement fields of the vessel (each associated to a certain pressure level). The obtained displacement fields are regarded as observations within a data assimilation paradigm, which aims to estimate the material parameters of the tissues within the vessel wall. Specifically, a reduced order unscented Kalman filter is employed, endowed with a forward operator which amounts to address the solution of a hyperelastic solid mechanics model in the finite strain regime taking into account the axially stretched state of the vessel, as well as the effect of internal and external forces acting on the arterial wall. Due to the computational burden, a HPC approach is mandatory. Hence, the data assimilation and computational solid mechanics computations are parallelized at three levels: (i) a Kalman filter level; (ii) a cardiac phase level; and (iii) a mesh partitioning level. To illustrate the capabilities of this novel methodology toward the in-vivo analysis of patient-specific vessel constituents, mechanical material parameters are estimated using in-silico and in-vivo data retrieved from IVUS studies. Limitations and potentials of this approach are exposed and discussed.Fil: Maso Talou, Gonzalo Daniel. Laboratorio Nacional de Computacao Cientifica; BrasilFil: Blanco, Pablo Javier. Laboratorio Nacional de Computacao Cientifica; BrasilFil: Ares, Gonzalo Damián. Universidad Nacional de Mar del Plata. Facultad de Ingeniería. Departamento de Mecanica. Grupo de Ingeniería Asistida Por Computador; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Mar del Plata; ArgentinaFil: Guedes Bezerra, Cristiano. Heart Institute (Incor); BrasilFil: Lemos, Pedro A.. Heart Institute (Incor); BrasilFil: Feijóo, Raúl Antonino. Laboratorio Nacional de Computacao Cientifica; Brasi

Internet of Things for Environmental Sustainability and Climate Change

Our world is vulnerable to climate change risks such as glacier retreat, rising temperatures, more variable and intense weather events (e.g., floods, droughts, and frosts), deteriorating mountain ecosystems, soil degradation, and increasing water scarcity. However, there are big gaps in our understanding of changes in regional climate and how these changes will impact human and natural systems, making it difficult to anticipate, plan, and adapt to the coming changes. The IoT paradigm in this area can enhance our understanding of regional climate by using technology solutions, while providing the dynamic climate elements based on integrated environmental sensing and communications that is necessary to support climate change impacts assessments in each of the related areas (e.g., environmental quality and monitoring, sustainable energy, agricultural systems, cultural preservation, and sustainable mining). In the IoT in Environmental Sustainability and Climate Change chapter, a framework for informed creation, interpretation and use of climate change projections and for continued innovations in climate and environmental science driven by key societal and economic stakeholders is presented. In addition, the IoT cyberinfrastructure to support the development of continued innovations in climate and environmental science is discussed