WorldCat Identities

United States Department of Energy Office of Science

Overview
Works: 2,010 works in 2,169 publications in 1 language and 12,578 library holdings
Genres: Conference proceedings  Periodicals 
Roles: Sponsor, Researcher, Creator
Classifications: QH324.2, 539.7
Publication Timeline
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Most widely held works by United States
Systems biology knowledgebase for a new era in biology by Genomics:GTL Systems Biology Knowledgebase Workshop ( )
3 editions published in 2009 in English and held by 390 WorldCat member libraries worldwide
"Biology has entered a systems-science era with the goal to establish a predictive understanding of the mechanisms of cellular function and the interactions of biological systems with their environment and with each other. Vast amounts of data on the composition, physiology, and function of complex biological systems and their natural environments are emerging from new analytical technologies. Effectively exploiting these data requires developing a new generation of capabilities for analyzing and managing the information. By revealing the core principles and processes conserved in collective genomes across all biology and by enabling insights into the interplay between an organism's genotype and its environment, systems biology will allow scientific breakthroughs in our ability to project behaviors of natural systems and to manipulate and engineer managed systems. These breakthroughs will benefit Department of Energy (DOE) missions in energy security, climate protection, and environmental remediation. To promote development of a data and information management system, or knowledgebase, DOE's Office of Biological and Environmental Research (OBER) hosted a workshop May 28-30, 2008, in Washington, D.C. Experts from scientific disciplines relevant to DOE missions and from the enabling technologies (e.g., bioinformatics, computer science, database development, and systems architecture) met to determine the opportunities and requirements for developing and managing this knowledgebase for OBER's Genomics:GTL program (GTL). Workshop participants defined the proposed GTL knowledgebase, or GKB, as an informatics resource that would focus on DOE science-application areas yet also be widely and easily applicable to all systems biology research. Also discussed were requirements for effective development of data capabilities for systems biology that could be applied specifically to plants and microbes (i.e., bacteria, archaea, fungi, and protists--unicellular eukaryotes such as microalgae) as well as to three areas of science related to DOE missions: (1) researching and developing biofuels, (2) advancing fundamental understanding of the global carbon cycle, and (3) understanding and using biological systems for environmental remediation. Participants were organized into working groups based on four knowledgebase themes: data, metadata, and information; data integration; database architecture and infrastructure; and community and user issues. The workshop highlighted DOE's unique and extensive data-management needs as a foundation of mission-inspired systems biology research. These needs require a principal GTL data resource, the GKB, with critical links to complementary systems supported by other agencies and community organizations worldwide. This knowledgebase would facilitate a new level of scientific inquiry by serving as a central component for the integration of modeling, simulation, experimentation, and bioinformatic approaches. The GKB also would be a primary resource for data sharing and information exchange among the GTL community. Furthermore, not only would the GKB allow scientists to expand, compute, and integrate data and information program wide, it also would drive two classes of work: experimental design and modeling and simulation. Integrating data derived from computational predictions and modeling, as envisioned in the knowledgebase project, would increase data completeness, fidelity, and accuracy. These advancements in turn would greatly improve modeling and simulation, leading to new experimentation, analyses, and mechanistic insight. Scientists' ever-increasing exploitation of the dynamic linkages among data integration, experimentation, and modeling and simulation--aided by the GKB--will advance efforts to achieve a predictive understanding of the functions of biological systems. The knowledgebase, therefore, must serve multiple roles, including (1) a repository of data and results from high-throughput experiments; (2) a collection of tools to derive new insights through data synthesis, analysis, and comparison; (3) a framework to test scientific understanding; (4) a heuristic capability to improve the value and sophistication of further inquiry; and (5) a foundation for prediction, design, manipulation, and, ultimately, engineering of biological systems to meet national needs in bioenergy, environmental remediation, and carbon cycling."--Executive summary
Genomics and its impact on science and society the Human Genome Project and beyond ( )
3 editions published between 2007 and 2008 in English and held by 306 WorldCat member libraries worldwide
Maintaining U.S. preeminence in science university support ( )
1 edition published in 2006 in English and held by 213 WorldCat member libraries worldwide
The challenge and promise of scientific computing ( )
1 edition published in 2003 in English and held by 204 WorldCat member libraries worldwide
The beauty of nanoscale science ( )
1 edition published in 2003 in English and held by 203 WorldCat member libraries worldwide
Using nature's own toolkit to clean up the environment ( )
1 edition published in 2006 in English and held by 203 WorldCat member libraries worldwide
Fusion energy bringing a star to Earth ( )
2 editions published in 2003 in English and held by 201 WorldCat member libraries worldwide
Dark energy the mystery that dominates the universe ( )
1 edition published in 2003 in English and held by 201 WorldCat member libraries worldwide
Biotechnology for Energy Security ( )
1 edition published in 2003 in English and held by 200 WorldCat member libraries worldwide
Building a 21st century workforce ( )
1 edition published in 2003 in English and held by 197 WorldCat member libraries worldwide
Carbon cycling and biosequestration integrating biology and climate through systems science : report from the March 2008 workshop ( )
2 editions published in 2008 in English and held by 196 WorldCat member libraries worldwide
One of the most daunting challenges facing science in the 21st Century is to predict how Earth's ecosystems will respond to global climate change. The global carbon cycle plays a central role in regulating atmospheric carbon dioxide (CO₂) levels and thus Earth's climate, but our basic understanding of the myriad of tightly interlinked biological processes that drive the global carbon cycle remains limited at best. Whether terrestrial and ocean ecosystems will capture, store, or release carbon is highly dependent on how changing climate conditions affect processes performed by the organisms that form Earth's biosphere. Advancing our knowledge of biological components of the global carbon cycle is thus crucial to predicting potential climate change impacts, assessing the viability of climate change adaptation and mitigation strategies, and informing relevant policy decisions. Global carbon cycling is dominated by the paired biological processes of photosynthesis and respiration. Photosynthetic plants and microbes of Earth's land-masses and oceans use solar energy to transform atmospheric CO₂ into organic carbon. The majority of this organic carbon is rapidly consumed by plants or microbial decomposers for respiration and returned to the atmosphere as CO₂. Coupling between the two processes results in a near equilibrium between photosynthesis and respiration at the global scale, but some fraction of organic carbon also remains in stabilized forms such as biomass, soil, and deep ocean sediments. This process, known as carbon biosequestration, temporarily removes carbon from active cycling and has thus far absorbed a substantial fraction of anthropogenic carbon emissions
U.S. Department of Energy, Office of Science ( )
3 editions published between 2009 and 2010 in English and held by 193 WorldCat member libraries worldwide
Carbon sequestration research and development ( Book )
2 editions published in 1999 in English and held by 190 WorldCat member libraries worldwide
Communicating the future best practices for communication of science and technology to the public : conference proceedings, March 6-8, 2002 by Best Practices for Communication of Science and Technology to the Public ( Book )
2 editions published in 2002 in English and held by 181 WorldCat member libraries worldwide
New frontiers in characterizing biological systems report from the May 2009 workshop ( )
3 editions published between 2009 and 2010 in English and held by 179 WorldCat member libraries worldwide
"To promote development of a new generation of characterization technologies, BER hosted the workshop, New Frontiers in Characterizing Biological Systems, in May 2009. Experts from scientific disciplines relevant to DOE missions and from the enabling technologies (e.g., optical spectroscopy, genomic sequencing technology, electrochemistry, electron microscopy, and mass spectrometry) met to determine the opportunities and requirements for identifying and developing new tools and analytical approaches for characterizing cellular- and multicellularlevel functions and processes that are essential to develop solutions for DOE missions in biofuels, carbon cycling and biosequestration, low dose radiation, and environmental stewardship. The intent of the workshop was to broadly explore future technology capabilities that are needed, not current technologies and their development"--P. 2 of cover
Symmetry dimensions of particle physics ( )
in English and held by 177 WorldCat member libraries worldwide
CRD report by Lawrence Berkeley National Laboratory ( )
in English and held by 170 WorldCat member libraries worldwide
NERSC news by National Energy Research Scientific Computing Center (U.S.) ( )
in English and held by 168 WorldCat member libraries worldwide
Complex systems science for subsurface fate and transport report from the August 2009 workshop ( )
1 edition published in 2010 in English and held by 165 WorldCat member libraries worldwide
The subsurface environment, which encompasses the vadose and saturated zones, is a heterogeneous, geologically complex domain. Believed to contain a large percentage of Earth's biomass in the form of microorganisms, the subsurface is a dynamic zone where important biogeochemical cycles work to sustain life. Actively linked to the atmosphere and biosphere through the hydrologic and carbon cycles, the subsurface serves as a storage location for much of Earth's fresh water. Coupled hydrological, microbiological, and geochemical processes occurring within the subsurface environment cause the local and regional natural chemical fluxes that govern water quality. These processes play a vital role in the formation of soil, economically important fossil fuels, mineral deposits, and other natural resources. Cleaning up Department of Energy (DOE) lands impacted by legacy wastes and using the subsurface for carbon sequestration or nuclear waste isolation require a firm understanding of these processes and the documented means to characterize the vertical and spatial distribution of subsurface properties directing water, nutrient, and contaminant flows. This information, along with credible, predictive models that integrate hydrological, microbiological, and geochemical knowledge over a range of scales, is needed to forecast the sustainability of subsurface water systems and to devise ways to manage and manipulate dynamic in situ processes for beneficial outcomes. Predictive models provide the context for knowledge integration. They are the primary tools for forecasting the evolving geochemistry or microbial ecology of groundwater under various scenarios and for assessing and optimizing the potential effectiveness of proposed approaches to carbon sequestration, waste isolation, or environmental remediation. An iterative approach of modeling and experimentation can reveal powerful insights into the behavior of subsurface systems. State-of-science understanding codified in models can provide a basis for testing hypotheses, guiding experiment design, integrating scientific knowledge on multiple environmental systems into a common framework, and translating this information to support informed decision making and policies. Subsurface behavior typically has been investigated using reductionist, or bottom-up approaches. In these approaches, mechanisms of small-scale processes are quantified, and key aspects of their behaviors are moved up to the prediction scale using scaling laws and models. Reductionism has and will continue to yield essential and comprehensive understanding of the molecular and microscopic underpinnings of component processes. However, system-scale predictions cannot always be made with bottom-up approaches because the behaviors of subsurface environments often simply do not result from the sum of smaller-scale process interactions. Systems exhibiting such behavior are termed complex and can range from the molecular to field scale in size. Complex systems contain many interactive parts and display collective behavior including emergence, feedback, and adaptive mechanisms. Microorganisms - key moderators of subsurface chemical processes - further challenge system understanding and prediction because they are adaptive life forms existing in an environment difficult to observe and measure. A new scientific approach termed complex systems science has evolved from the critical need to understand and model these systems, whose distinguishing features increasingly are found to be common in the natural world. In contrast to reductionist approaches, complexity methods often use a top-down approach to identify key interactions controlling diagnostic variables at the prediction scale; general macroscopic laws controlling system-scale behavior; and essential, simplified models of subsystem interactions that enable prediction. This approach is analogous to systems biology, which emphasizes the tight coupling between experimentation and modeling and is defined, in the context of Biological Systems Science research programs under DOE's Office of Biological and Environmental Research (BER), as ''the holistic, multidisciplinary study of complex interactions that specify the function of an entire biological system - whether single cells or a multicellular organism - rather than the reductionist study of individual components.'' In August 2009, BER held the Subsurface Complex System Science Relevant to Contaminant Fate and Transport workshop to assess the merits and limitations of complex systems science approaches to subsurface systems controlled by coupled hydrological, microbiological, and geochemical processes
 
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