Genomic Epidemiology Data Infrastructure Needs For Sars Cov 2

In December 2019, new cases of severe pneumonia were first detected in Wuhan, China, and the cause was determined to be a novel beta coronavirus related to the severe acute respiratory syndrome (SARS) coronavirus that emerged from a bat reservoir in 2002. Within six months, this new virusâ€"SARS coronavirus 2 (SARS-CoV-2)â€"has spread worldwide, infecting at least 10 million people with an estimated 500,000 deaths. COVID-19, the disease caused by SARS-CoV-2, was declared a public health emergency of international concern on January 30, 2020 by the World Health Organization (WHO) and a pandemic on March 11, 2020. To date, there is no approved effective treatment or vaccine for COVID-19, and it continues to spread in many countries. Genomic Epidemiology Data Infrastructure Needs for SARS-CoV-2: Modernizing Pandemic Response Strategies lays out a framework to define and describe the data needs for a system to track and correlate viral genome sequences with clinical and epidemiological data. Such a system would help ensure the integration of data on viral evolution with detection, diagnostic, and countermeasure efforts. This report also explores data collection mechanisms to ensure a representative global sample set of all relevant extant sequences and considers challenges and opportunities for coordination across existing domestic, global, and regional data sources.

In December 2019, new cases of severe pneumonia were first detected in Wuhan, China, and the cause was determined to be a novel beta coronavirus related to the severe acute respiratory syndrome (SARS) coronavirus that emerged from a bat reservoir in 2002. Within six months, this new virusâ€"SARS coronavirus 2 (SARS-CoV-2)â€"has spread worldwide, infecting at least 10 million people with an estimated 500,000 deaths. COVID-19, the disease caused by SARS-CoV-2, was declared a public health emergency of international concern on January 30, 2020 by the World Health Organization (WHO) and a pandemic on March 11, 2020. To date, there is no approved effective treatment or vaccine for COVID-19, and it continues to spread in many countries. Genomic Epidemiology Data Infrastructure Needs for SARS-CoV-2: Modernizing Pandemic Response Strategies lays out a framework to define and describe the data needs for a system to track and correlate viral genome sequences with clinical and epidemiological data. Such a system would help ensure the integration of data on viral evolution with detection, diagnostic, and countermeasure efforts. This report also explores data collection mechanisms to ensure a representative global sample set of all relevant extant sequences and considers challenges and opportunities for coordination across existing domestic, global, and regional data sources.

The Applied Genomic Epidemiology Handbook: A Practical Guide to Leveraging Pathogen Genomic Data in Public Health provides rationale, theory, and implementation guidance to help public health practitioners incorporate pathogen genomic data analysis into their investigations. During the SARS-CoV-2 pandemic, viral whole genome sequences were generated, analyzed, and shared at an unprecedented scale. This wealth of data posed both tremendous opportunities and challenges; the data could be used to support varied parts of the public health response but could be hard for much of the public health workforce to analyze and interpret, given a historical lack of experience working with pathogen genomic data. This book addresses that gap. Structured into eight wide-ranging chapters, this book describes how the overlapping timescales of pathogen evolution and infection transmission enable exploration of epidemiologic dynamics from pathogen sequence data. Different approaches to sampling and genomic data inclusion are presented for different types of epidemiologic investigations. To support epidemiologists in diving into pathogen genomic data analysis, this book also introduces the analytic tools and approaches that are readily used in public health departments and presents case studies to show step-by-step how genomic data are used and evaluated in disease investigations. Despite the breadth of scientific literature that uses pathogen genomic data to investigate disease dynamics, there remains little practical guidance to help applied epidemiologists build their ability to explore epidemiologic questions with pathogen genomic data. This handbook was written to serve as that guide. Including case studies, common methods, and software tools, this book will be of great interest to public health microbiologists or lab directors, bioinformaticians, epidemiologists, health officers, academics, as well as students working in a public health context.

The emergence of severe acute respiratory syndrome (SARS) in late 2002 and 2003 challenged the global public health community to confront a novel epidemic that spread rapidly from its origins in southern China until it had reached more than 25 other countries within a matter of months. In addition to the number of patients infected with the SARS virus, the disease had profound economic and political repercussions in many of the affected regions. Recent reports of isolated new SARS cases and a fear that the disease could reemerge and spread have put public health officials on high alert for any indications of possible new outbreaks. This report examines the response to SARS by public health systems in individual countries, the biology of the SARS coronavirus and related coronaviruses in animals, the economic and political fallout of the SARS epidemic, quarantine law and other public health measures that apply to combating infectious diseases, and the role of international organizations and scientific cooperation in halting the spread of SARS. The report provides an illuminating survey of findings from the epidemic, along with an assessment of what might be needed in order to contain any future outbreaks of SARS or other emerging infections.

In the wake of a large-scale disaster, from the initial devastation through the long tail of recovery, protecting the health and well-being of the affected individuals and communities is paramount. Accurate and timely information about mortality and significant morbidity related to the disaster are the cornerstone of the efforts of the disaster management enterprise to save lives and prevent further health impacts. Conversely, failure to accurately capture mortality and significant morbidity data undercuts the nation's capacity to protect its population. Information about disaster-related mortality and significant morbidity adds value at all phases of the disaster management cycle. As a disaster unfolds, the data are crucial in guiding response and recovery priorities, ensuring a common operating picture and real-time situational awareness across stakeholders, and protecting vulnerable populations and settings at heightened risk. A Framework for Assessing Mortality and Morbidity After Large-Scale Disasters reviews and describes the current state of the field of disaster-related mortality and significant morbidity assessment. This report examines practices and methods for data collection, recording, sharing, and use across state, local, tribal, and territorial stakeholders; evaluates best practices; and identifies areas for future resource investment.

In response to a request from the Office of Science and Technology Policy and the Office of the Assistant Secretary for Preparedness and Response, the National Academies of Sciences, Engineering, and Medicine convened a standing committee of experts to help inform the federal government on critical science and policy issues related to emerging infectious diseases and other 21st century health threats. This set of Rapid Expert Consultations are the first of their kind and represent the best evidence available to the Committee at the time each publication was released. The science on these issues is continually evolving, and the scientific consensus the Committee reaches on these topics will likely evolve with it. The standing committee includes members with expertise in emerging infectious diseases, public health, public health preparedness and response, biological sciences, clinical care and crisis standards of care, risk communication, and regulatory issues.

As the culminating volume in the DCP3 series, volume 9 will provide an overview of DCP3 findings and methods, a summary of messages and substantive lessons to be taken from DCP3, and a further discussion of cross-cutting and synthesizing topics across the first eight volumes. The introductory chapters (1-3) in this volume take as their starting point the elements of the Essential Packages presented in the overview chapters of each volume. First, the chapter on intersectoral policy priorities for health includes fiscal and intersectoral policies and assembles a subset of the population policies and applies strict criteria for a low-income setting in order to propose a "highest-priority" essential package. Second, the chapter on packages of care and delivery platforms for universal health coverage (UHC) includes health sector interventions, primarily clinical and public health services, and uses the same approach to propose a highest priority package of interventions and policies that meet similar criteria, provides cost estimates, and describes a pathway to UHC.

In the past two decades, several pandemics have ravaged the globe, giving us several lessons on infectious disease epidemiology, the importance of initial detection and characterization of outbreak viruses, the importance of viral epidemic prevention steps, and the importance of modern vaccines. Pandemic Outbreaks in the Twenty-First Century: Epidemiology, Pathogenesis, Prevention, and Treatment summarizes the improvements in the 21st century to overcome / prevent / treat global pandemic with future prospective. Divided into 9 chapters, the book begins with an in-depth introduction to the lessons learned from the first pandemic of the 21st century. It describes the history, present and future in terms of detection, prevention and treatment. Followed by chapters on the outbreak, treatment strategies and clinical management of several infectious diseases like MERS, SARD and COVID 19, Pandemic Outbreaks in the Twenty-First Century: Epidemiology, Pathogenesis, Prevention, and Treatment, presents chapters on immunotherapies and vaccine technologies to combat pandemic outbreak and challenges. The book finishes with a chapter on the current knowledge and technology to control pandemic outbreaks. All are presented in a practical short format, making this volume a valuable resource for very broad academic audience. Provides insight to the lessons learned from past pandemics Gives recommendations, future direction in terms of detection, prevention and treatment of pandemics Guides readers through the status and recent developments of vaccines to overcome or prevent pandemics Shows how to enhance the host innate immunity in infectious diseases Includes a chapter on immunotherapies to combat pandemic outbreaks