National Library of Energy BETA

Sample records for biological systems science

  1. Biological Sciences

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science Energy Science Engineering Science Environmental Science Fusion Science Math & Computer Science Nuclear Science Share Your Research NERSC Citations Home Science at...

  2. National Laboratory] Basic Biological Sciences(59) Biological...

    Office of Scientific and Technical Information (OSTI)

    Achievements of structural genomics Terwilliger, Thomas C. Los Alamos National Laboratory Basic Biological Sciences(59) Biological Science Biological Science Abstract Not...

  3. Department of Energy's Biological and Environmental Research Strategic Data Roadmap for Earth System Science

    SciTech Connect (OSTI)

    Williams, Dean N.; Palanisamy, Giri; Shipman, Galen; Boden, Thomas A.; Voyles, Jimmy W.

    2014-04-25

    Rapid advances in experimental, sensor, and computational technologies and techniques are driving exponential growth in the volume, acquisition rate, variety, and complexity of scientific data. This wealth of scientifically meaningful data has tremendous potential to lead to scientific discovery. However, to achieve scientific breakthroughs, these data must be exploitable—they must be analyzed effectively and efficiently and the results shared and communicated easily within the wider Department of Energy’s (DOE’s) Biological and Environmental Research (BER) Climate and Environmental Sciences Division (CESD) community. The explosion in data complexity and scale makes these tasks exceedingly difficult to achieve, particularly given that an increasing number of disciplines are working across techniques, integrating simulation and experimental or observational results (see Table 5 in Appendix 2). Consequently, we need new approaches to data management, analysis, and visualization that provide research teams with easy-to-use and scalable end-to-end solutions. These solutions must facilitate (and where feasible, automate and capture) every stage in the data lifecycle (shown in Figure 1), from collection to management, annotation, sharing, discovery, analysis, and visualization. In addition, the core functionalities are the same across climate science communities, but they require customization to adapt to specific needs and fit into research and analysis workflows. To this end, the mission of CESD’s Data and Informatics Program is to integrate all existing and future distributed CESD data holdings into a seamless and unified environment for the acceleration of Earth system science.

  4. Genomics and Systems Biology

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Genomics and Systems Biology Genomics and Systems Biology Los Alamos scientists perform research in functional genomics and structural genomics, and applications for such work cover diverse fields such as energy, agriculture, and environmental cleanup. Contact Us Babetta Marrone Biofuels Program Manager Email Cheryl Kuske DOE BER Biological System Science Division Program Manager Email Kirsten McCabe Emerging Threats Program Manager Email Rebecca McDonald Bioscience Communications Email "We

  5. Structural Biology | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    Structural Biology Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Genomic Science DOE Bioenergy Research Centers Bioimaging Technology DOE Joint Genome Institute Structural Biology Radiochemistry & Imaging Instrumentation Radiobiology: Low Dose Radiation Research DOE Human Subjects Protection Program Climate and Environmental Sciences Division (CESD) Research Abstracts Searchable Archive of BER Highlights External link

  6. Biological Science | Department of Energy

    Office of Energy Efficiency and Renewable Energy (EERE) Indexed Site

    Biological Science Biological Science The protozoan Plasmodium falciparum gliding through a cell in the gut of a mosquito, its primary host. Although five different species of Plasmodium can cause malaria, Plasmodium falciparum causes the most severe disease. | Photo courtesy of Wikipedia Commons. <a href="http://energy.gov/articles/malaria-researchers-find-weakness-global-killer">Read more</a> The protozoan Plasmodium falciparum gliding through a cell in the gut of a

  7. Genomics and Systems Biology

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Genomics and Systems Biology LANL leads the world in computational finishing of microbial ... and experimental biology as the foundation of a dynamic systems biology capability. ...

  8. Genomics and Systems Biology

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Genomics and Systems Biology Genomics and Systems Biology Los Alamos scientists perform research in functional genomics and structural genomics, and applications for such work ...

  9. Biological conversion system

    DOE Patents [OSTI]

    Scott, C.D.

    A system for bioconversion of organic material comprises a primary bioreactor column wherein a biological active agent (zymomonas mobilis) converts the organic material (sugar) to a product (alcohol), a rejuvenator column wherein the biological activity of said biological active agent is enhanced, and means for circulating said biological active agent between said primary bioreactor column and said rejuvenator column.

  10. Genomics and Systems Biology

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Genomics and Systems Biology LANL leads the world in computational finishing of microbial genomes Read caption + In 2013, Los Alamos scientist Richard Sayre and his team genetically modified the organisms to harvest light more efficiently for maximum production. Overview of Research and Highlights Researchers at Los Alamos National Laboratory are using their renowned expertise in genomics, computation, and experimental biology as the foundation of a dynamic systems biology capability. Systems

  11. UK Biotechnology and Biological Sciences Research Council | Open...

    Open Energy Info (EERE)

    Biotechnology and Biological Sciences Research Council Jump to: navigation, search Name: UK Biotechnology and Biological Sciences Research Council Place: London, United Kingdom...

  12. Carbon Cycling and Biosequestration Integrating Biology and Climate Through Systems Science Report from the March 2008 Workshop

    SciTech Connect (OSTI)

    Graber, J.; Amthor, J.; Dahlman, R.; Drell, D.; Weatherwax, S.

    2008-12-01

    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 (CO{sub 2}) 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 CO{sub 2} 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 CO{sub 2}. 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.

  13. 7th Annual Systems Biology Symposium: Systems Biology and Engineering

    SciTech Connect (OSTI)

    Galitski, Timothy P.

    2008-04-01

    Systems biology recognizes the complex multi-scale organization of biological systems, from molecules to ecosystems. The International Symposium on Systems Biology has been hosted by the Institute for Systems Biology in Seattle, Washington, since 2002. The annual two-day event gathers the most influential researchers transforming biology into an integrative discipline investingating complex systems. Engineering and application of new technology is a central element of systems biology. Genome-scale, or very small-scale, biological questions drive the enigneering of new technologies, which enable new modes of experimentation and computational analysis, leading to new biological insights and questions. Concepts and analytical methods in engineering are now finding direct applications in biology. Therefore, the 2008 Symposium, funded in partnership with the Department of Energy, featured global leaders in "Systems Biology and Engineering."

  14. Division of Chemical & Biological Sciences | The Ames Laboratory

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Chemical & Biological Sciences [PHOTO]Laboratory-scale instrumentation for chemical analysis. The Division of Chemical and Biological Sciences is known for laboratory-scale instrumentation development for chemical analysis. Read about dynamic nuclear polarization (DNP) | Read about stimulation emission deplection (STED) [IMAGE]Imaging mass spectrometry Imaging mass spectrometry enables new understanding of the distribution of chemicals in plant materials. Read More [PHOTO] Previous Pause

  15. Systems biology approach to bioremediation

    SciTech Connect (OSTI)

    Chakraborty, Romy; Wu, Cindy H.; Hazen, Terry C.

    2012-06-01

    Bioremediation has historically been approached as a ‘black box’ in terms of our fundamental understanding. Thus it succeeds and fails, seldom without a complete understanding of why. Systems biology is an integrated research approach to study complex biological systems, by investigating interactions and networks at the molecular, cellular, community, and ecosystem level. The knowledge of these interactions within individual components is fundamental to understanding the dynamics of the ecosystem under investigation. Finally, understanding and modeling functional microbial community structure and stress responses in environments at all levels have tremendous implications for our fundamental understanding of hydrobiogeochemical processes and the potential for making bioremediation breakthroughs and illuminating the ‘black box’.

  16. 6th Annual Systems Biology Symposium: Systems Biology and the Environment

    SciTech Connect (OSTI)

    Galitski, Timothy, P.

    2007-04-01

    Systems biology recognizes the complex multi-scale organization of biological systems, from molecules to ecosystems. The International Symposium on Systems Biology is an annual two-day event gathering the most influential researchers transforming biology into an integrative discipline investigating complex systems. In recognition of the fundamental similarity between the scientific problems addressed in environmental science and systems biology studies at the molecular, cellular, and organismal levels, the 2007 Symposium featured global leaders in “Systems Biology and the Environment.” The objective of the 2007 “Systems Biology and the Environment” International Symposium was to stimulate interdisciplinary thinking and research that spans systems biology and environmental science. This Symposium was well aligned with the DOE’s Genomics:GTL program efforts to achieve scientific objectives for each of the three DOE missions: • Develop biofuels as a major secure energy source for this century, • Develop biological solutions for intractable environmental problems, and • Understand biosystems’ climate impacts and assess sequestration strategies Our scientific program highlighted world-class research exemplifying these priorities. The Symposium featured 45 minute lectures from 12 researchers including: Penny/Sallie Chisholm of MIT gave the keynote address “Tiny Cells, Global Impact: What Prochlorococcus Can Teach Us About Systems Biology”, plus Jim Fredrickson of PNNL, Nitin Baliga of ISB, Steve Briggs of UCSD, David Cox of Perlegen Sciences, Antoine Danchin of Institut Pasteur, John Delaney of the U of Washington, John Groopman of Johns Hopkins, Ben Kerr of the U of Washington, Steve Koonin of BP, Elliott Meyerowitz of Caltech, and Ed Rubin of LBNL. The 2007 Symposium promoted DOE’s three mission areas among scientists from multiple disciplines representing academia, non-profit research institutions, and the private sector. As in all previous

  17. Data System Sciences & Engineering Group

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Architectures for National Security Risk Analysis Streaming Realtime Sensor Networks Visual Analytics Opportunities Contact Us Data System Sciences & Engineering Group DSSE goes...

  18. Atmospheric System Research (ASR) Program | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    Atmospheric System Research (ASR) Program Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Climate and Environmental Sciences Division (CESD) ARM Climate Research Facility Atmospheric System Research (ASR) Program Data Management Earth System Modeling (ESM) Program William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Integrated Assessment of Global Climate Change Regional & Global Climate Modeling (RGCM) Program

  19. Earth System Modeling (ESM) Program | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    Earth System Modeling (ESM) Program Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Climate and Environmental Sciences Division (CESD) ARM Climate Research Facility Atmospheric System Research (ASR) Program Data Management Earth System Modeling (ESM) Program William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Integrated Assessment of Global Climate Change Regional & Global Climate Modeling (RGCM) Program

  20. AN INTEGRATED BIOLOGICAL CONTROL SYSTEM AT HANFORD

    SciTech Connect (OSTI)

    JOHNSON AR; CAUDILL JG; GIDDINGS RF; RODRIGUEZ JM; ROOS RC; WILDE JW

    2010-02-11

    In 1999 an integrated biological control system was instituted at the U.S. Department of Energy's Hanford Site. Successes and changes to the program needed to be communicated to a large and diverse mix of organizations and individuals. Efforts at communication are directed toward the following: Hanford Contractors (Liquid or Tank Waste, Solid Waste, Environmental Restoration, Science and Technology, Site Infrastructure), General Hanford Employees, and Hanford Advisory Board (Native American Tribes, Environmental Groups, Local Citizens, Washington State and Oregon State regulatory agencies). Communication was done through direct interface meetings, individual communication, where appropriate, and broadly sharing program reports. The objectives of the communication efforts was to have the program well coordinated with Hanford contractors, and to have the program understood well enough that all stakeholders would have confidence in the work performed by the program to reduce or elimated spread of radioactive contamination by biotic vectors. Communication of successes and changes to an integrated biological control system instituted in 1999 at the Department of Energy's Hanford Site have required regular interfaces with not only a diverse group of Hanford contractors (i.e., those responsible for liquid or tank waste, solid wastes, environmental restoration, science and technology, and site infrastructure), and general Hanford employees, but also with a consortium of designated stake holders organized as the Hanford Advisory Board (i.e., Native American tribes, various environmental groups, local citizens, Washington state and Oregon regulatory agencies, etc.). Direct interface meetings, individual communication where appropriate, and transparency of the biological control program were the methods and outcome of this effort.

  1. Biology Chemistry & Material Science Laboratory 1 | Sample Preparation

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Laboratories 1 Cynthia Patty | (650) 926-3925 Biology Chemistry & Material Science Laboratory 1 Inventory The BioChemMat Lab 1 at SSRL is dedicated to researcher experiments, including x-ray absorption and emission spectroscopies, macromolecular crystallography, x-ray scattering, and x-ray imaging. The labs are maintained for final-stage sample preparation and other relatively straight-forward laboratory manipulations. These include buffer preparations, solid sample grinding, solution

  2. Biology Chemistry & Material Science Laboratory 2 | Sample Preparation

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Laboratories 2 Cynthia Patty | (650) 926-3925 Biology Chemistry & Material Science Laboratory 2 Inventory The BioChemMat Lab 2 (BCM 2) at SSRL is dedicated to researcher experiments, including x-ray absorption and emission spectroscopies, macromolecular crystallography, x-ray scattering, and x-ray imaging. The labs are maintained for final-stage sample preparation and other relatively straight-forward laboratory manipulations. These include buffer preparations, solid sample grinding,

  3. Method of measurement in biological systems

    DOE Patents [OSTI]

    Turteltaub, K.W.; Vogel, J.S.; Felton, J.S.; Gledhill, B.L.: Davis, J.C.; Stanker, L.H.

    1993-05-11

    A method is disclosed of quantifying molecules in biological substances, comprising: selecting a biological host in which radioisotopes are present in concentrations equal to or less than those in the ambient biosphere; preparing a long-lived radioisotope labeled reactive chemical specie; administering the chemical specie to the biological host in doses sufficiently low to avoid significant overt damage to the biological system; allowing a period of time to elapse sufficient for dissemination and interaction of the chemical specie with the host throughout the biological system of the host; isolating a reacted fraction of the biological substance from the host in a manner sufficient to avoid contamination of the substance from extraneous sources; converting the fraction of biological substance by suitable means to a material which efficiently produces charged ions in at least one of several possible ion sources without introduction of significant isotopic fractionation; and measuring the radioisotope concentration in the material by means of direct isotopic counting.

  4. Energy, information science, and systems science

    SciTech Connect (OSTI)

    Wallace, Terry C; Mercer - Smith, Janet A

    2011-02-01

    This presentation will discuss global trends in population, energy consumption, temperature changes, carbon dioxide emissions, and energy security programs at Los Alamos National Laboratory. LANL's capabilities support vital national security missions and plans for the future. LANL science supports the energy security focus areas of impacts of Energy Demand Growth, Sustainable Nuclear Energy, and Concepts and Materials for Clean Energy. The innovation pipeline at LANL spans discovery research through technology maturation and deployment. The Lab's climate science capabilities address major issues. Examples of modeling and simulation for the Coupled Ocean and Sea Ice Model (COSIM) and interactions of turbine wind blades and turbulence will be given.

  5. Systems Biology Knowledgebase for a New Era in Biology A Genomics:GTL Report from the May 2008 Workshop

    SciTech Connect (OSTI)

    Gregurick, S.; Fredrickson, J. K.; Stevens, R.

    2009-03-01

    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.

  6. Request for Travel Funds for Systems Radiation Biology Workshop

    SciTech Connect (OSTI)

    Barcellos-Hoff, Mary Helen

    2014-03-22

    The 3rd International Systems Radiation Biology Workshop brought together the major European, US and Japanese research programs on radiation risk as well as selected experts representing systems biological approaches to discuss how the new methodologies could be best exploited for low dose research. A significant part of the workshop was devoted to discussions organised as breakout group sessions. To facilitate discussions number of participants was limited to 60 persons. To achieve the goals of this symposium in this international conference, support from DOE is vital. Hence, this proposal requested support in the amount of $15,000 to cover the travel expenses of international experts and radiation biology scientists from the United States. This supporting mechanism was clearly identified to the selected US participants as a conference support award from the DOE (See attached PDF). The workshop was an outstanding opportunity to strengthen interactions between leading experts in the emerging areas of radiation sciences, and will also provide opportunities for younger scientists to meet with experts and discuss their results. This workshop was designed to endorse active engagement in international collaboration. A major objective of this conference was to effectively communicate research results, in order to ensure that current thinking reflects sound science of radiation biology. Further, this international event addressed the use and success of scientific initiatives in radiation biology for policymakers, standard-setters, and the general public.

  7. Method of measurement in biological systems

    DOE Patents [OSTI]

    Turteltaub, K.W.; Vogel, J.S.; Felton, J.S.; Gledhill, B.L.; Davis, J.C.

    1994-12-27

    Disclosed is a method of quantifying molecules in biological substances comprising: a. selecting a biological host in which radioisotopes are present in concentrations equal to or less than those in the ambient biosphere, b. preparing a long-lived radioisotope labeled reactive chemical specie, c. administering the chemical specie to the biological host in doses sufficiently low to avoid significant overt damage to the biological system, d. allowing a period of time to elapse sufficient for dissemination and interaction of the chemical specie with the host throughout the biological system of the host, e. isolating a reacted fraction of the biological substance from the host in a manner sufficient to avoid contamination of the substance from extraneous sources, f. converting the fraction of biological substance by suitable means to a material which efficiently produces charged ions in at least one of several possible ion sources without introduction of significant isotopic fractionation, and, g. measuring the radioisotope concentration in the material by means of direct isotopic counting. 5 figures.

  8. Method of measurement in biological systems

    DOE Patents [OSTI]

    Turteltaub, Kenneth W.; Vogel, John S.; Felton, James S.; Gledhill, Barton L.; Davis, Jay C.; Stanker, Larry H.

    1993-05-11

    Disclosed is a method of quantifying molecules in biological substances, comprising: a. selecting a biological host in which radioisotopes are present in concentrations equal to or less than those in the ambient biosphere, b. preparing a long-lived radioisotope labeled reactive chemical specie, c. administering said chemical specie to said biological host in doses sufficiently low to avoid significant overt damage to the biological system thereof, d. allowing a period of time to elapse sufficient for dissemination and interaction of said chemical specie with said host throughout said biological system of said host, e. isolating a reacted fraction of the biological substance from said host in a manner sufficient to avoid contamination of said substance from extraneous sources, f. converting said fraction of biological substance by suitable means to a material which efficiently produces charged ions in at least one of several possible ion sources without introduction of significant isotopic fractionation, and, g. measuring the radioisotope concentration in said material by means of direct isotopic counting.

  9. Method of measurement in biological systems

    DOE Patents [OSTI]

    Turteltaub, Kenneth W.; Vogel, John S.; Felton, James S.; Gledhill, Barton L.; Davis, Jay C.

    1994-01-01

    Disclosed is a method of quantifying molecules in biological substances comprising: a. selecting a biological host in which radioisotopes are present in concentrations equal to or less than those in the ambient biosphere, b. preparing a long-lived radioisotope labeled reactive chemical specie, c. administering said chemical specie to said biological host in doses sufficiently low to avoid significant overt damage to the biological system thereof, d. allowing a period of time to elapse sufficient for dissemination and interaction of said chemical specie with said host throughout said biological system of said host, e. isolating a reacted fraction of the biological substance from said host in a manner sufficient to avoid contamination of said substance from extraneous sources, f. converting said fraction of biological substance by suitable means to a material which efficiently produces charged ions in at least one of several possible ion sources without introduction of significant isotopic fractionation, and, g. measuring the radioisotope concentration in said material by means of direct isotopic counting.

  10. OSTIblog Articles in the biological sciences Topic | OSTI, US...

    Office of Scientific and Technical Information (OSTI)

    To find out more about neutrinos and modern physics research results, go to Science Accelerator, a gateway to science that includes R&D results, project descriptions, ...

  11. Comparative systems biology across an evolutionary gradient within...

    Office of Scientific and Technical Information (OSTI)

    Comparative systems biology across an evolutionary gradient within the Shewanella genus Citation Details In-Document Search Title: Comparative systems biology across an ...

  12. Systems biology analysis of Zymomonas mobilis ZM4 ethanol stress...

    Office of Scientific and Technical Information (OSTI)

    Systems biology analysis of Zymomonas mobilis ZM4 ethanol stress responses Citation Details In-Document Search Title: Systems biology analysis of Zymomonas mobilis ZM4 ethanol ...

  13. A Systems Biology Platform for Characterizing Regulatory and...

    Office of Scientific and Technical Information (OSTI)

    Technical Report: A Systems Biology Platform for Characterizing Regulatory and Metabolic ... Citation Details In-Document Search Title: A Systems Biology Platform for Characterizing ...

  14. Importance of systems biology in engineering microbes for biofuel...

    Office of Scientific and Technical Information (OSTI)

    Importance of systems biology in engineering microbes for biofuel production Citation Details In-Document Search Title: Importance of systems biology in engineering microbes for ...

  15. Radiological/biological/aerosol removal system

    DOE Patents [OSTI]

    Haslam, Jeffery J

    2015-03-17

    An air filter replacement system for existing buildings, vehicles, arenas, and other enclosed airspaces includes a replacement air filter for replacing a standard air filter. The replacement air filter has dimensions and air flow specifications that allow it to replace the standard air filter. The replacement air filter includes a filter material that removes radiological or biological or aerosol particles.

  16. Modular microfluidic system for biological sample preparation

    DOE Patents [OSTI]

    Rose, Klint A.; Mariella, Jr., Raymond P.; Bailey, Christopher G.; Ness, Kevin Dean

    2015-09-29

    A reconfigurable modular microfluidic system for preparation of a biological sample including a series of reconfigurable modules for automated sample preparation adapted to selectively include a) a microfluidic acoustic focusing filter module, b) a dielectrophoresis bacteria filter module, c) a dielectrophoresis virus filter module, d) an isotachophoresis nucleic acid filter module, e) a lyses module, and f) an isotachophoresis-based nucleic acid filter.

  17. Earth Systems Science and Engineering

    SciTech Connect (OSTI)

    Rotman, D A

    2006-02-21

    Providing the essential energy and water systems to support human needs while understanding and addressing their environmental consequences is a watershed problem for the 21st century. The LLNL Earth System Science and Engineering Program seeks to provide the scientific understanding and technological expertise to help provide solutions at both global and regional scales. Our work is highly collaborative with universities, laboratories and industrial partners across the world and involves observational data, laboratory experiments, and numerical simulations. The energy systems we have enjoyed for the last 100 years have resulted in the advanced standard of living in the developed world and a major emerging problem with climate change. Now we face a simultaneous realization that our reliance on fossil fuels is a source of conflict and economic disruption as well as causing potentially abrupt, even catastrophic global climate change. The climate and energy problem is perhaps the greatest challenge ever faced by mankind. Fossil fuel remains the least expensive and most available source of energy and the basis of our economy. The use of fossil fuels, especially over the last 100 years has led to a 30% increase in CO{sub 2} in the atmosphere. The problem is growing. The population of the Earth will increase by several billion people in the next 50 years. If economic growth is to continue, the demand for energy is estimated to approximately double in the next 50 years so that we will need approximately 10 TW more energy than the 15 TW we use now. Much of this demand will come from the developing world where most of the population growth will occur and where advanced energy technology is not generally used. The problem affects and is affected by a complex system of systems. The climate and energy problem will affect resources, social structure and the probability of increased conflict. No one person, no one nation, no one technology can solve the problem. There is no

  18. KPFM and PFM of Biological Systems

    SciTech Connect (OSTI)

    Rodriguez, Brian [University College, Dublin; Kalinin, Sergei V [ORNL

    2011-01-01

    Surface potentials and electrostatic interactions in biological systems are a key element of cellular regulation and interaction. Examples include cardiac and muscular activity, voltage-gated ion channels, protein folding and assembly, and electroactive cells and electrotransduction. The coupling between electrical, mechanical, and chemical signals and responses in cellular systems necessitates the development of tools capable of measuring the distribution of charged species, surface potentials, and mechanical responses to applied electrical stimuli and vice versa, ultimately under physiological conditions. In this chapter, applications of voltage-modulated atomic force microscopy (AFM) methods including Kelvin probe force microscopy (KPFM) and piezoresponse force microscopy (PFM) to biological systems are discussed. KPFM is a force-sensitive non-contact or intermittent-contact mode AFM technique that allows electrostatic interactions and surface potentials to be addressed. Beyond long-range electrostatic interactions, the application of bias can lead to a mechanical response, e.g., due to linear piezoelectric coupling in polar biopolymers or via more complex electrotransduction and redox pathways in other biosystems. The use and development of PFM, based on direct electromechanical detection, to biological systems will also be addressed. The similarities and limitations of measuring surface potentials and electromechanical coupling in solution will be outlined.

  19. Method for photo-altering a biological system to improve biological effect

    DOE Patents [OSTI]

    Hill, Richard A.; Doiron, Daniel R.; Crean, David H.

    2000-08-01

    Photodynamic therapy is a new adjunctive therapy for filtration surgery that does not use chemotherapy agents or radiation, but uses pharmacologically-active sensitizing compounds to produce a titratable, localized, transient, post operative avascular conjunctiva. A photosensitizing agent in a biological system is selectively activated by delivering the photosensitive agent to the biological system and laser activating only a spatially selected portion of the delivered photosensitive agent. The activated portion of the photosensitive agent reacts with the biological system to obtain a predetermined biological effect. As a result, an improved spatial disposition and effectuation of the biological effect by the photosensitive agent in the biological system is achieved.

  20. Detter, John C. [Los Alamos National Laboratory] Basic Biological

    Office of Scientific and Technical Information (OSTI)

    State of the Art for Autonomous Detection Systems using Genomic Sequencing Detter, John C. Los Alamos National Laboratory Basic Biological Sciences(59) Biological Science...

  1. Renewable Energy from Synthetic Biology (LBNL Science at the Theater)

    ScienceCinema (OSTI)

    Keasling, Jay

    2011-04-28

    Jay Keasling, co-leader of Berkeley Lab's Helios Project, is a groundbreaking researcher in the new scientific field of synthetic biology. In Helios, he directs the biology program, incorporating a range of approaches to increasing the efficacy and economy of plants and cellulose-degrading microbes to make solar-based fuels. He is a UC Berkeley professor of Chemical and Bioengineering, and founder of Amyris Biotechnologies, a company that was honored as a Technology Pioneer for 2006 by the World Economic Forum. Keasling has succeeded in using synthetic biology to develop a yeast-based production scheme for precursors of the antimalarial drug artemisinin in work funded by the Bill & Melinda Gates Foundation.

  2. Climate, Earth system project draws on science powerhouses

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Climate, Earth system project draws on science powerhouses Climate, Earth system project draws on science powerhouses The project will focus initially on three climate-change ...

  3. Supporting Advanced Scientific Computing Research * Basic Energy Sciences * Biological

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Energy S ciences N etwork Enabling Virtual Science June 9, 2009 Steve C o/er steve@es.net Dept. H ead, E nergy S ciences N etwork Lawrence B erkeley N aDonal L ab The E nergy S ciences N etwork The D epartment o f E nergy's O ffice o f S cience i s o ne o f t he l argest s upporters o f basic r esearch i n t he p hysical s ciences i n t he U .S. * Directly s upports t he r esearch o f s ome 1 5,000 s cienDsts, p ostdocs a nd g raduate s tudents at D OE l aboratories, u niversiDes, o ther F

  4. Fungal Genomics Program Grigoriev, Igor 59 BASIC BIOLOGICAL SCIENCES...

    Office of Scientific and Technical Information (OSTI)

    and the environment, and to promote functional studies on a system level. Combining new sequencing technologies and comparative genomics tools, JGI is now leading the world...

  5. Genomics and Systems Biology of Tuberculosis (2009 JGI User Meeting)

    ScienceCinema (OSTI)

    Galagan, James

    2011-04-25

    James Galagan from the Broad Institute spoke about the "Genomics and Systems Biology of TB" on March 26, 2009 during the 4th Annual User Meeting

  6. DOE Science Showcase - Earth System Models | OSTI, US Dept of...

    Office of Scientific and Technical Information (OSTI)

    Earth System Models U.S. DOE Office of Science: Getting Forest Carbon Right in Climate ... agencies, particularly the National Science Foundation, the National Oceanic and ...

  7. Genomic Science | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    Genomic Science Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Genomic Science DOE Bioenergy Research Centers Bioimaging Technology DOE Joint Genome Institute Structural Biology Radiochemistry & Imaging Instrumentation Radiobiology: Low Dose Radiation Research DOE Human Subjects Protection Program Climate and Environmental Sciences Division (CESD) Research Abstracts Searchable Archive of BER Highlights External link Facilities

  8. Renewable Hydrogen Production from Biological Systems

    Broader source: Energy.gov [DOE]

    Presentation by Matthew Posewitz, Colorado School of Mines, at the Biological Hydrogen Production Workshop held September 24-25, 2013, at the National Renewable Energy Laboratory in Golden, Colorado.

  9. Molecular biology in marine science: Scientific questions, technological approaches, and practical implications

    SciTech Connect (OSTI)

    1994-12-31

    This report describes molecular techniques that could be invaluable in addressing process-oriented problems in the ocean sciences that have perplexed oceanographers for decades, such as understanding the basis for biogeochemical processes, recruitment processes, upper-ocean dynamics, biological impacts of global warming, and ecological impacts of human activities. The coupling of highly sophisticated methods, such as satellite remote sensing, which permits synoptic monitoring of chemical, physical, and biological parameters over large areas, with the power of modern molecular tools for ``ground truthing`` at small scales could allow scientists to address questions about marine organisms and the ocean in which they live that could not be answered previously. Clearly, the marine sciences are on the threshold of an exciting new frontier of scientific discovery and economic opportunity.

  10. PIA - Environmental Molecular Sciences Laboratory (EMSL) User System (ESU)

    Office of Energy Efficiency and Renewable Energy (EERE) Indexed Site

    | Department of Energy Molecular Sciences Laboratory (EMSL) User System (ESU) PIA - Environmental Molecular Sciences Laboratory (EMSL) User System (ESU) PIA - Environmental Molecular Sciences Laboratory (EMSL) User System (ESU) PIA - Environmental Molecular Sciences Laboratory (EMSL) User System (ESU) (118.86 KB) More Documents & Publications PIA - WEB iPASS System DOE PIA Integrated Safety Management Workshop Registration, PIA, Idaho National Laboratory PIA - Advanced Test Reactor

  11. Complex Systems: Science for the 21st Century (Technical Report...

    Office of Scientific and Technical Information (OSTI)

    Technical Report: Complex Systems: Science for the 21st Century Citation Details In-Document Search Title: Complex Systems: Science for the 21st Century The workshop was designed ...

  12. Complex Systems: Science for the 21st Century (Technical Report...

    Office of Scientific and Technical Information (OSTI)

    Complex Systems: Science for the 21st Century Citation Details In-Document Search Title: Complex Systems: Science for the 21st Century You are accessing a document from the ...

  13. The OME Framework for genome-scale systems biology

    SciTech Connect (OSTI)

    Palsson, Bernhard O.; Ebrahim, Ali; Federowicz, Steve

    2014-12-19

    The life sciences are undergoing continuous and accelerating integration with computational and engineering sciences. The biology that many in the field have been trained on may be hardly recognizable in ten to twenty years. One of the major drivers for this transformation is the blistering pace of advancements in DNA sequencing and synthesis. These advances have resulted in unprecedented amounts of new data, information, and knowledge. Many software tools have been developed to deal with aspects of this transformation and each is sorely needed [1-3]. However, few of these tools have been forced to deal with the full complexity of genome-scale models along with high throughput genome- scale data. This particular situation represents a unique challenge, as it is simultaneously necessary to deal with the vast breadth of genome-scale models and the dizzying depth of high-throughput datasets. It has been observed time and again that as the pace of data generation continues to accelerate, the pace of analysis significantly lags behind [4]. It is also evident that, given the plethora of databases and software efforts [5-12], it is still a significant challenge to work with genome-scale metabolic models, let alone next-generation whole cell models [13-15]. We work at the forefront of model creation and systems scale data generation [16-18]. The OME Framework was borne out of a practical need to enable genome-scale modeling and data analysis under a unified framework to drive the next generation of genome-scale biological models. Here we present the OME Framework. It exists as a set of Python classes. However, we want to emphasize the importance of the underlying design as an addition to the discussions on specifications of a digital cell. A great deal of work and valuable progress has been made by a number of communities [13, 19-24] towards interchange formats and implementations designed to achieve similar goals. While many software tools exist for handling genome

  14. Systems Biology Knowledgebase (GSC8 Meeting)

    ScienceCinema (OSTI)

    Cottingham, Robert W [ORNL

    2011-04-29

    The Genomic Standards Consortium was formed in September 2005. It is an international, open-membership working body which promotes standardization in the description of genomes and the exchange and integration of genomic data. The 2009 meeting was an activity of a five-year funding "Research Coordination Network" from the National Science Foundation and was organized held at the DOE Joint Genome Institute with organizational support provided by the JGI and by the University of California - San Diego. Robert W. Cottingham of Oak Ridge National Laboratory discusses the DOE KnowledgeBase at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009.

  15. Accelerating Science Driven System Design With RAMP

    SciTech Connect (OSTI)

    Wawrzynek, John

    2015-05-01

    Researchers from UC Berkeley, in collaboration with the Lawrence Berkeley National Lab, are engaged in developing an Infrastructure for Synthesis with Integrated Simulation (ISIS). The ISIS Project was a cooperative effort for “application-driven hardware design” that engages application scientists in the early parts of the hardware design process for future generation supercomputing systems. This project served to foster development of computing systems that are better tuned to the application requirements of demanding scientific applications and result in more cost-effective and efficient HPC system designs. In order to overcome long conventional design-cycle times, we leveraged reconfigurable devices to aid in the design of high-efficiency systems, including conventional multi- and many-core systems. The resulting system emulation/prototyping environment, in conjunction with the appropriate intermediate abstractions, provided both a convenient user programming experience and retained flexibility, and thus efficiency, of a reconfigurable platform. We initially targeted the Berkeley RAMP system (Research Accelerator for Multiple Processors) as that hardware emulation environment to facilitate and ultimately accelerate the iterative process of science-driven system design. Our goal was to develop and demonstrate a design methodology for domain-optimized computer system architectures. The tangible outcome is a methodology and tools for rapid prototyping and design-space exploration, leading to highly optimized and efficient HPC systems.

  16. NREL: Energy Systems Integration - Computational Science and...

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Computational Science and Visualization Computational science and visualization capabilities at NREL propel technology innovation as a research tool by which scientists and ...

  17. A Systems Biology Platform for Characterizing Regulatory and Metabolic

    Office of Scientific and Technical Information (OSTI)

    Pathways that Influence and Control Microbial Hydrogen Production (Technical Report) | SciTech Connect Technical Report: A Systems Biology Platform for Characterizing Regulatory and Metabolic Pathways that Influence and Control Microbial Hydrogen Production Citation Details In-Document Search Title: A Systems Biology Platform for Characterizing Regulatory and Metabolic Pathways that Influence and Control Microbial Hydrogen Production Authors: Collins, James J [1] + Show Author Affiliations

  18. Chemical Biological Emergency Management Information System

    Energy Science and Technology Software Center (OSTI)

    2004-06-15

    CB-EMIS is designed to provide information and analysis to transit system operators and emergency responders in the event of a chemical attack on a subway system. The software inforporates detector data, video images, train data, meteorological data, and above- and below-ground plume dispersion models, hight of the liquid level.

  19. Computational Proteomics: High-throughput Analysis for Systems Biology

    SciTech Connect (OSTI)

    Cannon, William R.; Webb-Robertson, Bobbie-Jo M.

    2007-01-03

    High-throughput (HTP) proteomics is a rapidly developing field that offers the global profiling of proteins from a biological system. The HTP technological advances are fueling a revolution in biology, enabling analyses at the scales of entire systems (e.g., whole cells, tumors, or environmental communities). However, simply identifying the proteins in a cell is insufficient for understanding the underlying complexity and operating mechanisms of the overall system. Systems level investigations are relying more and more on computational analyses, especially in the field of proteomics generating large-scale global data.

  20. Behavior of REE in geological and biological systems

    SciTech Connect (OSTI)

    Laul, J.C.; Weimer, W.C.

    1981-05-01

    The REE abundances when normalized to primordial (chondritic) abundances behave as a smooth function of the REE ionic radii in both the geological and biological systems. The REE are hardly fractionated chemically through various stages of their transformation from soil-soil extract-plant-geological systems.

  1. New Opportunities for Outer Solar System Science using Radioisotope

    Office of Scientific and Technical Information (OSTI)

    Opportunities for Outer Solar System Science using Radioisotope Electric Propulsion Noble, Robert J.; SLAC; Amini, Rashied; Beauchamp, Patricia M.; Caltech, JPL; Bennett, Gary...

  2. Final report for Conference Support Grant "From Computational Biophysics to Systems Biology - CBSB12"

    SciTech Connect (OSTI)

    Hansmann, Ulrich H.E.

    2012-07-02

    This report summarizes the outcome of the international workshop “From Computational Biophysics to Systems Biology (CBSB12)” which was held June 3-5, 2012, at the University of Tennessee Conference Center in Knoxville, TN, and supported by DOE through the Conference Support Grant 120174. The purpose of CBSB12 was to provide a forum for the interaction between a data-mining interested systems biology community and a simulation and first-principle oriented computational biophysics/biochemistry community. CBSB12 was the sixth in a series of workshops of the same name organized in recent years, and the second that has been held in the USA. As in previous years, it gave researchers from physics, biology, and computer science an opportunity to acquaint each other with current trends in computational biophysics and systems biology, to explore venues of cooperation, and to establish together a detailed understanding of cells at a molecular level. The conference grant of $10,000 was used to cover registration fees and provide travel fellowships to selected students and postdoctoral scientists. By educating graduate students and providing a forum for young scientists to perform research into the working of cells at a molecular level, the workshop adds to DOE's mission of paving the way to exploit the abilities of living systems to capture, store and utilize energy.

  3. Terrestrial Ecosystem Science | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    Terrestrial Ecosystem Science Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Climate and Environmental Sciences Division (CESD) ARM Climate Research Facility Atmospheric System Research (ASR) Program Data Management Earth System Modeling (ESM) Program William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Integrated Assessment of Global Climate Change Regional & Global Climate Modeling (RGCM) Program Subsurface

  4. Biological Systems Science Division (BSSD) | U.S. DOE Office...

    Office of Science (SC) Website

    microbes and microbial communities to plants and other ... to DOE missions in energy, climate, and the environment. The major objective of the program is to achieve ...

  5. Climate, Earth system project draws on science powerhouses

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Climate, Earth system project draws on science powerhouses Climate, Earth system project draws on science powerhouses The project will focus initially on three climate-change science drivers and corresponding questions to be answered during the project's initial phase. September 25, 2014 Computer modeling provides policymakers with essential information on such data as global sea surface temperatures related to specific currents. Computer modeling provides policymakers with essential information

  6. Climate, Earth system project draws on science powerhouses

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Climate, Earth system project draws on science powerhouses Alumni Link: Opportunities, News and Resources for Former Employees Latest Issue:September 2015 all issues All Issues » submit Climate, Earth system project draws on science powerhouses The project will focus initially on three climate-change science drivers and corresponding questions to be answered during the project's initial phase. November 1, 2014 Computer modeling provides policymakers with essential information on such data as

  7. Biological optimization systems for enhancing photosynthetic efficiency and methods of use

    DOE Patents [OSTI]

    Hunt, Ryan W; Chinnasamy, Senthil; Das, Keshav C; Rolim de Mattos, Erico

    2014-02-25

    The present disclosure relates to biological optimization systems for enhancing photosynthetic efficiency and methods of use.

  8. Systems Biology in Prokaryote - Eukaryote Symbiosis | Stanford Synchrotron

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Radiation Lightsource Systems Biology in Prokaryote - Eukaryote Symbiosis Monday, June 25, 2012 - 12:00pm SLAC, SSRL Main Conference Room, 137-322 Allen M. Orville, Brookhaven National Laboratory Frontier challenges for macromolecular crystallography (MX) now include determining structures of trapped reactive intermediates, large macromolecules and viruses, membrane proteins, protein-protein complexes, and protein-nucleic acid complexes. Although structure and function are intimately linked,

  9. Opportunities for Materials Science and Biological Research at the OPAL Research Reactor

    SciTech Connect (OSTI)

    Kennedy, S. J.

    2008-03-17

    Neutron scattering techniques have evolved over more than 1/2 century into a powerful set of tools for determination of atomic and molecular structures. Modern facilities offer the possibility to determine complex structures over length scales from {approx}0.1 nm to {approx}500 nm. They can also provide information on atomic and molecular dynamics, on magnetic interactions and on the location and behaviour of hydrogen in a variety of materials. The OPAL Research Reactor is a 20 megawatt pool type reactor using low enriched uranium fuel, and cooled by water. OPAL is a multipurpose neutron factory with modern facilities for neutron beam research, radioisotope production and irradiation services. The neutron beam facility has been designed to compete with the best beam facilities in the world. After six years in construction, the reactor and neutron beam facilities are now being commissioned, and we will commence scientific experiments later this year. The presentation will include an outline of the strengths of neutron scattering and a description of the OPAL research reactor, with particular emphasis on it's scientific infrastructure. It will also provide an overview of the opportunities for research in materials science and biology that will be possible at OPAL, and mechanisms for accessing the facilities. The discussion will emphasize how researchers from around the world can utilize these exciting new facilities.

  10. Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    science Science Stockpile Stewardship National Security National Competitiveness Fusion and Ignition Energy for the Future How to Make a Star Discovery Science Photon Science HAPLS

  11. Climate and Environmental Sciences Division (CESD) | U.S. DOE Office of

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science (SC) Climate and Environmental Sciences Division (CESD) Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Climate and Environmental Sciences Division (CESD) ARM Climate Research Facility Atmospheric System Research (ASR) Program Data Management Earth System Modeling (ESM) Program William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Integrated Assessment of Global Climate Change Regional & Global Climate

  12. Frontiers of Plant Cell Biology: Signals and Pathways, System-Based Approaches 22nd Symposium in Plant Biology (University of California-Riverside)

    SciTech Connect (OSTI)

    Minorsky, Peter V.

    2003-06-01

    The symposium ''Frontiers of Plant Cell Biology: Signals and Pathways, Systems-Based Approaches'' was held January 15-18, 2003 at the Riverside Convention Center in Riverside, California. The host organization for the symposium was the Center for Plant Cell Biology (CEPCEB) at the University of California, Riverside (UCR). The meeting, focusing on systems-based approaches to plant cell biology research, was the first of this kind in the field of plant biology. The speakers and nearly 100 posters placed emphasis on recent developments in plant cellular biology and molecular genetics, particularly those employing emerging genomic tools, thereby sharing the most current knowledge in the field and stimulating future advances. In attendance were many well-established scientists and young investigators who approach plant cell biology from different but complementary conceptual and technical perspectives. Indeed, many disciplines are converging in the field of cell biology, producing synergies that will enable plant scientists to determine the function of gene products in the context of living cells in whole organisms. New, cross-disciplinary collaborations, as well as the involvement of computer scientists and chemists in plant biology research, are likely additional outcomes of the symposium. The program included 39 invited session speakers and workshop/panel speakers. Sessions were convened on the following themes: Cell-Cell Communication; Protein Trafficking; Cell Surface, Extracellular Matrix and Cell Wall; Signal Transduction; Signal Transduction and Proteosome; and Systems-Based Approaches to Plant Cell Biology. Workshops on Chemical Genetics and Visual Microscopy were also presented. Abstracts from each of the speaker presentations, as well as the posters presented at the meeting were published in a program booklet given to the 239 faculty members, researchers, postdoctoral scientists and graduate students in attendance. The booklet thus serves as a reference for

  13. Biology

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Biology @WIPP Life Begins at 250,000,000 Years WIPP's underground isn't just suited for physics experiments aiming to unlock the mysteries of the Universe, it is also a perfect "dig site" for biologists wanting to chronicle the history of life. 250 million years ago, the area around WIPP was all part of the Permian Sea. Today, the salt beds that make up the WIPP underground provide a time capsule, of sorts, to this ancient era. Researchers have uncovered ancient bacteria, cellulose and

  14. Collaborative Research. Fundamental Science of Low Temperature Plasma-Biological Material Interactions

    SciTech Connect (OSTI)

    Graves, David Barry; Oehrlein, Gottlieb

    2014-09-01

    Low temperature plasma (LTP) treatment of biological tissue is a promising path toward sterilization of bacteria due to its versatility and ability to operate under well-controlled and relatively mild conditions. The present collaborative research of an interdisciplinary team of investigators at University of Maryland, College Park (UMD), and University of California, Berkeley (UCB) focused on establishing our knowledge based with regard to low temperature plasma-induced chemical modifications in biomolecules that result in inactivation due to various plasma species, including ions, reactive radicals, and UV/VUV photons. The overall goals of the project were to identify and quantify the mechanisms by which low and atmospheric pressure plasma deactivates endotoxic biomolecules. Additionally, we wanted to understand the mechanism by which atmospheric pressure plasmas (APP) modify surfaces and how these modifications depend on the interaction of APP with the environment. Various low pressure plasma sources, a vacuum beam system and several atmospheric pressure plasma sources were used to accomplish this. In our work we elucidated for the first time the role of ions, VUV photons and radicals in biological deactivation of representative biomolecules, both in a UHV beam system and an inductively coupled, low pressure plasma system, and established the associated atomistic biomolecule changes. While we showed that both ions and VUV photons can be very efficient in deactivation of biomolecules, significant etching and/or deep modification (~200 nm) accompanied these biological effects. One of the most important findings in this work is the significant radical-induced deactivation and surface modification can occur with minimal etching. However, if radical fluxes and corresponding etch rates are relatively high, for example at atmospheric pressure, endotoxic biomolecule film inactivation may require near-complete removal of the film. These findings motivated further work at

  15. Dynamic Processes in Biology, Chemistry, and Materials Science: Opportunities for UltraFast Transmission Electron Microscopy - Workshop Summary Report

    SciTech Connect (OSTI)

    Kabius, Bernd C.; Browning, Nigel D.; Thevuthasan, Suntharampillai; Diehl, Barbara L.; Stach, Eric A.

    2012-07-25

    This report summarizes a 2011 workshop that addressed the potential role of rapid, time-resolved electron microscopy measurements in accelerating the solution of important scientific and technical problems. A series of U.S. Department of Energy (DOE) and National Academy of Science workshops have highlighted the critical role advanced research tools play in addressing scientific challenges relevant to biology, sustainable energy, and technologies that will fuel economic development without degrading our environment. Among the specific capability needs for advancing science and technology are tools that extract more detailed information in realistic environments (in situ or operando) at extreme conditions (pressure and temperature) and as a function of time (dynamic and time-dependent). One of the DOE workshops, Future Science Needs and Opportunities for Electron Scattering: Next Generation Instrumentation and Beyond, specifically addressed the importance of electron-based characterization methods for a wide range of energy-relevant Grand Scientific Challenges. Boosted by the electron optical advancement in the last decade, a diversity of in situ capabilities already is available in many laboratories. The obvious remaining major capability gap in electron microscopy is in the ability to make these direct in situ observations over a broad spectrum of fast (µs) to ultrafast (picosecond [ps] and faster) temporal regimes. In an effort to address current capability gaps, EMSL, the Environmental Molecular Sciences Laboratory, organized an Ultrafast Electron Microscopy Workshop, held June 14-15, 2011, with the primary goal to identify the scientific needs that could be met by creating a facility capable of a strongly improved time resolution with integrated in situ capabilities. The workshop brought together more than 40 leading scientists involved in applying and/or advancing electron microscopy to address important scientific problems of relevance to DOE’s research

  16. Computing and Computational Sciences Directorate - National Center for

    Broader source: All U.S. Department of Energy (DOE) Office Webpages

    Computational Sciences Search Go! ORNL * Find People * Contact * Site Index * Comments Home Divisions and Centers Computational Sciences and Engineering Computer Science and Mathematics Information Technology Joint Institute for Computational Sciences National Center for Computational Sciences Supercomputing Projects Awards Employment Opportunities Student Opportunities About Us Organization In the News Contact Us Visitor Information ORNL Research Areas Neutron Sciences Biological Systems

  17. Data Management | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    Data Management Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Climate and Environmental Sciences Division (CESD) ARM Climate Research Facility Atmospheric System Research (ASR) Program Data Management Earth System Modeling (ESM) Program William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Integrated Assessment of Global Climate Change Regional & Global Climate Modeling (RGCM) Program Subsurface Biogeochemical

  18. 2010 Atmospheric System Research (ASR) Science Team Meeting Summary

    SciTech Connect (OSTI)

    Dupont, DL

    2011-05-04

    This document contains the summaries of papers presented in poster format at the March 2010 Atmospheric System Research Science Team Meeting held in Bethesda, Maryland. More than 260 posters were presented during the Science Team Meeting. Posters were sorted into the following subject areas: aerosol-cloud-radiation interactions, aerosol properties, atmospheric state and surface, cloud properties, field campaigns, infrastructure and outreach, instruments, modeling, and radiation. To put these posters in context, the status of ASR at the time of the meeting is provided here.

  19. PNNL: Staff Search - Fundamental & Computational Sciences Directorate

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Divisions Advanced Computing, Mathematics & Data Atmospheric Sciences & Global Change Biological Sciences Physical Sciences User Facilities Environmental Molecular Sciences ...

  20. Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Wikipedia to forecast diseases November 13, 2014 Los Alamos research published in Public Library of Science LOS ALAMOS, N.M., Nov. 13, 2014-Scientists can now monitor and forecast diseases around the globe more effectively by analyzing views of Wikipedia articles, according to a team from Los Alamos National Laboratory. "A global disease-forecasting system will improve the way we respond to epidemics," scientist Sara Del Valle said. "In the same way we check the weather each

  1. OSTIblog Articles in the biological sciences Topic | OSTI, US Dept of

    Office of Scientific and Technical Information (OSTI)

    Energy Office of Scientific and Technical Information sciences Topic Faster than the speed of light? Or an anomaly? by Kate Bannan 27 Sep, 2011 in Science Communications 4360 einstein.jpg Faster than the speed of light? Or an anomaly? Read more about 4360 According to Einstein's theory of relativity, it is not possible for matter to travel faster than the speed of light in a vacuum. The speed of light (186,282 miles per second) has long been considered a cosmic speed limit, and much of

  2. Biologically-based signal processing system applied to noise removal for signal extraction

    DOE Patents [OSTI]

    Fu, Chi Yung; Petrich, Loren I.

    2004-07-13

    The method and system described herein use a biologically-based signal processing system for noise removal for signal extraction. A wavelet transform may be used in conjunction with a neural network to imitate a biological system. The neural network may be trained using ideal data derived from physical principles or noiseless signals to determine to remove noise from the signal.

  3. Enabling a Systems Biology Knowledgebase with Gaggle and Firegoose

    SciTech Connect (OSTI)

    Baliga, Nitin S.

    2014-12-12

    The overall goal of this project was to extend the existing Gaggle and Firegoose systems to develop an open-source technology that runs over the web and links desktop applications with many databases and software applications. This technology would enable researchers to incorporate workflows for data analysis that can be executed from this interface to other online applications. The four specific aims were to (1) provide one-click mapping of genes, proteins, and complexes across databases and species; (2) enable multiple simultaneous workflows; (3) expand sophisticated data analysis for online resources; and enhance open-source development of the Gaggle-Firegoose infrastructure. Gaggle is an open-source Java software system that integrates existing bioinformatics programs and data sources into a user-friendly, extensible environment to allow interactive exploration, visualization, and analysis of systems biology data. Firegoose is an extension to the Mozilla Firefox web browser that enables data transfer between websites and desktop tools including Gaggle. In the last phase of this funding period, we have made substantial progress on development and application of the Gaggle integration framework. We implemented the workspace to the Network Portal. Users can capture data from Firegoose and save them to the workspace. Users can create workflows to start multiple software components programmatically and pass data between them. Results of analysis can be saved to the cloud so that they can be easily restored on any machine. We also developed the Gaggle Chrome Goose, a plugin for the Google Chrome browser in tandem with an opencpu server in the Amazon EC2 cloud. This allows users to interactively perform data analysis on a single web page using the R packages deployed on the opencpu server. The cloud-based framework facilitates collaboration between researchers from multiple organizations. We have made a number of enhancements to the cmonkey2 application to enable and

  4. Synthetic Biology and the U.S. Biotechnology Regulatory System: Challenges and Options

    SciTech Connect (OSTI)

    Carter, Sarah R.; Rodemeyer, Michael; Garfinkel, Michele S.; Friedman, Robert M

    2014-05-01

    engineering techniques will leave many engineered plants without any pre-market regulatory review. Second, the number and diversity of engineered microbes for commercial use will increase in the near future, challenging EPA’s resources, expertise, and perhaps authority to regulate them. For each of these challenges, the report sets out a series of options, including an analysis of the advantages and disadvantages of each option from a variety of perspectives, for policy makers to consider. Policy responses will depend on the trade-offs chosen among competing considerations. This report, funded by the Department of Energy with additional funds from the Alfred P. Sloan Foundation, is the result of a two-year process that included interviews, commissioned background papers, discussions, and two workshops that sought input from a wide range of experts, including U.S. federal agency regulators, legal and science policy experts, representatives from the biotechnology indus¬try, and non-governmental organiza¬tions. This cross-section of views informed this report, but the conclusions are solely those of the authors. An Executive Summary, full Report, and background papers are available at: http://www.jcvi.org/cms/research/projects/synthetic-biology-and-the-us-biotechnology-regulatory-system/overview/

  5. Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science Science Cutting edge, multidisciplinary national-security science. News Releases Science Briefs Photos Picture of the Week Publications Social Media Videos Fact Sheets The thermal traits of a leaf, critical for photosynthesis, may be under strong evolutionary selection that occurs in response to environmental temperatures. Here a thermal leaf image details temperature variation, which greatly affects plant functions since temperature is closely linked to metabolic kinetics-the plant's

  6. Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science Science & Technology Images of Lab scientists and researchers at work. News Releases Science Briefs Photos Picture of the Week Publications Social Media Videos Fact Sheets PHOTOS BY TOPIC Careers Community Visitors Environment History Science The Lab Click thumbnails to enlarge. Photos arranged by most recent first, horizontal formats before vertical. See Flickr for more sizes and details. Astronomical simulation in the CAVE - 1 Astronomical simulation in the CAVE - 1 Scientist sees

  7. DOE Science Showcase - MicroElectroMechanical Systems | OSTI...

    Office of Scientific and Technical Information (OSTI)

    Related Research Information in DOE Databases DOE Science Resources In the OSTI ... SciTech Connect - reports from DOE science, technology and engineering programs. ...

  8. Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Office of Science Office of Science β β * * * Office of Science α γ Office of * * * * * Office of Science Office of Science * α * * Office of Science α * * μ * * α 287 115 10.59 32 ms 283 113 10.12 100 ms 279 111 10.38 0.17 s 271 107 9.35 1.2 s 267 105 SF 1.8 h 275 109 10.35 12 ms 289 115 10.31 520 ms 285 113 9.74/9.48 4.5 s 281 111 SF 1 s 287 115 10.59 32 ms 283 113 10.12 100 ms 279 111 10.38 0.17 s 07 5 s 275 109 10.35 12 ms 285 1 9.74/ 4.5 281 111 SF 1 s 288 115 10.48 171 ms 284 113

  9. science

    National Nuclear Security Administration (NNSA)

    through the Predictive Capability Framework (PCF). The PCF is a long-term integrated roadmap to guide the science, technology and engineering activities and Directed Stockpile...

  10. DOE Joint Genome Institute | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    DOE Joint Genome Institute Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Genomic Science DOE Bioenergy Research Centers Bioimaging Technology DOE Joint Genome Institute Structural Biology Radiochemistry & Imaging Instrumentation Radiobiology: Low Dose Radiation Research DOE Human Subjects Protection Program Climate and Environmental Sciences Division (CESD) Research Abstracts Searchable Archive of BER Highlights External link

  11. Low Dose Radiation | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    Radiobiology: Low Dose Radiation Research Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Genomic Science DOE Bioenergy Research Centers Bioimaging Technology DOE Joint Genome Institute Structural Biology Radiochemistry & Imaging Instrumentation Radiobiology: Low Dose Radiation Research DOE Human Subjects Protection Program Climate and Environmental Sciences Division (CESD) Research Abstracts Searchable Archive of BER Highlights

  12. Theoretical Biology and Biophysics

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Theoretical Biology and Biophysics Modeling biological systems and analysis and informatics of molecular and cellular biological data Mathematical BiologyImmunology Fundamental ...

  13. DOE Systems Biology Knowledgebase (KBASE) (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Arkin, Adam [LBNL

    2013-01-15

    Adam Arkin from Berkeley Lab on the DOE Systems Biology Knowledgebase (KBASE) at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif

  14. Building the DOE Systems Biology Knowledgebase (KBase) ( 7th Annual SFAF Meeting, 2012)

    ScienceCinema (OSTI)

    Brettin, Tom [Oak Ridge National Laboratory

    2013-03-22

    Tom Brettin on "Building the DOE Systems Biology Knowledgebase (KBase)" at the 2012 Sequencing, Finishing, Analysis in the Future Meeting held June 5-7, 2012 in Santa Fe, New Mexico.

  15. DOE Systems Biology Knowledgebase (KBASE) (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Arkin, Adam [LBNL] [LBNL

    2012-03-21

    Adam Arkin from Berkeley Lab on the DOE Systems Biology Knowledgebase (KBASE) at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif

  16. ARM Climate Research Facility | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    ARM Climate Research Facility Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Climate and Environmental Sciences Division (CESD) ARM Climate Research Facility Atmospheric System Research (ASR) Program Data Management Earth System Modeling (ESM) Program William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Integrated Assessment of Global Climate Change Regional & Global Climate Modeling (RGCM) Program Subsurface

  17. A Scalable and Extensible Earth System Model for Climate Change Science

    Office of Scientific and Technical Information (OSTI)

    (Technical Report) | SciTech Connect A Scalable and Extensible Earth System Model for Climate Change Science Citation Details In-Document Search Title: A Scalable and Extensible Earth System Model for Climate Change Science The objective of this award was to build a scalable and extensible Earth System Model that can be used to study climate change science. That objective has been achieved with the public release of the Community Earth System Model, version 1 (CESM1). In particular, the

  18. A Systems Biology Approach to Infectious Disease Research: Innovating the Pathogen-Host Research Paradigm

    SciTech Connect (OSTI)

    Aderem, Alan; Adkins, Joshua N.; Ansong, Charles; Galagan, James; Kaiser, Shari; Korth, Marcus J.; Law, G. L.; McDermott, Jason E.; Proll, Sean; Rosenberger, Carrie; Schoolnik, Gary; Katze, Michael G.

    2011-02-01

    The 20th century was marked by extraordinary advances in our understanding of microbes and infectious disease, but pandemics remain, food and water borne illnesses are frequent, multi-drug resistant microbes are on the rise, and the needed drugs and vaccines have not been developed. The scientific approaches of the pastincluding the intense focus on individual genes and proteins typical of molecular biologyhave not been sufficient to address these challenges. The first decade of the 21st century has seen remarkable innovations in technology and computational methods. These new tools provide nearly comprehensive views of complex biological systems and can provide a correspondingly deeper understanding of pathogen-host interactions. To take full advantage of these innovations, the National Institute of Allergy and Infectious Diseases recently initiated the Systems Biology Program for Infectious Disease Research. As participants of the Systems Biology Program we think that the time is at hand to redefine the pathogen-host research paradigm.

  19. William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) | U.S.

    Office of Science (SC) Website

    DOE Office of Science (SC) William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Biological and Environmental Research (BER) BER Home About Research Biological Systems Science Division (BSSD) Climate and Environmental Sciences Division (CESD) ARM Climate Research Facility Atmospheric System Research (ASR) Program Data Management Earth System Modeling (ESM) Program William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Integrated Assessment of Global Climate Change

  20. Modular Automated Processing System (MAPS) for analysis of biological samples.

    SciTech Connect (OSTI)

    Gil, Geun-Cheol; Chirica, Gabriela S.; Fruetel, Julia A.; VanderNoot, Victoria A.; Branda, Steven S.; Schoeniger, Joseph S.; Throckmorton, Daniel J.; Brennan, James S.; Renzi, Ronald F.

    2010-10-01

    We have developed a novel modular automated processing system (MAPS) that enables reliable, high-throughput analysis as well as sample-customized processing. This system is comprised of a set of independent modules that carry out individual sample processing functions: cell lysis, protein concentration (based on hydrophobic, ion-exchange and affinity interactions), interferent depletion, buffer exchange, and enzymatic digestion of proteins of interest. Taking advantage of its unique capacity for enclosed processing of intact bioparticulates (viruses, spores) and complex serum samples, we have used MAPS for analysis of BSL1 and BSL2 samples to identify specific protein markers through integration with the portable microChemLab{trademark} and MALDI.

  1. System for monitoring an industrial or biological process

    DOE Patents [OSTI]

    Gross, K.C.; Wegerich, S.W.; Vilim, R.B.; White, A.M.

    1998-06-30

    A method and apparatus are disclosed for monitoring and responding to conditions of an industrial process. Industrial process signals, such as repetitive manufacturing, testing and operational machine signals, are generated by a system. Sensor signals characteristic of the process are generated over a time length and compared to reference signals over the time length. The industrial signals are adjusted over the time length relative to the reference signals, the phase shift of the industrial signals is optimized to the reference signals and the resulting signals output for analysis by systems such as SPRT. 49 figs.

  2. System for monitoring an industrial or biological process

    DOE Patents [OSTI]

    Gross, Kenneth C.; Wegerich, Stephan W.; Vilim, Rick B.; White, Andrew M.

    1998-01-01

    A method and apparatus for monitoring and responding to conditions of an industrial process. Industrial process signals, such as repetitive manufacturing, testing and operational machine signals, are generated by a system. Sensor signals characteristic of the process are generated over a time length and compared to reference signals over the time length. The industrial signals are adjusted over the time length relative to the reference signals, the phase shift of the industrial signals is optimized to the reference signals and the resulting signals output for analysis by systems such as SPRT.

  3. Optimiziing the laboratory monitoring of biological wastewater-purification systems

    SciTech Connect (OSTI)

    S.V. Gerasimov

    2009-05-15

    Optimization of the laboratory monitoring of biochemical wastewater-treatment systems at coke plants is considered, for the example of OAO Koks. By adopting a methodological approach to determine the necessary data from chemical analysis, it is possible to reduce the time, labor, and materials required for monitoring, without impairing the purification process or compromising the plant's environmental policies.

  4. Method And System For Examining Biological Materials Using Low Power Cw Excitation Raman Spectroscopy.

    DOE Patents [OSTI]

    Alfano, Robert R.; Wang, Wubao

    2003-05-06

    A method and system for examining biological materials using low-power cw excitation Raman spectroscopy. A low-power continuous wave (cw) pump laser beam and a low-power cw Stokes (or anti-Stokes) probe laser beam simultaneously illuminate a biological material and traverse the biological material in collinearity. The pump beam, whose frequency is varied, is used to induce Raman emission from the biological material. The intensity of the probe beam, whose frequency is kept constant, is monitored as it leaves the biological material. When the difference between the pump and probe excitation frequencies is equal to a Raman vibrational mode frequency of the biological material, the weak probe signal becomes amplified by one or more orders of magnitude (typically up to about 10.sup.4 -10.sup.6) due to the Raman emission from the pump beam. In this manner, by monitoring the intensity of the probe beam emitted from the biological material as the pump beam is varied in frequency, one can obtain an excitation Raman spectrum for the biological material tested. The present invention may be applied to in the in vivo and/or in vitro diagnosis of diabetes, heart disease, hepatitis, cancers and other diseases by measuring the characteristic excitation Raman lines of blood glucose, cholesterol, serum glutamic oxalacetic transaminase (SGOT)/serum glutamic pyruvic transaminase (SGPT), tissues and other corresponding Raman-active body constituents, respectively.

  5. Complex Systems Science for Subsurface Fate and Transport Report from the August 2009 Workshop

    SciTech Connect (OSTI)

    2010-03-01

    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

  6. Detection Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Chemistry for Measurement and Detection Science Chemistry for Measurement and Detection Science Project Description Chemistry used in measurement and detection science plays a crucial role in the Laboratory's Science of Signatures scientific thrust. Measurement and detection science areas that require chemistry include nuclear and radiological, materials, biological, energy, climate, and space. Los Alamos scientists integrate chemical-science capabilities to ensure that the Laboratory can

  7. Systems-Level Synthetic Biology for Advanced Biofuel Production

    SciTech Connect (OSTI)

    Ruffing, Anne; Jensen, Travis J.; Strickland, Lucas Marshall; Meserole, Stephen; Tallant, David

    2015-03-01

    Cyanobacteria have been shown to be capable of producing a variety of advanced biofuels; however, product yields remain well below those necessary for large scale production. New genetic tools and high throughput metabolic engineering techniques are needed to optimize cyanobacterial metabolisms for enhanced biofuel production. Towards this goal, this project advances the development of a multiple promoter replacement technique for systems-level optimization of gene expression in a model cyanobacterial host: Synechococcus sp. PCC 7002. To realize this multiple-target approach, key capabilities were developed, including a high throughput detection method for advanced biofuels, enhanced transformation efficiency, and genetic tools for Synechococcus sp. PCC 7002. Moreover, several additional obstacles were identified for realization of this multiple promoter replacement technique. The techniques and tools developed in this project will help to enable future efforts in the advancement of cyanobacterial biofuels.

  8. Science_Education_Program-Applicant_and_Participant_System-PIA.pdf

    Energy Savers [EERE]

    Department of Energy Science Lecture: Talking the Higgs Boson with Dr. Joseph Incandela Science Lecture: Talking the Higgs Boson with Dr. Joseph Incandela Addthis Speakers Dr. Joseph Incandela, Steven Chu, Dr. W. F. Brinkman Topic Innovation WILLIAM BRINKMAN: Good morning. I'm Bill Brinkman, I'm the director of the Office of Science, and I'd like to thank all of you for joining us at our third science lecture. These - those of you who are here in the auditorium as well as all of you who are

  9. Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Biological and Environmental Research U.S. Department of energy atmospheric radiation measurement program ARM ARM The Importance of Radiation and Clouds for Climate Change The Earth's surface temperature is determined by the balance between incoming solar radiation and thermal (or infrared) radiation emitted by the Earth back to space. Changes in atmospheric composition, including greenhouse gases, clouds, and aerosols, can alter this balance and produce signifcant climate change. Global climate

  10. ARM - Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Atmospheric System Research (ASR) Earth System Modeling Regional & Global Climate Modeling Terrestrial Ecosystem Science Performance Metrics User Meetings Past ARM Science Team ...

  11. Photosynthetic Systems | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    Print Text Size: A A A FeedbackShare Page This research area supports fundamental research on the biological conversion of solar energy to chemically stored forms of energy. Topics ...

  12. Method And System For Examining Biological Materials Using Low Power Cw Excitation Raman Spectroscopy.

    DOE Patents [OSTI]

    Alfano, Robert R.; Wang, Wubao

    2000-11-21

    A method and system for examining biological materials using low-power cw excitation Raman spectroscopy. In accordance with the teachings of the invention, a low-power continuous wave (cw) pump laser beam and a low-power cw Stokes (or anti-Stokes) probe laser beam simultaneously illuminate a biological material and traverse the biological material in collinearity. The pump beam, whose frequency is varied, is used to induce Raman emission from the biological material. The intensity of the probe beam, whose frequency is kept constant, is monitored as it leaves the biological material. When the difference between the pump and probe excitation frequencies is equal to a Raman vibrational mode frequency of the biological material, the weak probe signal becomes amplified by one or more orders of magnitude (typically up to about 10.sup.4 -10.sup.6) due to the Raman emission from the pump beam. In this manner, by monitoring the intensity of the probe beam emitted from the biological material as the pump beam is varied in frequency, one can obtain an excitation Raman spectrum for the biological material tested. The present invention may be applied to in the in vivo and/or in vitro diagnosis of diabetes, heart disease, hepatitis, cancers and other diseases by measuring the characteristic excitation Raman lines of blood glucose, cholesterol, serum glutamic oxalacetic transaminase (SGOT)/serum glutamic pyruvic tansaminase (SGPT), tissues and other corresponding Raman-active body constituents, respectively. For example, it may also be used to diagnose diseases associated with the concentration of Raman-active constituents in urine, lymph and saliva It may be used to identify cancer in the breast, cervix, uterus, ovaries and the like by measuring the fingerprint excitation Raman spectra of these tissues. It may also be used to reveal the growing of tumors or cancers by measuring the levels of nitric oxide in tissue.

  13. Interaction of biological systems with static and ELF electric and magnetic fields

    SciTech Connect (OSTI)

    Anderson, L.E.; Kelman, B.J.; Weigel, R.J.

    1987-01-01

    Although background levels of atmospheric electric and geomagnetic field levels are extremely low, over the past several decades, human beings and other life forms on this planet have been subjected to a dramatically changing electromagnetic milieu. An exponential increase in exposure to electromagnetic fields has occurred, largely because of such technological advances as the growth of electrical power generation and transmission systems, the increased use of wireless communications, and the use of radar. In addition, electromagnetic field generating devices have proliferated in industrial plants, office buildings, homes, public transportation systems, and elsewhere. Although significant increases have occurred in electromagnetic field strenghths spanning all frequency ranges, this symposium addresses only the impact of these fields at static and extremely low frequencies (ELF), primarily 50 and 60 Hz. This volume contains the proceedings of the symposium entitled /open quotes/Interaction of biological systems with static and ELF electric and magnetic fields/close quotes/. The purpose of the symposium was to provide a forum for discussions of all aspects of research on the interaction of static and ELF electromagnetic fields with biological systems. These systems include simple biophysical models, cell and organ preparations, whole animals, and man. Dosimetry, exposure system design, and artifacts in ELF bioeffects research were also addressed, along with current investigations that examine fundamental mechanisms of interactions between the fields and biological processes. Papers are indexed separately.

  14. A case for Sandia investment in complex adaptive systems science and technology.

    SciTech Connect (OSTI)

    Colbaugh, Richard; Tsao, Jeffrey Yeenien; Johnson, Curtis Martin; Backus, George A.; Brown, Theresa Jean; Jones, Katherine A.

    2012-05-01

    This white paper makes a case for Sandia National Laboratories investments in complex adaptive systems science and technology (S&T) -- investments that could enable higher-value-added and more-robustly-engineered solutions to challenges of importance to Sandia's national security mission and to the nation. Complex adaptive systems are ubiquitous in Sandia's national security mission areas. We often ignore the adaptive complexity of these systems by narrowing our 'aperture of concern' to systems or subsystems with a limited range of function exposed to a limited range of environments over limited periods of time. But by widening our aperture of concern we could increase our impact considerably. To do so, the science and technology of complex adaptive systems must mature considerably. Despite an explosion of interest outside of Sandia, however, that science and technology is still in its youth. What has been missing is contact with real (rather than model) systems and real domain-area detail. With its center-of-gravity as an engineering laboratory, Sandia's has made considerable progress applying existing science and technology to real complex adaptive systems. It has focused much less, however, on advancing the science and technology itself. But its close contact with real systems and real domain-area detail represents a powerful strength with which to help complex adaptive systems science and technology mature. Sandia is thus both a prime beneficiary of, as well as potentially a prime contributor to, complex adaptive systems science and technology. Building a productive program in complex adaptive systems science and technology at Sandia will not be trivial, but a credible path can be envisioned: in the short run, continue to apply existing science and technology to real domain-area complex adaptive systems; in the medium run, jump-start the creation of new science and technology capability through Sandia's Laboratory Directed Research and Development program; and

  15. Biological and Environmental Research: Climate and Environmental Sciences Division: U.S./European Workshop on Climate Change Challenges and Observations

    SciTech Connect (OSTI)

    Mather, James; McCord, Raymond; Sisterson, Doug; Voyles, Jimmy

    2012-11-08

    The workshop aimed to identify outstanding climate change science questions and the observational strategies for addressing them. The scientific focus was clouds, aerosols, and precipitation, and the required ground- and aerial-based observations. The workshop findings will be useful input for setting priorities within the Department of Energy (DOE) and the participating European centers. This joint workshop was envisioned as the first step in enhancing the collaboration among these climate research activities needed to better serve the science community.

  16. Bayer Material Science (TRL 1 2 3 System)- River Devices to Recover Energy with Advanced Materials(River DREAM)

    Broader source: Energy.gov [DOE]

    Bayer Material Science (TRL 1 2 3 System) - River Devices to Recover Energy with Advanced Materials(River DREAM)

  17. Development and Applications Of Photosensitive Device Systems To Studies Of Biological And Organic Materials

    SciTech Connect (OSTI)

    Gruner, Sol

    2012-01-20

    The primary focus of the grant is the development of new x-ray detectors for biological and materials work at synchrotron sources, especially Pixel Array Detectors (PADs), and the training of students via research applications to problems in biophysics and materials science using novel x-ray methods. This Final Progress Report provides a high-level overview of the most important accomplishments. These major areas of accomplishment include: (1) Development and application of x-ray Pixel Array Detectors; (2) Development and application of methods of high pressure x-ray crystallography as applied to proteins; (3) Studies on the synthesis and structure of novel mesophase materials derived from block co-polymers.

  18. Biological and Chemical Security

    SciTech Connect (OSTI)

    Fitch, P J

    2002-12-19

    The LLNL Chemical & Biological National Security Program (CBNP) provides science, technology and integrated systems for chemical and biological security. Our approach is to develop and field advanced strategies that dramatically improve the nation's capabilities to prevent, prepare for, detect, and respond to terrorist use of chemical or biological weapons. Recent events show the importance of civilian defense against terrorism. The 1995 nerve gas attack in Tokyo's subway served to catalyze and focus the early LLNL program on civilian counter terrorism. In the same year, LLNL began CBNP using Laboratory-Directed R&D investments and a focus on biodetection. The Nunn-Lugar-Domenici Defense Against Weapons of Mass Destruction Act, passed in 1996, initiated a number of U.S. nonproliferation and counter-terrorism programs including the DOE (now NNSA) Chemical and Biological Nonproliferation Program (also known as CBNP). In 2002, the Department of Homeland Security was formed. The NNSA CBNP and many of the LLNL CBNP activities are being transferred as the new Department becomes operational. LLNL has a long history in national security including nonproliferation of weapons of mass destruction. In biology, LLNL had a key role in starting and implementing the Human Genome Project and, more recently, the Microbial Genome Program. LLNL has over 1,000 scientists and engineers with relevant expertise in biology, chemistry, decontamination, instrumentation, microtechnologies, atmospheric modeling, and field experimentation. Over 150 LLNL scientists and engineers work full time on chemical and biological national security projects.

  19. Biological and Environmental Research Advisory CommitteeOctober...

    Office of Science (SC) Website

    Todd Anderson .pdf file (5.1MB) - Biological Systems Science Division Update Kent Peters .pdf file (144KB) - Bioenergy workshop report Sally McFarlane .pdf file (4.0MB) - Southern ...

  20. Biological optimization systems for enhancing photosynthetic efficiency and methods of use

    DOE Patents [OSTI]

    Hunt, Ryan W.; Chinnasamy, Senthil; Das, Keshav C.; de Mattos, Erico Rolim

    2012-11-06

    Biological optimization systems for enhancing photosynthetic efficiency and methods of use. Specifically, methods for enhancing photosynthetic efficiency including applying pulsed light to a photosynthetic organism, using a chlorophyll fluorescence feedback control system to determine one or more photosynthetic efficiency parameters, and adjusting one or more of the photosynthetic efficiency parameters to drive the photosynthesis by the delivery of an amount of light to optimize light absorption of the photosynthetic organism while providing enough dark time between light pulses to prevent oversaturation of the chlorophyll reaction centers are disclosed.

  1. Experimental nonlinear laser systems: Bigger data for better science?

    SciTech Connect (OSTI)

    Kane, D. M.; Toomey, J. P.; McMahon, C.; Noblet, Y.; Argyris, A.; Syvridis, D.

    2014-10-06

    Bigger data is supporting knowledge discovery in nonlinear laser systems as will be demonstrated with examples from three semiconductor laser based systems – one with optical feedback, a photonic integrated circuit (PIC) chaotic laser and a frequency shifted feedback laser system.

  2. Meteorological Integration for the Biological Warning and Incident Characterization (BWIC) System: General Guidance for BWIC Cities

    SciTech Connect (OSTI)

    Shaw, William J.; Wang, Weiguo; Rutz, Frederick C.; Chapman, Elaine G.; Rishel, Jeremy P.; Xie, YuLong; Seiple, Timothy E.; Allwine, K Jerry

    2007-02-16

    The U.S. Department of Homeland Security (DHS) is responsible for developing systems to detect the release of aerosolized bioagents in urban environments. The system that accomplishes this, known as BioWatch, is a robust first-generation monitoring system. In conjunction with the BioWatch detection network, DHS has also developed a software tool for cities to use to assist in their response when a bioagent is detected. This tool, the Biological Warning and Incident Characterization (BWIC) System, will eventually be deployed to all BioWatch cities to aid in the interpretation of the public health significance of indicators from the BioWatch networks. BWIC consists of a set of integrated modules, including meteorological models, that estimate the effect of a biological agent on a city’s population once it has been detected. For the meteorological models in BWIC to successfully calculate the distribution of biological material, they must have as input accurate meteorological data, and wind fields in particular. The purpose of this document is to provide guidance for cities to use in identifying sources of good-quality local meteorological data that BWIC needs to function properly. This process of finding sources of local meteorological data, evaluating the data quality and gaps in coverage, and getting the data into BWIC, referred to as meteorological integration, is described. The good news for many cities is that meteorological measurement networks are becoming increasingly common. Most of these networks allow their data to be distributed in real time via the internet. Thus, cities will often only need to evaluate the quality of available measurements and perhaps add a modest number of stations where coverage is poor.

  3. New Opportunities for Outer Solar System Science using Radioisotope...

    Office of Scientific and Technical Information (OSTI)

    Sponsoring Org: USDOE Country of Publication: United States Language: English Subject: 33 ... PROPULSION; RADIOISOTOPES; RANGE; SOLAR SYSTEM; SPACE; VEHICLES Astrophysics, Word Cloud ...

  4. Licensable Life Science Technologies | Argonne National Laboratory

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Licensable Life Science Technologies A selection of biology-based technologies available for licensing PDF icon licensable_biological_technologies

  5. Contact | U.S. DOE Office of Science (SC)

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Contact Bioimaging Technology Bioimaging Technology Home Research Funding Opportunities Community Resources Contact BER Home Contact Print Text Size: A A A FeedbackShare Page Program Manager Prem C. Srivastava, Ph.D. (301) 903-4071 prem.srivastava@science.doe.gov Mailing Address Office of Science Office of Biological and Environmental Research Biological Systems Science Division U.S. Department of Energy 1000 Independence Ave., SW Washington, DC 20585-1290 Citation Format for This Site A

  6. Integrated Omics in Systems Biology: The New Frontier for Environmental Biotechnology

    SciTech Connect (OSTI)

    Hazen, Terry C.

    2008-08-12

    Environmental biotechnology encompasses a wide range of characterization, monitoring and control for bioenergy and bioremediation technologies that are based on biological processes. Recent breakthroughs in our understanding of biogeochemical processes and genomics are leading to exciting new and cost effective ways to monitor and manipulate the environment and potentially produce bioenergy fuels as we also cleanup the environment. Indeed, our ability to sequence an entire microbial genome in just a few hours is leading to similar breakthroughs in characterizing proteomes, metabolomes, phenotypes, and fluxes for organisms, populations, and communities. Understanding and modeling functional microbial community structure and stress responses in subsurface environments has tremendous implications for our fundamental understanding of biogeochemistry and the potential for making biofuel breakthroughs. Monitoring techniques that inventory and monitor terminal electron acceptors and electron donors, enzyme probes that measure functional activity in the environment, functional genomic microarrays, phylogenetic microarrays, metabolomics, proteomics, and quantitative PCR are also being rapidly adapted for studies in environmental biotechnology. Integration of all of these new high throughput techniques using the latest advances in bioinformatics and modeling will enable break-through science in environmental biotechnology. A review of these techniques with examples from field studies and lab simulations will be discussed.

  7. An EBIS system for rare isotope science project in Korea

    SciTech Connect (OSTI)

    Kim, Jongwon E-mail: jehan@ibs.re.kr E-mail: khyi@ibs.re.kr; Han, Jae-Eun E-mail: jehan@ibs.re.kr E-mail: khyi@ibs.re.kr; Son, Hyock-Jun E-mail: jehan@ibs.re.kr E-mail: khyi@ibs.re.kr; Yi, Kun-Hui E-mail: jehan@ibs.re.kr E-mail: khyi@ibs.re.kr; Zhao, Liangji E-mail: kim@far-tech.com; Kim, Jin-Soo E-mail: kim@far-tech.com

    2015-01-09

    An EBIS system has been designed to be used as a charge breeder for the post accelerator of an ISOL system. An electron gun, which is designed to produce a maximum current of 3 A at the beam energy of 20 kV, will be acquired from the Budker Institute, Novosibirsk. Electron beam optics calculations of the EBIS system as well as of the gun assembly have been performed using PBGUNS and TRAK. A superconducting solenoid with a maximum field of 6 T is to be used to compress the electron beam. A test stand, which includes the gun assembly and a high-power electron beam collector, is being designed and will be ready for the gun test in the end of this year. Charge breeding simulation using EBIS0D and CBSIM has been performed for a few key isotopes.

  8. Towards Composing Data Aware Systems Biology Workflows on Cloud Platforms: A MeDICi-based Approach

    SciTech Connect (OSTI)

    Gorton, Ian; Liu, Yan; Yin, Jian; Kulkarni, Anand V.; Wynne, Adam S.

    2011-09-08

    Cloud computing is being increasingly adopted for deploying systems biology scientific workflows. Scientists developing these workflows use a wide variety of fragmented and competing data sets and computational tools of all scales to support their research. To this end, the synergy of client side workflow tools with cloud platforms is a promising approach to share and reuse data and workflows. In such systems, the location of data and computation is essential consideration in terms of quality of service for composing a scientific workflow across remote cloud platforms. In this paper, we describe a cloud-based workflow for genome annotation processing that is underpinned by MeDICi - a middleware designed for data intensive scientific applications. The workflow implementation incorporates an execution layer for exploiting data locality that routes the workflow requests to the processing steps that are colocated with the data. We demonstrate our approach by composing two workflowswith the MeDICi pipelines.

  9. Final Report - Phylogenomic tools and web resources for the Systems Biology Knowledgebase

    SciTech Connect (OSTI)

    Sjolander, Kimmen

    2014-11-07

    The major advance during this last reporting period (8/15/12 to present) is our release of data on the PhyloFacts website: phylogenetic trees, multiple sequence alignments and other data for protein families are now available for download from http://phylogenomics.berkeley.edu/data/. This project as a whole aimed to develop high-throughput functional annotation systems that exploit information from protein 3D structure and evolution to provide highly precise inferences of various aspects of gene function, including molecular function, biological process, pathway association, Pfam domains, cellular localization and so on. We accomplished these aims by developing and testing different systems on a database of protein family trees: the PhyloFacts Phylogenomic Encyclopedia (at http://phylogenomics.berkeley.edu/phylofacts/ ).

  10. How sulphate-reducing microorganisms cope with stress: Lessons from systems biology

    SciTech Connect (OSTI)

    Zhou, J.; He, Q.; Hemme, C.L.; Mukhopadhyay, A.; Hillesland, K.; Zhou, A.; He, Z.; Nostrand, J.D. Van; Hazen, T.C.; Stahl, D.A.; Wall, J.D.; Arkin, A.P.

    2011-04-01

    Sulphate-reducing microorganisms (SRMs) are a phylogenetically diverse group of anaerobes encompassing distinct physiologies with a broad ecological distribution. As SRMs have important roles in the biogeochemical cycling of carbon, nitrogen, sulphur and various metals, an understanding of how these organisms respond to environmental stresses is of fundamental and practical importance. In this Review, we highlight recent applications of systems biology tools in studying the stress responses of SRMs, particularly Desulfovibrio spp., at the cell, population, community and ecosystem levels. The syntrophic lifestyle of SRMs is also discussed, with a focus on system-level analyses of adaptive mechanisms. Such information is important for understanding the microbiology of the global sulphur cycle and for developing biotechnological applications of SRMs for environmental remediation, energy production, biocorrosion control, wastewater treatment and mineral recovery.

  11. DOE Science Showcase - Earth System Models | OSTI, US Dept of Energy Office

    Office of Scientific and Technical Information (OSTI)

    of Scientific and Technical Information Earth System Models U.S. DOE Office of Science: Getting Forest Carbon Right in Climate Models. "Boreal Forest" Image Credit: Wikimedia Commons, peupleloup. Optimizing emerging high-performance computing and information technologies, the Department of Energy's (DOE) Earth System Modeling (ESM) Program concentrates on advancing coupled climate and earth system models for climate change projections at global-to-regional spatial scales and

  12. Science and Engineering of an Operational Tsunami Forecasting System

    ScienceCinema (OSTI)

    Gonzalez, Frank

    2010-01-08

    After a review of tsunami statistics and the destruction caused by tsunamis, a means of forecasting tsunamis is discussed as part of an overall program of reducing fatalities through hazard assessment, education, training, mitigation, and a tsunami warning system. The forecast is accomplished via a concept called Deep Ocean Assessment and Reporting of Tsunamis (DART). Small changes of pressure at the sea floor are measured and relayed to warning centers. Under development is an international modeling network to transfer, maintain, and improve tsunami forecast models.

  13. Ultrashort pulse high repetition rate laser system for biological tissue processing

    DOE Patents [OSTI]

    Neev, J.; Da Silva, L.B.; Matthews, D.L.; Glinsky, M.E.; Stuart, B.C.; Perry, M.D.; Feit, M.D.; Rubenchik, A.M.

    1998-02-24

    A method and apparatus are disclosed for fast, efficient, precise and damage-free biological tissue removal using an ultrashort pulse duration laser system operating at high pulse repetition rates. The duration of each laser pulse is on the order of about 1 fs to less than 50 ps such that energy deposition is localized in a small depth and occurs before significant hydrodynamic motion and thermal conduction, leading to collateral damage, can take place. The depth of material removed per pulse is on the order of about 1 micrometer, and the minimal thermal and mechanical effects associated with this ablation method allows for high repetition rate operation, in the region 10 to over 1000 Hertz, which, in turn, achieves high material removal rates. The input laser energy per ablated volume of tissue is small, and the energy density required to ablate material decreases with decreasing pulse width. The ablation threshold and ablation rate are only weakly dependent on tissue type and condition, allowing for maximum flexibility of use in various biological tissue removal applications. The use of a chirped-pulse amplified Titanium-doped sapphire laser is disclosed as the source in one embodiment. 8 figs.

  14. Ultrashort pulse high repetition rate laser system for biological tissue processing

    DOE Patents [OSTI]

    Neev, Joseph; Da Silva, Luiz B.; Matthews, Dennis L.; Glinsky, Michael E.; Stuart, Brent C.; Perry, Michael D.; Feit, Michael D.; Rubenchik, Alexander M.

    1998-01-01

    A method and apparatus is disclosed for fast, efficient, precise and damage-free biological tissue removal using an ultrashort pulse duration laser system operating at high pulse repetition rates. The duration of each laser pulse is on the order of about 1 fs to less than 50 ps such that energy deposition is localized in a small depth and occurs before significant hydrodynamic motion and thermal conduction, leading to collateral damage, can take place. The depth of material removed per pulse is on the order of about 1 micrometer, and the minimal thermal and mechanical effects associated with this ablation method allows for high repetition rate operation, in the region 10 to over 1000 Hertz, which, in turn, achieves high material removal rates. The input laser energy per ablated volume of tissue is small, and the energy density required to ablate material decreases with decreasing pulse width. The ablation threshold and ablation rate are only weakly dependent on tissue type and condition, allowing for maximum flexibility of use in various biological tissue removal applications. The use of a chirped-pulse amplified Titanium-doped sapphire laser is disclosed as the source in one embodiment.

  15. Designing Biological Systems for Sustainability and Programmed Environmental Interface (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Silver, Pam [Harvard University

    2011-06-03

    The U.S. Department of Energy Joint Genome Institute (JGI) invited scientists interested in the application of genomics to bioenergy and environmental issues, as well as all current and prospective users and collaborators, to attend the annual DOE JGI Genomics of Energy & Environment Meeting held March 22-24, 2011 in Walnut Creek, Calif. The emphasis of this meeting was on the genomics of renewable energy strategies, carbon cycling, environmental gene discovery, and engineering of fuel-producing organisms. The meeting features presentations by leading scientists advancing these topics. Pam Silver of Harvard University gives a presentation on "Designing Biological Systems for Sustainability and Programmed Environmental Interface" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  16. Designing Biological Systems for Sustainability and Programmed Environmental Interface (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Silver, Pam [Harvard University] [Harvard University

    2011-03-23

    The U.S. Department of Energy Joint Genome Institute (JGI) invited scientists interested in the application of genomics to bioenergy and environmental issues, as well as all current and prospective users and collaborators, to attend the annual DOE JGI Genomics of Energy & Environment Meeting held March 22-24, 2011 in Walnut Creek, Calif. The emphasis of this meeting was on the genomics of renewable energy strategies, carbon cycling, environmental gene discovery, and engineering of fuel-producing organisms. The meeting features presentations by leading scientists advancing these topics. Pam Silver of Harvard University gives a presentation on "Designing Biological Systems for Sustainability and Programmed Environmental Interface" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  17. Systems biology analysis of Zymomonas mobilis ZM4 ethanol stress responses

    SciTech Connect (OSTI)

    Yang, Shihui; Pan, Chongle; Tschaplinski, Timothy J; Hurst, Gregory {Greg} B; Engle, Nancy L; Zhou, Wen; Dam, Phuongan; Xu, Ying; Dice, Lezlee T; Davison, Brian H; Brown, Steven D

    2013-01-01

    Zymomonas mobilis ZM4 is a capable ethanogenic bacterium with high ethanol productivity and high level of ethanol tolerance. Previous studies indicated that several stress-related proteins and changes in the ZM4 membrane lipid composition may contribute to ethanol tolerance. However, the molecular mechanisms of ethanol stress response have not been elucidated fully. In this study, ethanol stress responses were investigated using systems biology tools. Medium supplementation with an initial 47.3 g/L (6% v/v) ethanol reduced Z. mobilis ZM4 glucose consumption, growth rate and ethanol productivity compared to that of untreated controls. Metabolomic profiling showed that ethanol-treated ZM4 cells accumulated greater amounts of glycerol during the entire fermentation process, which may indicate an important role for this metabolite. A proteomic analysis of early exponential growth identified about one thousand proteins, or approximately 56% of the predicted ZM4 proteome. Proteins related to metabolism and stress response such as chaperones and key regulators were more abundant in the early ethanol stress condition. Transcriptomic studies indicated the response of ZM4 to ethanol is dynamic, complex and involves many genes from all the different functional categories. There were fewer genes significantly differentially expressed in the exponential phase compared to that of stationary phase and early stationary phase. Most down-regulated genes were related to translation and ribosome biogenesis, while the ethanol-upregulated genes were mostly related to cellular processes and metabolism. Correlations among the transcriptomics, proteomics and metabolism were examined and among significantly expressed genes or proteins, we observe higher correlation coefficients when fold-change values are higher. This systems biology study elucidates key Z. mobilis ZM4 metabolites, genes and proteins that form the foundation of its distinctive physiology and its multifaceted response to

  18. Biological and Environmental Research Network Requirements

    SciTech Connect (OSTI)

    Balaji, V.; Boden, Tom; Cowley, Dave; Dart, Eli; Dattoria, Vince; Desai, Narayan; Egan, Rob; Foster, Ian; Goldstone, Robin; Gregurick, Susan; Houghton, John; Izaurralde, Cesar; Johnston, Bill; Joseph, Renu; Kleese-van Dam, Kerstin; Lipton, Mary; Monga, Inder; Pritchard, Matt; Rotman, Lauren; Strand, Gary; Stuart, Cory; Tatusova, Tatiana; Tierney, Brian; Thomas, Brian; Williams, Dean N.; Zurawski, Jason

    2013-09-01

    The Energy Sciences Network (ESnet) is the primary provider of network connectivity for the U.S. Department of Energy (DOE) Office of Science (SC), the single largest supporter of basic research in the physical sciences in the United States. In support of SC programs, ESnet regularly updates and refreshes its understanding of the networking requirements of the instruments, facilities, scientists, and science programs that it serves. This focus has helped ESnet be a highly successful enabler of scientific discovery for over 25 years. In November 2012, ESnet and the Office of Biological and Environmental Research (BER) of the DOE SC organized a review to characterize the networking requirements of the programs funded by the BER program office. Several key findings resulted from the review. Among them: 1) The scale of data sets available to science collaborations continues to increase exponentially. This has broad impact, both on the network and on the computational and storage systems connected to the network. 2) Many science collaborations require assistance to cope with the systems and network engineering challenges inherent in managing the rapid growth in data scale. 3) Several science domains operate distributed facilities that rely on high-performance networking for success. Key examples illustrated in this report include the Earth System Grid Federation (ESGF) and the Systems Biology Knowledgebase (KBase). This report expands on these points, and addresses others as well. The report contains a findings section as well as the text of the case studies discussed at the review.

  19. Reliability of unstable periodic orbit based control strategies in biological systems

    SciTech Connect (OSTI)

    Mishra, Nagender; Singh, Harinder P.; Hasse, Maria; Biswal, B.

    2015-04-15

    Presence of recurrent and statistically significant unstable periodic orbits (UPOs) in time series obtained from biological systems is now routinely used as evidence for low dimensional chaos. Extracting accurate dynamical information from the detected UPO trajectories is vital for successful control strategies that either aim to stabilize the system near the fixed point or steer the system away from the periodic orbits. A hybrid UPO detection method from return maps that combines topological recurrence criterion, matrix fit algorithm, and stringent criterion for fixed point location gives accurate and statistically significant UPOs even in the presence of significant noise. Geometry of the return map, frequency of UPOs visiting the same trajectory, length of the data set, strength of the noise, and degree of nonstationarity affect the efficacy of the proposed method. Results suggest that establishing determinism from unambiguous UPO detection is often possible in short data sets with significant noise, but derived dynamical properties are rarely accurate and adequate for controlling the dynamics around these UPOs. A repeat chaos control experiment on epileptic hippocampal slices through more stringent control strategy and adaptive UPO tracking is reinterpreted in this context through simulation of similar control experiments on an analogous but stochastic computer model of epileptic brain slices. Reproduction of equivalent results suggests that far more stringent criteria are needed for linking apparent success of control in such experiments with possible determinism in the underlying dynamics.

  20. Science Events

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science Science Events Learn about our science by coming to Frontiers in Science lectures, catch Cafe Scientific events in your community, or come to sicence events at the Bradbury Science Museum. Sep 27 Tue 7:00 AM Systems Approaches in Immunology Inn and Spa at Loretto - Santa Fe, NM Advancements in immunology can be made through the development of theoretical and experimental techniques supplying models that bring together phenomena at different levels of complexity to study mechanisms that

  1. The Encyclopedia of Systems Biology and OMICS (first presentation) and The ISA Infrastructure for Multi-omics Data (second presentation) (GSC8 Meeting)

    SciTech Connect (OSTI)

    Kolker, Eugene; Sansone, Susanna

    2011-09-11

    The Genomic Standards Consortium was formed in September 2005. It is an international, open-membership working body which promotes standardization in the description of genomes and the exchange and integration of genomic data. The 2009 meeting was an activity of a five-year funding "Research Coordination Network" from the National Science Foundation and was organized held at the DOE Joint Genome Institute with organizational support provided by the JGI and by the University of California - San Diego. Eugene Kolker from Seattle Children's Hospital briefly discusses "The Encyclopedia of Systems Biology and OMICS," followed by Susanna Sansone from the EBI on "The ISA Infrastructure for multi-omics data" at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 11, 2009.

  2. The Encyclopedia of Systems Biology and OMICS (first presentation) and The ISA Infrastructure for Multi-omics Data (second presentation) (GSC8 Meeting)

    ScienceCinema (OSTI)

    Kolker, Eugene [Seattle Children's Hospital]; Sansone, Susanna [EBI

    2011-04-28

    The Genomic Standards Consortium was formed in September 2005. It is an international, open-membership working body which promotes standardization in the description of genomes and the exchange and integration of genomic data. The 2009 meeting was an activity of a five-year funding "Research Coordination Network" from the National Science Foundation and was organized held at the DOE Joint Genome Institute with organizational support provided by the JGI and by the University of California - San Diego. Eugene Kolker from Seattle Children's Hospital briefly discusses "The Encyclopedia of Systems Biology and OMICS," followed by Susanna Sansone from the EBI on "The ISA Infrastructure for multi-omics data" at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 11, 2009.

  3. Devices, systems, and methods for microscale isoelectric fractionation...

    Office of Scientific and Technical Information (OSTI)

    Title: Devices, systems, and methods for microscale ... Resource Relation: Patent File Date: 2008 Oct 01 Research ... Language: English Subject: 59 BASIC BIOLOGICAL SCIENCES

  4. A New Biology for the 21st Century; Ensuring the United States Leads the Coming Biology Revolution

    SciTech Connect (OSTI)

    Committee on a New Biology for the 21st Century; Ensuring the United States Leads the Coming Biology Revolution; National Research Council

    2012-05-10

    In July, 2008, the National Institutes of Health (NIH), National Science Foundation (NSF), and Department of Energy (DOE) asked the National Research Council’s Board on Life Sciences to convene a committee to examine the current state of biological research in the United States and recommend how best to capitalize on recent technological and scientific advances that have allowed biologists to integrate biological research findings, collect and interpret vastly increased amounts of data, and predict the behavior of complex biological systems. From September 2008 through July of 2009, a committee of 16 experts from the fields of biology, engineering and computational science undertook to delineate those scientific and technological advances and come to a consensus on how the U.S. might best capitalize on them. This report, authored by the Committee on a New Biology for the 21st Century, describes the committee’s work and conclusions.

  5. A comprehensive collection of systems biology data characterizing the host response to viral infection

    SciTech Connect (OSTI)

    Aevermann, Brian D.; Pickett, Brett E.; Kumar, Sanjeev; Klem, Edward B.; Agnihothram, Sudhakar; Askovich, Peter S.; Bankhead, Armand; Bolles, Meagan; Carter, Victoria; Chang, Jean H.; Clauss, Therese R. W.; Dash, Pradyot; Diercks, Alan H.; Eisfeld, Amie J.; Ellis, Amy L.; Fan, Shufang; Ferris, Martin T.; Gralinski, Lisa; Green, Richard; Gritsenko, Marina A.; Hatta, Masato; Heegel, Robert A.; Jacobs, Jon M.; Jeng, Sophia; Josset, Laurence; Kaiser, Shari M.; Kelly, Sarah; Law, Gale Lynn; Li, Chengjun; Li, Jiangning; Long, Casey; Luna, Maria L.; Matzke, Melissa M.; McDermott, Jason E.; Menachery, Vineet; Metz, Thomas O.; Mitchell, Hugh D.; Monroe, Matthew E.; Navarro, Garnet; Neumann, Gabriele; Podyminogin, Rebecca L.; Purvine, Samuel O.; Rosenberger, Carrie; Sanders, Catherine J.; Schepmoes, Athena A.; Shukla, Anil K.; Sims, Amy; Sova, Pavel; Tam, Vincent C.; Tchitchek, Nicholas; Thomas, Paul G.; Tilton, Susan C.; Totura, Allison L.; Wang, Jing; Webb-Robertson, Bobbie-Jo M.; Wen, Ji; Weiss, Jeffrey M.; Yang, Feng; Yount, Boyd; Zhang, Qibin; Mcweeney, Shannon K.; Smith, Richard D.; Waters, Katrina M.; Kawaoka, Yoshihiro; Baric, Ralph; Aderem, Alan; Katze, Michael G.; Scheuermann, Richard H.

    2014-10-14

    The Systems Biology for Infectious Diseases Research program was established by the U.S. National Institute of Allergy and Infectious Diseases to investigate host-pathogen interactions at a systems level. This program generated 47 transcriptomic and proteomic datasets from 30 studies that investigate in vivo and in vitro host responses to viral infections. Human pathogens in the Orthomyxoviridae and Coronaviridae families, especially pandemic H1N1 and avian H5N1 influenza A viruses and severe acute respiratory syndrome coronavirus (SARS-CoV), were investigated. Study validation was demonstrated via experimental quality control measures and meta-analysis of independent experiments performed under similar conditions. Primary assay results are archived at the GEO and PeptideAtlas public repositories, while processed statistical results together with standardized metadata are publically available at the Influenza Research Database (www.fludb.org) and the Virus Pathogen Resource (www.viprbrc.org). As a result, by comparing data from mutant versus wild-type virus and host strains, RNA versus protein differential expression, and infection with genetically similar strains, these data can be used to further investigate genetic and physiological determinants of host responses to viral infection.

  6. A comprehensive collection of systems biology data characterizing the host response to viral infection

    DOE Public Access Gateway for Energy & Science Beta (PAGES Beta)

    Aevermann, Brian D.; Pickett, Brett E.; Kumar, Sanjeev; Klem, Edward B.; Agnihothram, Sudhakar; Askovich, Peter S.; Bankhead, Armand; Bolles, Meagan; Carter, Victoria; Chang, Jean H.; et al

    2014-10-14

    The Systems Biology for Infectious Diseases Research program was established by the U.S. National Institute of Allergy and Infectious Diseases to investigate host-pathogen interactions at a systems level. This program generated 47 transcriptomic and proteomic datasets from 30 studies that investigate in vivo and in vitro host responses to viral infections. Human pathogens in the Orthomyxoviridae and Coronaviridae families, especially pandemic H1N1 and avian H5N1 influenza A viruses and severe acute respiratory syndrome coronavirus (SARS-CoV), were investigated. Study validation was demonstrated via experimental quality control measures and meta-analysis of independent experiments performed under similar conditions. Primary assay results are archivedmore » at the GEO and PeptideAtlas public repositories, while processed statistical results together with standardized metadata are publically available at the Influenza Research Database (www.fludb.org) and the Virus Pathogen Resource (www.viprbrc.org). As a result, by comparing data from mutant versus wild-type virus and host strains, RNA versus protein differential expression, and infection with genetically similar strains, these data can be used to further investigate genetic and physiological determinants of host responses to viral infection.« less

  7. New Opportunities for Outer Solar System Science using Radioisotope Electric Propulsion

    SciTech Connect (OSTI)

    Noble, Robert J.; Amini, Rashied; Beauchamp, Patricia M.; Bennett, Gary L.; Brophy, John R.; Buratti, Bonnie J.; Ervin, Joan; Fernandez, Yan R.; Grundy, Will; Khan, Mohammed Omair; King, David Q.; Lang, Jared; Meech, Karen J.; Newhouse, Alan; Oleson, Steven R.; Schmidt, George R.; Spilker, Thomas; West, John L.; /Caltech, JPL

    2010-05-26

    Today, our questions and hypotheses about the Solar System's origin have surpassed our ability to deliver scientific instruments to deep space. The moons of the outer planets, the Trojan and Centaur minor planets, the trans-Neptunian objects (TNO), and distant Kuiper Belt objects (KBO) hold a wealth of information about the primordial conditions that led to the formation of our Solar System. Robotic missions to these objects are needed to make the discoveries, but the lack of deep-space propulsion is impeding this science. Radioisotope electric propulsion (REP) will revolutionize the way we do deep-space planetary science with robotic vehicles, giving them unprecedented mobility. Radioisotope electric generators and lightweight ion thrusters are being developed today which will make possible REP systems with specific power in the range of 5 to 10 W/kg. Studies have shown that this specific power range is sufficient to perform fast rendezvous missions from Earth to the outer Solar System and fast sample return missions. This whitepaper discusses how mobility provided by REP opens up entirely new science opportunities for robotic missions to distant primitive bodies. We also give an overview of REP technology developments and the required next steps to realize REP.

  8. Final Report of “Collaborative research: Fundamental science of low temperature plasma-biological material interactions” (Award# DE-SC0005105)

    SciTech Connect (OSTI)

    Oehrlein, Gottlieb S.; Seog, Joonil; Graves, David; Chu, J. -W.

    2014-09-24

    Low temperature plasma (LTP) treatment of biological tissue is a promising path toward sterilization of bacteria due to its versatility and ability to operate under well-controlled and relatively mild conditions. The present collaborative research of an interdisciplinary team of investigators at University of Maryland, College Park (UMD), and University of California, Berkeley (UCB) focused on establishing our knowledge on low temperature plasma-induced chemical modifications in biomolecules that result in inactivation due to various plasma species, including ions, reactive radicals, and UV/VUV photons. The overall goals of the project were to identify the mechanisms by which low and atmospheric pressure plasma (APP) deactivates endotoxic biomolecules. Additionally, we wanted to understand how deactivation processes depend on the interaction of APP with the environment. Various low pressure plasma sources, a vacuum beam system and several atmospheric pressure plasma sources were used to accomplish these objectives. In our work we elucidated for the first time the role of ions, VUV photons and radicals in biological deactivation of model endotoxic biomolecules, both in a UHV beam system and an inductively coupled, low pressure plasma system, and established the associated atomistic modifications in biomolecules. While we showed that both ions and VUV photons can be very efficient in deactivation of biomolecules, significant etching and/or deep modification (~200 nm) were accompanied by these biological effects. One of the most important findings in this work is that the significant deactivation and surface modification can occur with minimal etching using radical species. However, if radical fluxes and corresponding etch rates are relatively high, for example, at atmospheric pressure, inactivation of endotoxic biomolecule film may require near-complete removal of the film. These findings motivated further work at atmospheric pressure using several types of low

  9. Evaluation of Routine Atmospheric Sounding Measurements using Unmanned Systems (ERASMUS) Science Plan

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    8 Evaluation of Routine Atmospheric Sounding Measurements using Unmanned Systems (ERASMUS) Science Plan G de Boer B Argrow G Bland J Elston D Lawrence J Maslanik S Palo M Tschudi December 2015 DISCLAIMER This report was prepared as an account of work sponsored by the U.S. Government. Neither the United States nor any agency thereof, nor any of their employees, makes any warranty, express or implied, or assumes any legal liability or responsibility for the accuracy, completeness, or usefulness of

  10. System and method for preconcentrating, identifying, and quantifying chemical and biological substances

    DOE Patents [OSTI]

    Yu, Conrad M. (Antioch, CA); Koo, Jackson C. (San Ramon, CA)

    2000-01-01

    A system and method for preconcentrating, identifying, and quantifying chemical and biological substances is disclosed. An input valve directs a first volume of a sample gas to a surface acoustic wave (SAW) device. The SAW device preconcentrates and detects a mass of a substance within the sample gas. An output valve receives a second volume of the sample gas containing the preconcentrated substance from the SAW device and directs the second volume to a gas chromatograph (GC). The GC identifies the preconcentrated substance within the sample gas. A shunt valve exhausts a volume of the sample gas equal to the first volume minus the second volume away from the SAW device and the GC. The method of the present invention includes the steps of opening an input valve for passing a first volume of a sample gas to a SAW device; preconcentrating and detecting a mass of a substance within the sample gas using the SAW device; opening an output valve for passing a second volume of the sample gas containing the preconcentrated substance to a gas chromatograph (GC); and then identifying the preconcentrated substance within the sample gas using the GC.

  11. Methods and systems for carrying out a pH-influenced chemical and/or biological reaction

    DOE Patents [OSTI]

    Stern, Michael C.; Simeon, Fritz; Hatton, Trevor Alan

    2016-04-05

    The present invention generally relates to methods and systems for carrying out a pH-influenced chemical and/or biological reaction. In some embodiments, the pH-influenced reaction involves the conversion of CO.sub.2 to a dissolved species.

  12. Chemical and biological warfare: Detection and warning systems. (Latest citations from the NTIS bibliographic database). Published Search

    SciTech Connect (OSTI)

    1995-03-01

    The bibliography contains citations concerning the detection, identification, verification, and warning systems of chemical and biological warfare agents. Citations discuss agents sampling, monitoring, and assessment. Techniques include chromotography, biosensing, chemical analysis, and DNA probes. Land pollution, soil tests, and skin protection are examined. (Contains a minimum of 244 citations and includes a subject term index and title list.)

  13. Chemical and biological warfare: Detection and warning systems. (Latest citations from the NTIS bibliographic database). Published Search

    SciTech Connect (OSTI)

    1996-10-01

    The bibliography contains citations concerning the detection, identification, verification, and warning systems of chemical and biological warfare agents. Citations discuss agents sampling, monitoring, and assessment. Techniques include chromotography, biosensing, chemical analysis, and DNA probes. Land pollution, soil tests, and skin protection are examined. (Contains 50-250 citations and includes a subject term index and title list.) (Copyright NERAC, Inc. 1995)

  14. Biological and Environmental Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Biological Science Biological Science The protozoan Plasmodium falciparum gliding through a cell in the gut of a mosquito, its primary host. Although five different species of Plasmodium can cause malaria, Plasmodium falciparum causes the most severe disease. | Photo courtesy of Wikipedia Commons. <a href="http://energy.gov/articles/malaria-researchers-find-weakness-global-killer">Read more</a> The protozoan Plasmodium falciparum gliding through a cell in the gut of a

  15. Photo Gallery: National Labs and the Science Behind Nuclear Security...

    Broader source: Energy.gov (indexed) [DOE]

    computing; national security; engines; alternative fuels; environmental science; physics; chemistry and biological sciences. Image: Photo courtesy of Argonne...

  16. Experimental Systems-Biology Approaches for Clostridia-Based Bioenergy Production

    SciTech Connect (OSTI)

    Papoutsakis, Elefterios

    2015-04-30

    This is the final project report for project "Experimental Systems-Biology Approaches for Clostridia-Based Bioenergy Production" for the funding period of 9/1/12 to 2/28/2015 (three years with a 6-month no-cost extension) OVERVIEW AND PROJECT GOALS The bottleneck of achieving higher rates and titers of toxic metabolites (such as solvents and carboxylic acids that can used as biofuels or biofuel precursors) can be overcome by engineering the stress response system. Thus, understanding and modeling the response of cells to toxic metabolites is a problem of great fundamental and practical significance. In this project, our goal is to dissect at the molecular systems level and build models (conceptual and quantitative) for the stress response of C. acetobutylicum (Cac) to its two toxic metabolites: butanol (BuOH) and butyrate (BA). Transcriptional (RNAseq and microarray based), proteomic and fluxomic data and their analysis are key requirements for this goal. Transcriptional data from mid-exponential cultures of Cac under 4 different levels of BuOH and BA stress was obtained using both microarrays (Papoutsakis group) and deep sequencing (RNAseq; Meyers and Papoutsakis groups). These two sets of data do not only serve to validate each other, but are also used for identification of stress-induced changes in transcript levels, small regulatory RNAs, & in transcriptional start sites. Quantitative proteomic data (Lee group), collected using the iTRAQ technology, are essential for understanding of protein levels and turnover under stress and the various protein-protein interactions that orchestrate the stress response. Metabolic flux changes (Antoniewicz group) of core pathways, which provide important information on the re-allocation of energy and carbon resources under metabolite stress, were examined using 13C-labelled chemicals. Omics data are integrated at different levels and scales. At the metabolic-pathway level, omics data are integrated into a 2nd generation genome

  17. ARM - Key Science Questions

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Atmospheric System Research (ASR) Earth System Modeling Regional & Global Climate Modeling Terrestrial Ecosystem Science Performance Metrics User Meetings Past ARM Science Team ...

  18. X-Ray Microscopy and Imaging: Science and Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    fields: Biology and Life Sciences Environmental Sciences Materials Science Nanoscience Optics and Fundamental Physics Our research often employs the following techniques: Coherent...

  19. (Biological dosimetry)

    SciTech Connect (OSTI)

    Sega, G.A.

    1990-11-06

    The traveler participated in an International Symposium on Trends in Biological Dosimetry and presented an invited paper entitled, Adducts in sperm protamine and DNA vs mutation frequency.'' The purpose of the Symposium was to examine the applicability of new methods to study quantitatively the effects of xenobiotic agents (radiation and chemicals) on molecular, cellular and organ systems, with special emphasis on human biological dosimetry. The general areas covered at the meeting included studies on parent compounds and metabolites; protein adducts; DNA adducts; gene mutations; cytogenetic end-points and reproductive methods.

  20. Reducing Mortality from Terrorist Releases of Chemical and Biological Agents: I. Filtration for Ventilation Systems in Commercial Building

    SciTech Connect (OSTI)

    Thatcher, Tracy L.; Daisey, Joan M.

    1999-09-01

    There is growing concern about potential terrorist attacks involving releases of chemical and/or biological (CB) agents, such as sarin or anthrax, in and around buildings. For an external release, the CB agent can enter the building through the air intakes of a building's mechanical ventilation system and by infiltration through the building envelope. For an interior release in a single room, the mechanical ventilation system, which often recirculates some fraction of the air within a building, may distribute the released CB agent throughout the building. For both cases, installing building systems that remove chemical and biological agents may be the most effective way to protect building occupants. Filtration systems installed in the heating, ventilating and air-conditioning (HVAC) systems of buildings can significantly reduce exposures of building occupants in the event of a release, whether the release is outdoors or indoors. Reduced exposures can reduce the number of deaths from a terrorist attack. The purpose of this report is to provide information and examples of the design of filtration systems to help building engineers retrofit HVAC systems. The report also provides background information on the physical nature of CB agents and brief overviews of the basic principles of particle and vapor filtration.

  1. Enhancing the role of veterinary vaccines reducing zoonotic diseases of humans: Linking systems biology with vaccine development

    SciTech Connect (OSTI)

    Adams, Leslie G.; Khare, Sangeeta; Lawhon, Sara D.; Rossetti, Carlos A.; Lewin, Harris A.; Lipton, Mary S.; Turse, Joshua E.; Wylie, Dennis C.; Bai, Yu; Drake, Kenneth L.

    2011-09-22

    The aim of research on infectious diseases is their prevention, and brucellosis and salmonellosis as such are classic examples of worldwide zoonoses for application of a systems biology approach for enhanced rational vaccine development. When used optimally, vaccines prevent disease manifestations, reduce transmission of disease, decrease the need for pharmaceutical intervention, and improve the health and welfare of animals, as well as indirectly protecting against zoonotic diseases of people. Advances in the last decade or so using comprehensive systems biology approaches linking genomics, proteomics, bioinformatics, and biotechnology with immunology, pathogenesis and vaccine formulation and delivery are expected to enable enhanced approaches to vaccine development. The goal of this paper is to evaluate the role of computational systems biology analysis of host:pathogen interactions (the interactome) as a tool for enhanced rational design of vaccines. Systems biology is bringing a new, more robust approach to veterinary vaccine design based upon a deeper understanding of the host pathogen interactions and its impact on the host's molecular network of the immune system. A computational systems biology method was utilized to create interactome models of the host responses to Brucella melitensis (BMEL), Mycobacterium avium paratuberculosis (MAP), Salmonella enterica Typhimurium (STM), and a Salmonella mutant (isogenic *sipA, sopABDE2) and linked to the basis for rational development of vaccines for brucellosis and salmonellosis as reviewed by Adams et al. and Ficht et al. [1,2]. A bovine ligated ileal loop biological model was established to capture the host gene expression response at multiple time points post infection. New methods based on Dynamic Bayesian Network (DBN) machine learning were employed to conduct a comparative pathogenicity analysis of 219 signaling and metabolic pathways and 1620 gene ontology (GO) categories that defined the host's biosignatures

  2. BER Committees of Visitors | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    BERAC COV Report on Division of Biological Systems Science (BSS) .pdf file (578KB) BER Response to BERAC COV Report on BSS .pdf file (28KB) 2013 BERAC COV Report on Division of ...

  3. Life sciences and environmental sciences

    SciTech Connect (OSTI)

    Not Available

    1992-02-01

    The DOE laboratories play a unique role in bringing multidisciplinary talents -- in biology, physics, chemistry, computer sciences, and engineering -- to bear on major problems in the life and environmental sciences. Specifically, the laboratories utilize these talents to fulfill OHER`s mission of exploring and mitigating the health and environmental effects of energy use, and of developing health and medical applications of nuclear energy-related phenomena. At Lawrence Berkeley Laboratory (LBL) support of this mission is evident across the spectrum of OHER-sponsored research, especially in the broad areas of genomics, structural biology, basic cell and molecular biology, carcinogenesis, energy and environment, applications to biotechnology, and molecular, nuclear and radiation medicine. These research areas are briefly described.

  4. Life sciences and environmental sciences

    SciTech Connect (OSTI)

    Not Available

    1992-02-01

    The DOE laboratories play a unique role in bringing multidisciplinary talents -- in biology, physics, chemistry, computer sciences, and engineering -- to bear on major problems in the life and environmental sciences. Specifically, the laboratories utilize these talents to fulfill OHER's mission of exploring and mitigating the health and environmental effects of energy use, and of developing health and medical applications of nuclear energy-related phenomena. At Lawrence Berkeley Laboratory (LBL) support of this mission is evident across the spectrum of OHER-sponsored research, especially in the broad areas of genomics, structural biology, basic cell and molecular biology, carcinogenesis, energy and environment, applications to biotechnology, and molecular, nuclear and radiation medicine. These research areas are briefly described.

  5. Biological Effects of Ionizing Radiation

    DOE R&D Accomplishments [OSTI]

    Ingram, M.; Mason, W. B.; Whipple, G. H.; Howland, J. W.

    1952-04-07

    This report presents a review of present knowledge and concepts of the biological effects of ionizing radiations. Among the topics discussed are the physical and chemical effects of ionizing radiation on biological systems, morphological and physiological changes observed in biological systems subjected to ionizing radiations, physiological changes in the intact animal, latent changes following exposure of biological systems to ionizing radiations, factors influencing the biological response to ionizing radiation, relative effects of various ionizing radiations, and biological dosimetry.

  6. Investigation on a summer operation effect of a district energy system at Kitakyushu science research city

    SciTech Connect (OSTI)

    Gao, Weijun; Zhou, Nan; Nishida, Masaru; Sagara, Noriyasu; Ryu, Yuji; Ojima, Toshio

    2004-05-24

    In Kitakyushu Science and Research Park, a new district energy system has been introduced. In this study, we chose this system as a case study and have carried out an analysis on the efficiency of the power generation and heat release utilization of the fuel cell and gas engine in summer by using the recorded data. The results can be summarized as follows; (1) Although the power generation efficiencies of the gas engine and fuel cell are a little bit lower than the standard designated value, they are almost running at stable condition. (2) The collected heat energy is lower than the designated value. The heat release utilization, which is used for cooling and hot water, is fairly low. Considering the efficient use of energy, it is a key to have a good use of heat release when we introduce a district energy system. (3) The discarded heat energy of the system is very big in this investigation when evaluating the system as a whole. It is fundamental to the future of energy conservation to use primary energy more efficiently.

  7. Report of The Structural Biology Subcommittee of The Biological and

    Office of Science (SC) Website

    Environmental Research Advisory Committee | U.S. DOE Office of Science (SC) Report of The Structural Biology Subcommittee of The Biological and Environmental Research Advisory Committee Biological and Environmental Research Advisory Committee (BERAC) BERAC Home Meetings Members Charges/Reports Current BERAC Charges Archive of BERAC Reports Charter .pdf file (135KB) BER Committees of Visitors Federal Advisory Committees BER Home Charges/Reports Report of The Structural Biology Subcommittee of

  8. Enabling X-ray free electron laser crystallography for challenging biological systems from a limited number of crystals

    SciTech Connect (OSTI)

    Uervirojnangkoorn, Monarin; Zeldin, Oliver B.; Lyubimov, Artem Y.; Hattne, Johan; Brewster, Aaron S.; Sauter, Nicholas K.; Brunger, Axel T.; Weis, William I.

    2015-03-17

    There is considerable potential for X-ray free electron lasers (XFELs) to enable determination of macromolecular crystal structures that are difficult to solve using current synchrotron sources. Prior XFEL studies often involved the collection of thousands to millions of diffraction images, in part due to limitations of data processing methods. We implemented a data processing system based on classical post-refinement techniques, adapted to specific properties of XFEL diffraction data. When applied to XFEL data from three different proteins collected using various sample delivery systems and XFEL beam parameters, our method improved the quality of the diffraction data as well as the resulting refined atomic models and electron density maps. Moreover, the number of observations for a reflection necessary to assemble an accurate data set could be reduced to a few observations. These developments will help expand the applicability of XFEL crystallography to challenging biological systems, including cases where sample is limited.

  9. Enabling X-ray free electron laser crystallography for challenging biological systems from a limited number of crystals

    SciTech Connect (OSTI)

    Uervirojnangkoorn, Monarin; Zeldin, Oliver B.; Lyubimov, Artem Y.; Hattne, Johan; Brewster, Aaron S.; Sauter, Nicholas K.; Brunger, Axel T.; Weis, William I.

    2015-03-17

    There is considerable potential for X-ray free electron lasers (XFELs) to enable determination of macromolecular crystal structures that are difficult to solve using current synchrotron sources. Prior XFEL studies often involved the collection of thousands to millions of diffraction images, in part due to limitations of data processing methods. We implemented a data processing system based on classical post-refinement techniques, adapted to specific properties of XFEL diffraction data. When applied to XFEL data from three different proteins collected using various sample delivery systems and XFEL beam parameters, our method improved the quality of the diffraction data as well as the resulting refined atomic models and electron density maps. Moreover, the number of observations for a reflection necessary to assemble an accurate data set could be reduced to a few observations. In conclusion, these developments will help expand the applicability of XFEL crystallography to challenging biological systems, including cases where sample is limited.

  10. Enabling X-ray free electron laser crystallography for challenging biological systems from a limited number of crystals

    DOE Public Access Gateway for Energy & Science Beta (PAGES Beta)

    Uervirojnangkoorn, Monarin; Zeldin, Oliver B.; Lyubimov, Artem Y.; Hattne, Johan; Brewster, Aaron S.; Sauter, Nicholas K.; Brunger, Axel T.; Weis, William I.

    2015-03-17

    There is considerable potential for X-ray free electron lasers (XFELs) to enable determination of macromolecular crystal structures that are difficult to solve using current synchrotron sources. Prior XFEL studies often involved the collection of thousands to millions of diffraction images, in part due to limitations of data processing methods. We implemented a data processing system based on classical post-refinement techniques, adapted to specific properties of XFEL diffraction data. When applied to XFEL data from three different proteins collected using various sample delivery systems and XFEL beam parameters, our method improved the quality of the diffraction data as well as themore » resulting refined atomic models and electron density maps. Moreover, the number of observations for a reflection necessary to assemble an accurate data set could be reduced to a few observations. These developments will help expand the applicability of XFEL crystallography to challenging biological systems, including cases where sample is limited.« less

  11. Enabling X-ray free electron laser crystallography for challenging biological systems from a limited number of crystals

    DOE Public Access Gateway for Energy & Science Beta (PAGES Beta)

    Uervirojnangkoorn, Monarin; Zeldin, Oliver B.; Lyubimov, Artem Y.; Hattne, Johan; Brewster, Aaron S.; Sauter, Nicholas K.; Brunger, Axel T.; Weis, William I.

    2015-03-17

    There is considerable potential for X-ray free electron lasers (XFELs) to enable determination of macromolecular crystal structures that are difficult to solve using current synchrotron sources. Prior XFEL studies often involved the collection of thousands to millions of diffraction images, in part due to limitations of data processing methods. We implemented a data processing system based on classical post-refinement techniques, adapted to specific properties of XFEL diffraction data. When applied to XFEL data from three different proteins collected using various sample delivery systems and XFEL beam parameters, our method improved the quality of the diffraction data as well as themore » resulting refined atomic models and electron density maps. Moreover, the number of observations for a reflection necessary to assemble an accurate data set could be reduced to a few observations. In conclusion, these developments will help expand the applicability of XFEL crystallography to challenging biological systems, including cases where sample is limited.« less

  12. Office of Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Office of Science Office of Science Enabling remarkable discoveries and tools that transform our understanding of energy and matter and advance national, economic, and energy security. Advanced Scientific Computing Research» Basic Energy Sciences» Biological and Environmental Research» Fusion Energy Sciences» High Energy Physics» Nuclear Physics» Turning Windows into Solar Panels Turning Windows into Solar Panels READ MORE Scientists study glaciers in McMurdo Dry Valleys in Antarctica

  13. A Fish-eye View of Riverine Hydropower Systems: Understanding the Biological Response to Turbine Passage

    SciTech Connect (OSTI)

    Pracheil, Brenda M; DeRolph, Christopher R; Schramm, Michael P; Bevelhimer, Mark S

    2016-01-01

    Fish populations that have been traditionally thought of as completely fragmented by dams still maintain limited, one-way connectivity from upstream to downstream reaches via downstream turbine passage. This one-way connectivity may be important to population dynamics, but can also introduce a new and significant source of mortality due to turbine-induced fish injury and mortality. Mechanistically, fish injury and mortality associated with downstream turbine passage can come from several sources including blade strike, shear forces, cavitation, or pressure decreases, and parsing the contributions of these individual forces is important for advancing and deploying turbines that minimize these impacts to fishes. The overarching goals of this project are two-fold: 1. To inform biological limitations of fish for use in creating and testing advanced turbine designs (e.g., research and development) and 2. To provide insight into locations that would be good initial locations for deploying advanced turbines (e.g., marketing). This report is an initial step in linking physical forces to injury and mortality rates to provide a better understanding turbine-associated injury and mortality rates for turbine designers and manufacturers and examine the spatial distribution of hydropower, turbines, and fishes across the U.S.A. to determine locations that may be good candidates for advanced turbine designs. We also use this report to present an initial approach for selecting species for further laboratory and field studies that examine the impacts of hydropower on fishes.

  14. Development and Applications of Photosensitive Device Systems to Studies of Biological and Organic Materials

    SciTech Connect (OSTI)

    Gruner, Sol M.

    2005-06-01

    R&D and application testing are proceeding on Pixel Array Detectors (PADs) for time-resolved and crystallographic applications at synchrotron radiation (SR) sources [1, 2, 4, 23, 24]. In conjunction with an NIH-funded SBIR grant, a novel mixed-mode analog/digital pixel design is being developed. Reports and publications on recent developments in the hybrid detector will be presented at the IEEE Nuclear Science Symposium in Rome in October, 2004 [21-23]. We've been invited to help prepare a special issue of Journal of Synchrotron Radiation on x-ray detectors; additionally, we will contribute an article on fast time-resolved PADs [24]. Application of a PAD developed under a DOE Facilities Initiative Grant, in collaboration with Dr. Jin Wang's group at the Advanced Photon Source, is being intensively used for microsecond time-resolved x-ray imaging of fuel injectors [3, 15]. This detector is the primary data acquisition device used by the Wang collaboration for work which was awarded the 2002 DOE Combustion and Emission Control R&D award.

  15. Biology and Medicine Division annual report, 1987

    SciTech Connect (OSTI)

    Not Available

    1988-04-01

    Modern biology is characterized by rapid change. The development of new tools and the results derived from their application to various biological systems require significant shifts in our concepts and the strategies that are adopted to analyze and elucidate mechanisms. In parallel with exciting new scientific developments our organizational structure and programmatic emphases have altered. These changes and developments have enabled the life sciences at LBL to be better positioned to create and respond to new opportunities. The work summarized in this annual report reflects a vital multifaceted research program that is in the vanguard of the areas represented. We are committed to justifying the confidence expressed by LBL through the new mission statement and reorganizational changes designed to give greater prominence to the life sciences.

  16. The National Academies of Sciences, Engineering, and Medicine Release Commercial Aircraft Propulsion and Energy Systems Research: Reducing Global Carbon Emissions

    Broader source: Energy.gov [DOE]

    The National Academies of Sciences, Engineering, and Medicine releases the Commercial Aircraft Propulsion and Energy Systems Research: Reducing Global Carbon Emissions report, which focuses on large (single- and twin-aisle) planes that transport more than 100 people. These aircraft account for more than 90% of greenhouse gas emissions from all commercial aircraft.

  17. A Study to Determine the Biological Feasibility of a New Fish-Tagging System : Annual Report 1998-1999.

    SciTech Connect (OSTI)

    Downing, Sandra L.; Prentice, Earl F.; Peterson, Bradley W.; Nunnallee, Edmund P.; Jonasson, Bruce F.

    2000-09-01

    This report covers our work during 1998 and 1999 (FY99) on a project to expand and improve technology for passive-integrated-transponder tags (PIT tags) throughout the Columbia River Basin. The National Marine Fisheries Service (NMFS) in cooperation with the Bonneville Power Administration (BPA) conducted the work. Timely and accurate information derived from PIT-tag technology is increasingly critical to resource stakeholders in assessing the effectiveness of efforts to enhance survival of juvenile and adult salmonids. Continued development of PIT-tag technology will enable researchers and fisheries managers to address issues expressed in the NMFS biological opinions for operation of the Federal Columbia River Power System (FCRPS) and the proposed Snake River Recovery Plan. The FY99 work was divided into individual projects that are covered separately in this report.

  18. An adaptive multi-level simulation algorithm for stochastic biological systems

    SciTech Connect (OSTI)

    Lester, C. Giles, M. B.; Baker, R. E.; Yates, C. A.

    2015-01-14

    Discrete-state, continuous-time Markov models are widely used in the modeling of biochemical reaction networks. Their complexity often precludes analytic solution, and we rely on stochastic simulation algorithms (SSA) to estimate system statistics. The Gillespie algorithm is exact, but computationally costly as it simulates every single reaction. As such, approximate stochastic simulation algorithms such as the tau-leap algorithm are often used. Potentially computationally more efficient, the system statistics generated suffer from significant bias unless tau is relatively small, in which case the computational time can be comparable to that of the Gillespie algorithm. The multi-level method [Anderson and Higham, Multi-level Monte Carlo for continuous time Markov chains, with applications in biochemical kinetics, SIAM Multiscale Model. Simul. 10(1), 146179 (2012)] tackles this problem. A base estimator is computed using many (cheap) sample paths at low accuracy. The bias inherent in this estimator is then reduced using a number of corrections. Each correction term is estimated using a collection of paired sample paths where one path of each pair is generated at a higher accuracy compared to the other (and so more expensive). By sharing random variables between these paired paths, the variance of each correction estimator can be reduced. This renders the multi-level method very efficient as only a relatively small number of paired paths are required to calculate each correction term. In the original multi-level method, each sample path is simulated using the tau-leap algorithm with a fixed value of ?. This approach can result in poor performance when the reaction activity of a system changes substantially over the timescale of interest. By introducing a novel adaptive time-stepping approach where ? is chosen according to the stochastic behaviour of each sample path, we extend the applicability of the multi-level method to such cases. We demonstrate the efficiency

  19. OPTIONS for systemic change in mathematics, science, and technology education: Scientist/teacher partnerships

    SciTech Connect (OSTI)

    Glantz, C.S.; Fayette, L.

    1994-01-01

    Options is a US Department of Energy/Pacific Northwest Laboratory (DOE/PNL) project whose goal is to assist Washington and Oregon middle schools having high percentages of students historically underrepresented in mathematics, science, and technology. The goal is to ensure that all students receive high-quality mathematics, science, and technology education throughout their middle school years. Teams of scientists work with teams of teachers from participating OPTIONS schools to initiate significant change in the manner in which science, mathematics, and technology are taught. As part of this effort, PNL scientists team up with teachers to develop curricula.

  20. Biology and management of insect pests in North American intensively managed hardwood forest systems.

    SciTech Connect (OSTI)

    Coyle, David R.; Nebeker, T., E.; Hart, E., R.; Mattson, W., J.

    2005-01-01

    Annu. Rev. Entomol. 50:1-29. Abstract Increasing demand for wood and wood products is putting stress on traditional forest production areas, leading to long-term economic and environmental concerns. Intensively managed hardwood forest systems (IMHFS), grown using conventional agricultural as well as forestry methods, can help alleviate potential problems in natural forest production areas. Although IMHFS can produce more biomass per hectare per year than natural forests, the ecologically simplified, monocultural systems may greatly increase the crops susceptibility to pests. Species in the genera Populus and Salix comprise the greatest acreage in IMHFS in North America, but other species, including Liquidambar styracifua and Platanus occidentalis, are also important. We discuss life histories, realized and potential damage, and management options for the most economically infuential pests that affect these hardwood species. The substantial inherent challenges associated with pest management in the monocultural environments created by IMHFS are reviewed. Finally, we discuss ways to design IMHFS that may reduce their susceptibility to pests, increase their growth and productivity potential, and create a more sustainable environment.

  1. A Study to Determine the Biological Feasability of a New Fish Tagging System : Annual Report, 1986-1987.

    SciTech Connect (OSTI)

    Prentice, Earl F.; Flagg, T.A.

    1987-12-01

    In 1983, a multi-year project to evaluate the technical and biological feasibility of adapting a new identification system to salmonids was established. The system is based upon a miniaturized passive integrated transponder (PIT) tag. This report discusses the work completed and is divided into laboratory studies, field studies, and systems development. All studies were conducted using a glass-encapsulated tag implanted into the body cavity of test fish via a 12-gauge hypodermic needle. Laboratory studies with juvenile chinook salmon, Oncorhynchus tshawytscha, showed that retention of glass-encapsulated PIT tags was 99-100% in fish weighing 3 g (mean weight) or larger. No adverse tissue response to the tag was noted. The survival of fish 5 g (mean weight) or larger was usually greater than 99%. However, fish ranging in weight from 2 to 4 g, or fish undergoing a physiological change such as smoltification may have a low mortality (usually less than 5.0%) after tagging. The mortality rate in the smaller fish was dependent upon tagging skill whereas mortality in smolting fish seemed dependent upon the level of stress. Growth comparisons between tagged and control fish indicated PIT-tagged fish had a slightly depressed growth rate at some measurement periods. The operational life of glass-encapsulated PIT tags implanted in fish was good, with 100% of the tags operating after 401 days. No tags were rejected from the fish during the observation period.

  2. Molecular Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Molecular Science NETL's Molecular Science competency provides technology-enabling computational and experimental insight into the atomic-level processes occurring in condensed matter and gas phase systems or at the heterogeneous surface-gas interfaces used for energy applications. Research includes molecular optimization as well as both classical and high-throughput material design, specifically: Molecular Optimization Development and application of new computational approaches in the general

  3. Energy Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Energy Science Energy Science Print Our current fossil-fuel-based system is causing potentially catastrophic changes to our planet. The quest for renewable, nonpolluting sources of energy requires us to understand, predict, and ultimately control matter and energy at the electronic, atomic, and molecular levels. Light-source facilities-the synchrotrons of today and the next-generation light sources of tomorrow-are the scientific tools of choice for exploring the electronic and atomic structure

  4. NERSC, Berkeley Lab Explore Frontiers of Deep Learning for Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    NERSC, Berkeley Lab Explore Frontiers of Deep Learning for Science NERSC, Berkeley Lab Explore Frontiers of Deep Learning for Science Computational Researchers Test Advanced Machine Learning Tools for HPC December 8, 2015 Contact: Kathy Kincade, kkincade@lbl.gov, 510-495-2124 braindeeplearning Researchers in Berkeley Lab's Biological Systems and Engineering Division are using a deep learning library to analyze recordings of the human brain during speech production. Image: Kris Bouchard Deep

  5. DOE Science Showcase - Genomics | OSTI, US Dept of Energy Office of

    Office of Scientific and Technical Information (OSTI)

    Scientific and Technical Information Genomics "DNA with Features," Image Credit: Office of Biological and Environmental Research, U.S. DOE Office of Science. Genomics is a scientific field focused on sequencing and analyzing genomes, the complete set of genetic material encoding the biological instructions for developing and maintaining an organism. Insights from genomic information are catalyzing an extraordinary transformation in our understanding of biological systems and how we

  6. Neutron and Nuclear Science News

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    News Recent news and events related to neutron and nuclear science at LANSCE. Neutron and Nuclear Science News Nuclear and Materials Science Research at LANSCE Nuclear science observations and opportunities at the Los Alamos Neutron Science Center Links Neutron and Nuclear Science News Media Links Profiles Events at LANSCE LAPIS (LANSCE Proposal Intake System

  7. BER Budget | U.S. DOE Office of Science (SC)

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Budget Biological and Environmental Research (BER) BER Home About Organization Chart .pdf ... Research Facilities Science Highlights Benefits of BER Funding Opportunities Biological & ...

  8. COMPUTATIONAL SCIENCE CENTER

    SciTech Connect (OSTI)

    DAVENPORT, J.

    2005-11-01

    The Brookhaven Computational Science Center brings together researchers in biology, chemistry, physics, and medicine with applied mathematicians and computer scientists to exploit the remarkable opportunities for scientific discovery which have been enabled by modern computers. These opportunities are especially great in computational biology and nanoscience, but extend throughout science and technology and include, for example, nuclear and high energy physics, astrophysics, materials and chemical science, sustainable energy, environment, and homeland security. To achieve our goals we have established a close alliance with applied mathematicians and computer scientists at Stony Brook and Columbia Universities.

  9. DOE Science Showcase - Genomics | OSTI, US Dept of Energy Office...

    Office of Scientific and Technical Information (OSTI)

    Image Credit: Office of Biological and Environmental Research, U.S. DOE Office of Science. ... DOE's Genomic Science Program research is conducted at national laboratories and ...

  10. Before the House Science and Technology Subcommittee on Energy...

    Energy Savers [EERE]

    Anna Palmisano, Associate Director Office of Biological and Environmental Research Office of Science Subject: DOE's Office of Science Research Applications 9-10-09FinalTestimony...

  11. Science and Technology Review June 2011 (Technical Report) |...

    Office of Scientific and Technical Information (OSTI)

    59 BASIC BIOLOGICAL SCIENCES; 42 ENGINEERING; 97 MATHEMATICS, COMPUTING, AND INFORMATION SCIENCE Word Cloud More Like This Full Text preview image File size NAView Full Text ...

  12. Science and Technology Review September 2012 (Technical Report...

    Office of Scientific and Technical Information (OSTI)

    59 BASIC BIOLOGICAL SCIENCES; 42 ENGINEERING; 97 MATHEMATICS, COMPUTING, AND INFORMATION SCIENCE Word Cloud More Like This Full Text preview image File size NAView Full Text ...

  13. Department of Energy Announces 20th Annual National Science Bowl...

    Energy Savers [EERE]

    Islands - will be quizzed on a range of science disciplines including biology, chemistry, earth science, physics and astronomy, as well as math; and vie for trophies and ...

  14. By Institution | U.S. DOE Office of Science (SC)

    Office of Science (SC) Website

    ASCR Advanced Scientific Computing Research BER Biological and Environmental Research BES Basic Energy Sciences FES Fusion Energy Sciences HEP High Energy Physics NP ...

  15. Science Summary

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    fe-s image » Links Scientific Highlight Peters Lab MSU News e! Science News Physorg.com » Share this Article Laboratree Ologeez SciLink LabSpaces The Structure of an Algal Hydrogenase Reveals the Assembly and Evolution of Complex Metalloenzymes summary written by Raven Hanna The potential for using biological enzymes to make hydrogen to use as a renewable energy source is a hot topic, but little is known about how these complex enzymes assemble and work. The [FeFe]-hydrogenase enzyme binds

  16. Modeling and Simulation in the Chemical Sciences

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    sciences for nuclear forensics, remote sensing, and more. ... Information Science & Technology Institute: Provides ... fire-suppression systems, and pulsed detonation ...

  17. Systems Biology Approaches to Dissecting Plant Cell Wall Biosynthesis Genes in Poplus (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Glass, N Louise [UC Berkeley

    2013-01-25

    N. Louise Glass from the University of California, Berkeley, presents a talk titled "Systems Biology Approaches to Dissecting Plant Cell Wall Biosynthesis Genes in Poplus" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  18. Systems Biology Approaches to Dissecting Plant Cell Wall Biosynthesis Genes in Poplus (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Glass, N Louise [UC Berkeley] [UC Berkeley

    2012-03-22

    N. Louise Glass from the University of California, Berkeley, presents a talk titled "Systems Biology Approaches to Dissecting Plant Cell Wall Biosynthesis Genes in Poplus" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  19. Autofermentative Biological Hydrogen Production by Cyanobacteria...

    Broader source: Energy.gov (indexed) [DOE]

    More Documents & Publications 2013 Biological Hydrogen Production Workshop Summary Report Renewable Hydrogen Production from Biological Systems Anthropogenic CO2 as a Feedstock for ...

  20. Biological Safety

    Office of Energy Efficiency and Renewable Energy (EERE)

    The DOE's Biological Safety Program provides a forum for the exchange of best practices, lessons learned, and guidance in the area of biological safety. This content is supported by the Biosurety Executive Team. The Biosurety Executive Team is a DOE-chartered group. The DOE Office of Worker Safety and Health Policy provides administrative support for this group. The group identifies biological safety-related issues of concern to the DOE and pursues solutions to issues identified.

  1. Synthetic Biology: Engineering, Evolution and Design (SEED) Conference 2014

    SciTech Connect (OSTI)

    Voigt, Christopher

    2014-07-01

    SEED2014 focused on advances in the science and technology emerging from the field of synthetic biology. We broadly define this as technologies that accelerate the process of genetic engineering. It highlighted new tool development, as well as the application of these tools to diverse problems in biotechnology, including therapeutics, industrial chemicals and fuels, natural products, and agriculture. Systems spanned from in vitro experiments and viruses, through diverse bacteria, to eukaryotes (yeast, mammalian cells, plants).

  2. Science at ALCF | Argonne Leadership Computing Facility

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Featured Science Simulation of cosmic reionization Cosmic Reionization On Computers Nickolay Gnedin Allocation Program: INCITE Allocation Hours: 65 Million Science at ALCF Allocation Program - Any - INCITE ALCC ESP Director's Discretionary Year Year -Year 2008 2009 2010 2011 2012 2013 2014 2015 2016 Research Domain - Any - Physics Mathematics Computer Science Chemistry Earth Science Energy Technologies Materials Science Engineering Biological Sciences Apply sort descending An example of a

  3. Science and Science Fiction

    ScienceCinema (OSTI)

    Scherrer, Robert [Vanderbilt University, Nashville, Tennessee, United States

    2009-09-01

    I will explore the similarities and differences between the process of writing science fiction and the process of 'producing' science, specifically theoretical physics. What are the ground rules for introducing unproven new ideas in science fiction, and how do they differ from the corresponding rules in physics? How predictive is science fiction? (For that matter, how predictive is theoretical physics?) I will also contrast the way in which information is presented in science fiction, as opposed to its presentation in scientific papers, and I will examine the relative importance of ideas (as opposed to the importance of the way in which these ideas are presented). Finally, I will discuss whether a background as a research scientist provides any advantage in writing science fiction.

  4. Science Briefs

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science Briefs Science Briefs Read in detail about specific Los Alamos science achievements, and the honors our scientists are accruing. Science Briefs - 2016» Science Briefs - 2015» Science Briefs - 2014» Science Briefs - 2013» Science Briefs - 2012» Science Briefs - 2011» Elizabeth Kelly Kelly named Fellow of the American Statistical Association The American Statistical Association (ASA) has honored Elizabeth Kelly with the title of Fellow. - 8/2/16 Beverly Aikin, left, and Ellen Cerreta

  5. Development of an Implementation Plan Related to Biological Opinion on Operation of the Federal Columbia River Power System ; Step 1: Review and Critique of Implementation Plans.

    SciTech Connect (OSTI)

    Neitzel, Duane A.; Bunn, Amoret

    2000-12-01

    The Draft Biological Opinion on Operation of the Federal Columbia River Power System calls for the development of 1- and 5-year implementation plans. These plans will provide the roadmap for planning and subsequent implementation of actions intended to meet specific performance standards (i.e., biological objectives) in a timely manner. To develop implementation plans the key tasks and sequences of steps must be determined. Those responsible for specific tasks must be identified and they must understand what they need to do. There must be assurances that the resources (human, physical, and fiscal) to complete the tasks are available. Motivation and incentive systems should be set up. Systems to coordinate efforts and guide activity must be devised and installed. An information management system must be designed to manage and analyze data and ensure that appropriate data are collected. This will aid managers in assessing whether individual activities or actions are tracking with stated goals and objectives. Training programs to improve managerial and worker capability in making and implementing plans should be designed. Managerial leadership to guide the efforts of all individuals in achieving the goals of the anadromous and resident fish recovery must be developed. It is the entire process of managing fish recovery in relationship to the Biological Opinion that will guide, coordinate, motivate, and control work and determine the effectiveness and efficiency of plan implementation.

  6. From systems biology to photosynthesis and whole-plant modeling: a conceptual model for integrating multi-scale networks

    SciTech Connect (OSTI)

    Weston, David; Hanson, Paul J; Norby, Richard J; Tuskan, Gerald A; Wullschleger, Stan D

    2012-01-01

    Network analysis is now a common statistical tool for molecular biologists. Network algorithms are readily used to model gene, protein and metabolic correlations providing insight into pathways driving biological phenomenon. One output from such an analysis is a candidate gene list that can be responsible, in part, for the biological process of interest. The question remains, however, as to whether molecular network analysis can be used to inform process models at higher levels of biological organization. In our previous work, transcriptional networks derived from three plant species were constructed, interrogated for orthology and then correlated to photosynthetic inhibition at elevated temperature. One unique aspect of that study was the link from co-expression networks to net photosynthesis. In this addendum, we propose a conceptual model where traditional network analysis can be linked to whole-plant models thereby informing predictions on key processes such as photosynthesis, nutrient uptake and assimilation, and C partitioning.

  7. Science @WIPP: Underground Laboratory

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    WIPP Underground Laboratory Double Beta Decay Dark Matter Biology Repository Science Renewable Energy Underground Laboratory The deep geologic repository at WIPP provides an ideal environment for experiments in many scientific disciplines, including particle astrophysics, waste repository science, mining technology, low radiation dose physics, fissile materials accountability and transparency, and deep geophysics. The designation of the Carlsbad Department of Energy office as a "field"

  8. SOLERAS - Solar Controlled Environment Agriculture Project. Final report, Volume 5. Science Applications, Incorporated system requirements definition

    SciTech Connect (OSTI)

    Not Available

    1985-01-01

    This report sets forth the system requirements for a Solar Controlled-Environment Agriculture System (SCEAS) Project. In the report a conceptual baseline system description for an engineering test facility is given. This baseline system employs a fluid roof/roof filter in combination with a large storage tank and a ground water heat exchanger in order to provide cooling and heating as needed. Desalination is accomplished by pretreatment followed by reverse osmosis. Energy is provided by means of photovoltaics and wind machines in conjunction with storage batteries. Site and climatic data needed in the design process are given. System performance specifications and integrated system design criteria are set forth. Detailed subsystem design criteria are presented and appropriate references documented.

  9. DOE Science Showcase - MicroElectroMechanical Systems | OSTI, US Dept of

    Office of Scientific and Technical Information (OSTI)

    Energy Office of Scientific and Technical Information MicroElectroMechanical Systems Credit: Daniel Lopez, Argonne National Laboratory Credit: Daniel Lopez, Argonne National LaboratoryAdvanced microelectromechanical systems (MEMS) technologies, devices, and systems are being used by Department of Energy (DOE) researchers and their collaborators to customize solutions for a wide range of applications. These micrometer-scale machines are being incorporated into inertial and pressure sensors,

  10. Contractor Assurance Systems | U.S. DOE Office of Science (SC)

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Contractor Assurance Systems Deputy Director for Field Operations Deputy Director Home Mission & Functions Deputy Director Biography Organization Oversight Contractor Assurance Systems Who We Are Operations Improvement Committee Contact Information Deputy Director for Field Operations U.S. Department of Energy SC-3/Forrestal Building 1000 Independence Ave., SW Washington, DC 20585 P: (202) 586-5434 F: (202) 586-4120 E: Email Us Oversight Contractor Assurance Systems Print Text Size: A A A

  11. NERSC Science Engagements

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    NERSC Science Engagements NERSC Science Engagements At NERSC, science comes first. NERSC systems and services are designed to enable and support cutting-edge research within the U.S. Department of Energy's Office of Science. NERSC engages with the scientific community in many ways both formally and informally. Among the more formal mechanisms are the NERSC Requirements Reviews, which have now become the DOE Exascale Requirements Reviews jointly with the Argonne and Oak Ridge Leadership Computing

  12. Biological and Environmental Research

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Biological and Environmental Research Biological and Environmental Research Understanding how genomic information is translated to functional capabilities, and the roles of Earth's biogeochemical systems so we can predict climate decades or centuries into the future. Get Expertise Cheryl Kuske (505) 665-4800 Email James Bossert (505) 667-3644 Email Manvendra Dubey (505) 665-3128 Email Kim Nitschke (505) 667-1186 Email Phil Jones (505) 667-6387 Email Cathy Wilson (505) 667-0202 Email Conducting

  13. Life Sciences Division Home

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    the 4-Dimensional dynamics of complex biological systems -- ranging from molecules to microbes to humans. Important Message Regarding This Website Following all-hands meetings of...

  14. Information Sciences and Technology

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    file systems Bioinformatics Infectious disease surveillance Climate change and energy security Smart grids Learn more about our Information Science and Technology capabilities

  15. April 2013 Most Viewed Documents for Biology And Medicine | OSTI...

    Office of Scientific and Technical Information (OSTI)

    April 2013 Most Viewed Documents for Biology And Medicine Publications in biomedical and environmental sciences programs, 1981 Moody, J.B. (comp.) (1982) 306 Drug Retention Times ...

  16. Discovery Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    universe Discovery Science Since the beginning of civilization, humans have marveled at the night sky and pondered the vast stretches of the universe. The invention of telescopes in the 17th century revealed the first details of the Moon and the planets in our solar system. Four hundred years later, space-based observatories such as NASA's Hubble and Kepler regularly capture amazing vistas of billions of galaxies millions of light years away. Despite these advances, astronomers have only been

  17. Environmental Molecular Sciences Laboratory (EMSL) | U.S. DOE Office of

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science (SC) Environmental Molecular Sciences Laboratory (EMSL) Biological and Environmental Research (BER) BER Home About Research Facilities User Facilities Atmospheric Radiation Measurement Climate Research Facility (ARM) Environmental Molecular Sciences Laboratory (EMSL) Joint Genome Institute (JGI) Science Highlights Benefits of BER Funding Opportunities Biological & Environmental Research Advisory Committee (BERAC) Community Resources Contact Information Biological and

  18. At Solar System's Edge, There be...Bubbles? - NERSC Science News...

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    are affected by material expelled from other stars in our corner of the Milky Way galaxy. Data sent from the Voyager spacecraft as they exit our solar system is informing new...

  19. Science, Technology, Engineering, and Mathematics (STEM) career attractiveness system dynamics modeling.

    SciTech Connect (OSTI)

    Kelic, Andjelka; Zagonel, Aldo A.

    2008-12-01

    A system dynamics model was developed in response to the apparent decline in STEM candidates in the United States and a pending shortage. The model explores the attractiveness of STEM and STEM careers focusing on employers and the workforce. Policies such as boosting STEM literacy, lifting the H-1B visa cap, limiting the offshoring of jobs, and maintaining training are explored as possible solutions. The system is complex, with many feedbacks and long time delays, so solutions that focus on a single point of the system are not effective and cannot solve the problem. A deeper understanding of parts of the system that have not been explored to date is necessary to find a workable solution.

  20. Evaluation of Routine Atmospheric Sounding Measurements using Unmanned Systems (ERASMUS) Science Plan

    SciTech Connect (OSTI)

    de Boer, G; Bland, G; Elston, J; Lawrence, D; Maslanik, J; Palo, S; Tschudi, M

    2015-12-01

    The use of unmanned aerial systems (UAS) is becoming increasingly popular for a variety of applications. One way in which these systems can provide revolutionary scientific information is through routine measurement of atmospheric conditions, particularly properties related to clouds, aerosols, and radiation. Improved understanding of these topics at high latitudes, in particular, has become very relevant because of observed decreases in ice and snow in polar regions.

  1. Compilation of Systems of Records | U.S. DOE Office of Science (SC)

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Compilation of Systems of Records Integrated Support Center (ISC) ISC Home About Services Freedom of Information Act (FOIA) Privacy Act Compilation of Systems of Records Energy Employees Occupational Illness Compensation Program Act (EEOICPA) How to Submit a Privacy Act Request Reference Links NEPA Documents Contact Information Integrated Support Center Roxanne Purucker U.S. Department of Energy 9800 S. Cass Avenue Argonne, IL 60439 P: (630) 252-2110 Kenneth Tarcza U.S. Department of Energy 200

  2. Pacific Northwest Laboratory annual report for 1993 to the DOE Office of Energy Research. Part 1: Biomedical Sciences

    SciTech Connect (OSTI)

    Lumetta, C.C.; Park, J.F.

    1994-03-01

    This report summarizes FY 1993 progress in biological and general life sciences research programs conducted for the Department of Energy`s Office of Health and Environmental REsearch (OHER) at Pacific Northwest Laboratory (PNL). This research provides knowledge of fundamental principles necessary to identify, understand, and anticipate the long-term health consequences of exposure to energy-related radiation and chemicals. The Biological Research section contains reports of studies using laboratory animals, in vitro cell systems, and molecular biological systems. This research includes studies of the impact of radiation, radionuclides, and chemicals on biological responses at all levels of biological organization. The General Life Sciences Research section reports research conducted for the OHER human genome program.

  3. Basic Research Needs for Advanced Nuclear Systems. Report of the Basic Energy Sciences Workshop on Basic Research Needs for Advanced Nuclear Energy Systems, July 31-August 3, 2006

    SciTech Connect (OSTI)

    Roberto, J.; Diaz de la Rubia, T.; Gibala, R.; Zinkle, S.; Miller, J.R.; Pimblott, S.; Burns, C.; Raymond, K.; Grimes, R.; Pasamehmetoglu, K.; Clark, S.; Ewing, R.; Wagner, A.; Yip, S.; Buchanan, M.; Crabtree, G.; Hemminger, J.; Poate, J.; Miller, J.C.; Edelstein, N.; Fitzsimmons, T.; Gruzalski, G.; Michaels, G.; Morss, L.; Peters, M.; Talamini, K.

    2006-10-01

    -ray sources, neutron sources, nanoscale science research centers, and supercomputers, offer the opportunity to transform and accelerate the fundamental materials and chemical sciences that underpin technology development for advanced nuclear energy systems. The fundamental challenge is to understand and control chemical and physical phenomena in multi-component systems from femto-seconds to millennia, at temperatures to 1000?C, and for radiation doses to hundreds of displacements per atom (dpa). This is a scientific challenge of enormous proportions, with broad implications in the materials science and chemistry of complex systems. New understanding is required for microstructural evolution and phase stability under relevant chemical and physical conditions, chemistry and structural evolution at interfaces, chemical behavior of actinide and fission-product solutions, and nuclear and thermomechanical phenomena in fuels and waste forms. First-principles approaches are needed to describe f-electron systems, design molecules for separations, and explain materials failure mechanisms. Nanoscale synthesis and characterization methods are needed to understand and design materials and interfaces with radiation, temperature, and corrosion resistance. Dynamical measurements are required to understand fundamental physical and chemical phenomena. New multiscale approaches are needed to integrate this knowledge into accurate models of relevant phenomena and complex systems across multiple length and time scales.

  4. Biological preconcentrator

    DOE Patents [OSTI]

    Manginell, Ronald P.; Bunker, Bruce C.; Huber, Dale L.

    2008-09-09

    A biological preconcentrator comprises a stimulus-responsive active film on a stimulus-producing microfabricated platform. The active film can comprise a thermally switchable polymer film that can be used to selectively absorb and desorb proteins from a protein mixture. The biological microfabricated platform can comprise a thin membrane suspended on a substrate with an integral resistive heater and/or thermoelectric cooler for thermal switching of the active polymer film disposed on the membrane. The active polymer film can comprise hydrogel-like polymers, such as poly(ethylene oxide) or poly(n-isopropylacrylamide), that are tethered to the membrane. The biological preconcentrator can be fabricated with semiconductor materials and technologies.

  5. Progress Report 2008: A Scalable and Extensible Earth System Model for Climate Change Science

    SciTech Connect (OSTI)

    Drake, John B; Worley, Patrick H; Hoffman, Forrest M; Jones, Phil

    2009-01-01

    This project employs multi-disciplinary teams to accelerate development of the Community Climate System Model (CCSM), based at the National Center for Atmospheric Research (NCAR). A consortium of eight Department of Energy (DOE) National Laboratories collaborate with NCAR and the NASA Global Modeling and Assimilation Office (GMAO). The laboratories are Argonne (ANL), Brookhaven (BNL) Los Alamos (LANL), Lawrence Berkeley (LBNL), Lawrence Livermore (LLNL), Oak Ridge (ORNL), Pacific Northwest (PNNL) and Sandia (SNL). The work plan focuses on scalablity for petascale computation and extensibility to a more comprehensive earth system model. Our stated goal is to support the DOE mission in climate change research by helping ... To determine the range of possible climate changes over the 21st century and beyond through simulations using a more accurate climate system model that includes the full range of human and natural climate feedbacks with increased realism and spatial resolution.

  6. Science Programs Organization | U.S. DOE Office of Science (SC)

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science Programs Organization Deputy Director for Science Programs Deputy Director Home Mission & Functions Deputy Director Biography Organization Organization Chart .pdf file (148KB) Advanced Scientific Computing Research Basic Energy Sciences Biological and Environmental Research Fusion Energy Sciences High Energy Physics Nuclear Physics Workforce Development for Teachers and Scientists Small Business Innovation Research and Small Business Technology Transfer Project Assessment Staff

  7. BER Science Network Requirements

    SciTech Connect (OSTI)

    Alapaty, Kiran; Allen, Ben; Bell, Greg; Benton, David; Brettin, Tom; Canon, Shane; Dart, Eli; Cotter, Steve; Crivelli, Silvia; Carlson, Rich; Dattoria, Vince; Desai, Narayan; Egan, Richard; Tierney, Brian; Goodwin, Ken; Gregurick, Susan; Hicks, Susan; Johnston, Bill; de Jong, Bert; Kleese van Dam, Kerstin; Livny, Miron; Markowitz, Victor; McGraw, Jim; McCord, Raymond; Oehmen, Chris; Regimbal, Kevin; Shipman, Galen; Strand, Gary; Flick, Jeff; Turnbull, Susan; Williams, Dean; Zurawski, Jason

    2010-11-01

    The Energy Sciences Network (ESnet) is the primary provider of network connectivity for the US Department of Energy Office of Science, the single largest supporter of basic research in the physical sciences in the United States. In support of the Office of Science programs, ESnet regularly updates and refreshes its understanding of the networking requirements of the instruments, facilities, scientists, and science programs that it serves. This focus has helped ESnet to be a highly successful enabler of scientific discovery for over 20 years. In April 2010 ESnet and the Office of Biological and Environmental Research, of the DOE Office of Science, organized a workshop to characterize the networking requirements of the science programs funded by BER. The requirements identified at the workshop are summarized and described in more detail in the case studies and the Findings section. A number of common themes emerged from the case studies and workshop discussions. One is that BER science, like many other disciplines, is becoming more and more distributed and collaborative in nature. Another common theme is that data set sizes are exploding. Climate Science in particular is on the verge of needing to manage exabytes of data, and Genomics is on the verge of a huge paradigm shift in the number of sites with sequencers and the amount of sequencer data being generated.

  8. High School Science Bowl | The Ames Laboratory

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    High School Science Bowl January 28, 2017 A Competition Like No Other The Iowa Regional High School Science Bowl is an opportunity for Iowa's top science and math students to face-off in an intense question and answer format where contestants are quizzed on their knowledge of math and a range of science disciplines including biology, chemistry, Earth and space science, physics and energy. Iowa's Regional competition is hosted by the U.S. Department of Energy's Ames Laboratory and Iowa State

  9. Science at ALCF | Argonne Leadership Computing Facility

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science at ALCF Allocation Program - Any - INCITE ALCC ESP Director's Discretionary Year Year -Year 2008 2009 2010 2011 2012 2013 2014 2015 2016 Research Domain - Any - Physics Mathematics Computer Science Chemistry Earth Science Energy Technologies Materials Science Engineering Biological Sciences Apply sort descending Advanced Electronic Structure Methods for Heterogeneous Catalysis and Separation of Heavy Metals Mark Gordon, Iowa State University ESP 2015 Chemistry Weak ignition behind a

  10. Science at ALCF | Argonne Leadership Computing Facility

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science at ALCF Allocation Program - Any - INCITE ALCC ESP Director's Discretionary Year Year -Year 2008 2009 2010 2011 2012 2013 2014 2015 2016 Research Domain - Any - Physics Mathematics Computer Science Chemistry Earth Science Energy Technologies Materials Science Engineering Biological Sciences Apply sort descending An example of a Category 5 hurricane simulated by the CESM at 13 km resolution Accelerated Climate Modeling for Energy Mark Taylor, Sandia National Laboratories INCITE 2016 100

  11. (Biological dosimetry)

    SciTech Connect (OSTI)

    Preston, R.J.

    1990-12-17

    The traveler attended the 1st International Conference on Biological Dosimetry in Madrid, Spain. This conference was organized to provide information to a general audience of biologists, physicists, radiotherapists, industrial hygiene personnel and individuals from related fields on the current ability of cytogenetic analysis to provide estimates of radiation dose in cases of occupational or environmental exposure. There is a growing interest in Spain in biological dosimetry because of the increased use of radiation sources for medical and occupational uses, and with this the anticipated and actual increase in numbers of overexposure. The traveler delivered the introductory lecture on Biological Dosimetry: Mechanistic Concepts'' that was intended to provide a framework by which the more applied lectures could be interpreted in a mechanistic way. A second component of the trip was to provide advice with regard to several recent cases of overexposure that had been or were being assessed by the Radiopathology and Radiotherapy Department of the Hospital General Gregorio Maranon'' in Madrid. The traveler had provided information on several of these, and had analyzed cells from some exposed or purportedly exposed individuals. The members of the biological dosimetry group were referred to individuals at REACTS at Oak Ridge Associated Universities for advice on follow-up treatment.

  12. Earth Systems Questions in Experimental Climate Change Science: Pressing Questions and Necessary Facilities

    SciTech Connect (OSTI)

    Osmond, B.

    2002-05-20

    Sixty-four scientists from universities, national laboratories, and other research institutions worldwide met to evaluate the feasibility and potential of the Biosphere2 Laboratory (B2L) as an inclusive multi-user scientific facility (i.e., a facility open to researchers from all institutions, according to agreed principles of access) for earth system studies and engineering research, education, and training relevant to the mission of the United States Department of Energy (DOE).

  13. Life Sciences Division progress report for CYs 1997-1998 [Oak Ridge National Laboratory

    SciTech Connect (OSTI)

    Mann, Reinhold C.

    1999-06-01

    This is the first formal progress report issued by the ORNL Life Sciences Division. It covers the period from February 1997 through December 1998, which has been critical in the formation of our new division. The legacy of 50 years of excellence in biological research at ORNL has been an important driver for everyone in the division to do their part so that this new research division can realize the potential it has to make seminal contributions to the life sciences for years to come. This reporting period is characterized by intense assessment and planning efforts. They included thorough scrutiny of our strengths and weaknesses, analyses of our situation with respect to comparative research organizations, and identification of major thrust areas leading to core research efforts that take advantage of our special facilities and expertise. Our goal is to develop significant research and development (R&D) programs in selected important areas to which we can make significant contributions by combining our distinctive expertise and resources in the biological sciences with those in the physical, engineering, and computational sciences. Significant facilities in mouse genomics, mass spectrometry, neutron science, bioanalytical technologies, and high performance computing are critical to the success of our programs. Research and development efforts in the division are organized in six sections. These cluster into two broad areas of R&D: systems biology and technology applications. The systems biology part of the division encompasses our core biological research programs. It includes the Mammalian Genetics and Development Section, the Biochemistry and Biophysics Section, and the Computational Biosciences Section. The technology applications part of the division encompasses the Assessment Technology Section, the Environmental Technology Section, and the Toxicology and Risk Analysis Section. These sections are the stewards of the division's core competencies. The common

  14. Biological Mass Spectrometry and Shotgun Proteomics of Microbial Systems: Methods for studying microbial physiology from isolates to environmental communities

    SciTech Connect (OSTI)

    Dill, Brian; Young, Jacque C; Carey, Patricia A; Verberkmoes, Nathan C

    2010-01-01

    Microbial ecology is currently experiencing a renaissance spurred by the rapid development of molecular techniques and omics technologies in particular. As never before, these tools have allowed researchers in the field to produce a massive amount of information through in situ measurements and analysis of natural microbial communities, both vital approaches to the goal of unraveling the interactions of microbes with their environment and with one another. While genomics can provide information regarding the genetic potential of microbes, proteomics characterizes the primary end-stage product, proteins, thus conveying functional information concerning microbial activity. Advances in mass spectrometry instrumentation and methodologies, along with bioinformatic approaches, have brought this analytic chemistry technique to relevance in the biological realm due to its powerful applications in proteomics. Mass spectrometry-enabled proteomics, including bottom-up and top-down approaches, is capable of supplying a wealth of biologically-relevant information, from simple protein cataloging of the proteome of a microbial community to identifying post-translational modifications of individual proteins.

  15. Before the House Science and Technology Subcommittee on Energy and Environment

    Broader source: Energy.gov [DOE]

    Subject: DOE's Office of Science Research Applications By: Dr. Anna Palmisano, Associate Director Office of Biological and Environmental Research Office of Science

  16. SC In Your State | U.S. DOE Office of Science (SC)

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    ASCR Advanced Scientific Computing Research BER Biological and Environmental Research BES Basic Energy Sciences FES Fusion Energy Sciences HEP High Energy Physics NP ...

  17. Science Highlights

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Science Highlights Science Highlights Print Science Highlights Featured scientific research based on publications resulting from work done at the ALS. Highlights are nominated by management and beamline scientists for their scientific significance. Current highlights (2004-present), highlight archives (1995-2004), and Summary Slides of ALS Science Highlights are also available. Science Briefs Short reports on recent research submitted by ALS beamline scientists and users. Science Cafés Informal

  18. Materials Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Materials Science Materials Science National security depends on science and technology. The United States relies on Los Alamos National Laboratory for the best of both. No place on Earth pursues a broader array of world-class scientific endeavors. Materials Physics and Applications» Materials Science and Technology» Institute for Materials Science» Materials Science Rob Dickerson uses a state-of-the-art transmission electron microscope at the Electron Microscopy Laboratory managed by Los

  19. Accelerating Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Accelerating Science with the NERSC Burst Buffer Early User Program Wahid Bhimji , ... Early User Program, focused on real science applications and workflows that can ...

  20. Nuclear Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Nuclear Science Nuclear Science Experimental and theoretical nuclear research carried out at NERSC is driven by the quest for improving our understanding of the building blocks of...

  1. Computer Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Cite Seer Department of Energy provided open access science research citations in chemistry, physics, materials, engineering, and computer science IEEE Xplore Full text...

  2. Accelerator Science

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Accelerator Science Accelerator Science ReframAccelerator.jpg Particle accelerators are among the largest, most complex, and most important scientific instruments in the world....

  3. Science Gateways

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    About Science Gateways A science gateway is a web-based interface to access HPC computers ... perform shared computations, and generally interact with NERSC resources over the web. ...

  4. Invited Review Article: Advanced light microscopy for biological space research

    SciTech Connect (OSTI)

    De Vos, Winnok H.; Beghuin, Didier; Schwarz, Christian J.; Jones, David B.; Loon, Jack J. W. A. van

    2014-10-15

    As commercial space flights have become feasible and long-term extraterrestrial missions are planned, it is imperative that the impact of space travel and the space environment on human physiology be thoroughly characterized. Scrutinizing the effects of potentially detrimental factors such as ionizing radiation and microgravity at the cellular and tissue level demands adequate visualization technology. Advanced light microscopy (ALM) is the leading tool for non-destructive structural and functional investigation of static as well as dynamic biological systems. In recent years, technological developments and advances in photochemistry and genetic engineering have boosted all aspects of resolution, readout and throughput, rendering ALM ideally suited for biological space research. While various microscopy-based studies have addressed cellular response to space-related environmental stressors, biological endpoints have typically been determined only after the mission, leaving an experimental gap that is prone to bias results. An on-board, real-time microscopical monitoring device can bridge this gap. Breadboards and even fully operational microscope setups have been conceived, but they need to be rendered more compact and versatile. Most importantly, they must allow addressing the impact of gravity, or the lack thereof, on physiologically relevant biological systems in space and in ground-based simulations. In order to delineate the essential functionalities for such a system, we have reviewed the pending questions in space science, the relevant biological model systems, and the state-of-the art in ALM. Based on a rigorous trade-off, in which we recognize the relevance of multi-cellular systems and the cellular microenvironment, we propose a compact, but flexible concept for space-related cell biological research that is based on light sheet microscopy.

  5. Is sustainability science really a science?

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Is sustainability science really a science? Is sustainability science really a science? The team's work shows that although sustainability science has been growing explosively ...

  6. A Study to Determine the Biological Feasibility of a New Fish Tagging System : Annual Report 1990-1993.

    SciTech Connect (OSTI)

    Prentice, Earl F.; Maynard, D.J.; Downing, S.L. (and others)

    1994-01-01

    In 1983, the National Marine Fisheries Service (NMFS) began a multiyear cooperative research program with the Bonneville Power Administration (BPA) to evaluate a new miniaturized identification system that could be used with salmonids. The system is referred to as the passive-integrated-transponder (PIT) tagging and interrogation system. The program has focused on determining the effects of PIT tags on juvenile and adult salmonids, as well as the development and evaluation of tagging and interrogation methods. Earlier results of the program have been reported in annual reports and journal articles cited in this report. This report covers the work per formed from 1990 through 1993. For convenience, the report is divided into three sections: (1) Interrogation and separation systems at Columbia River Basin dams; (2) Systems development and evaluation; and (3) Information and technology transfer.

  7. Center for Nanophase Materials Sciences - Newsletter January...

    Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

    Center for Nanophase Materials Sciences and Panos Datskos of ORNL Measurement Science and Systems Engineering Division The technology, based on nonlinear nanomechanical resonators,...

  8. DOE Science Showcase - Atmospheric Radiation Measurement | OSTI...

    Office of Scientific and Technical Information (OSTI)

    program to collect and make available these data to the global climate science community. ... The ARM scientific infrastructure helps to advance Earth systems science. Related Research ...

  9. Home | ScienceCinema

    Broader source: All U.S. Department of Energy (DOE) Office Webpages

    SCIENCECINEMA Toggle Navigation Home About ScienceCinema FAQ Contact Us ScienceCinema Database Searchable Videos Showcasing DOE Research Search DOE ScienceCinema for Multimedia Find + Fielded Search Audio Search × Fielded Search Title: Description/Abstract: Bibliographic Data: Author/Speaker: Name Name ORCID Media Type: All Audio Video Subject: Identifier Numbers: Media Source: All DOE CERN Research Org.: Sponsoring Org.: Publication Date: Publication Date Until to System Entry Date:

  10. Biomolecular Science (Fact Sheet)

    SciTech Connect (OSTI)

    Not Available

    2012-04-01

    A brief fact sheet about NREL Photobiology and Biomolecular Science. The research goal of NREL's Biomolecular Science is to enable cost-competitive advanced lignocellulosic biofuels production by understanding the science critical for overcoming biomass recalcitrance and developing new product and product intermediate pathways. NREL's Photobiology focuses on understanding the capture of solar energy in photosynthetic systems and its use in converting carbon dioxide and water directly into hydrogen and advanced biofuels.