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  1. Joint Genome Institute Progress Report 2002-2005

    SciTech Connect (OSTI)

    Gilbert, David

    2005-10-03

    Progress report covering activities at the DOE-Joint Genome Institute in Walnut Creek, California for the period 2002-2005.

  2. 11th Annual Energy Department Joint Genome Institute Genomics of Energy & Environment Meeting

    Broader source: Energy.gov [DOE]

    The 11th Annual DOE Joint Genome Institute Genomics of Energy & Environment Meeting will be held March 21–25, 2016 in Walnut Creek, California. The meeting will gather together experts and researchers working in energy and environmental genomics and synthetic biology, and it will have a special focus on the work done at the DOE Joint Genome Institute. Bioenergy Technologies Office Technology Manager Daniel Fishman will be in attendance.

  3. 11th Annual DOE Joint Genome Institute Genomics of Energy & Environment Meeting

    Broader source: Energy.gov [DOE]

    The 11th Annual DOE Joint Genome Institute Genomics of Energy & Environment Meeting will be held March 21–25, 2016 in Walnut Creek, California. The meeting will gather together experts and researchers working in energy and environmental genomics and synthetic biology, and it will have a special focus on the work done at the DOE Joint Genome Institute. Bioenergy Technologies Office Technology Manager Daniel Fishman will be in attendance.

  4. Introduction to Using NERSC for the Joint Genome Institute

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

    NERSC Introduction to Using NERSC for the Joint Genome Institute May 2, 2011 jgi logo sm NERSC Training Event 1:00-5:00 p.m. PDT May 2, 2011 Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA Introduction to Using NERSC Richard Gerber, NERSC User Services Group Shane Canon, NERSC Technology Integration Group This half-day training will enable new users from the Joint Genome Institute to get connected and running jobs at NERSC. We will cover NERSC computational and storage systems,

  5. 11th Annual Energy Department Joint Genome Institute Genomics...

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

    11th Annual Energy Department Joint Genome Institute Genomics of Energy & Environment Meeting 11th Annual Energy Department Joint Genome Institute Genomics of Energy & Environment ...

  6. Department of Energy Joint Genome Institute, Walnut Creek, CA...

    Office of Scientific and Technical Information (OSTI)

    plant roots is a ubiquitous mutualism that plays key roles in plant nutrition, soil health, and carbon cycling. The symbiosis evolved repeatedly and independently as multiple...

  7. Accelerating Biofuel Feedstock Crop Improvement with Miscanthus Genomics (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Swaminathan, Kankshita

    2014-03-20

    Kankshita Swaminathan of the Energy Biosciences Institute speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  8. Microbial Genomics Data from the DOE Joint Genome Institute (JGI)

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    As of March 2008, The Joint Genome Institute has released 296 Prokaryotic microbial sites, with 216 in finished status.

  9. DOE Joint Genome Institute 2008 Progress Report

    SciTech Connect (OSTI)

    Gilbert, David

    2009-03-12

    While initially a virtual institute, the driving force behind the creation of the DOE Joint Genome Institute in Walnut Creek, California in the Fall of 1999 was the Department of Energy's commitment to sequencing the human genome. With the publication in 2004 of a trio of manuscripts describing the finished 'DOE Human Chromosomes', the Institute successfully completed its human genome mission. In the time between the creation of the Department of Energy Joint Genome Institute (DOE JGI) and completion of the Human Genome Project, sequencing and its role in biology spread to fields extending far beyond what could be imagined when the Human Genome Project first began. Accordingly, the targets of the DOE JGI's sequencing activities changed, moving from a single human genome to the genomes of large numbers of microbes, plants, and other organisms, and the community of users of DOE JGI data similarly expanded and diversified. Transitioning into operating as a user facility, the DOE JGI modeled itself after other DOE user facilities, such as synchrotron light sources and supercomputer facilities, empowering the science of large numbers of investigators working in areas of relevance to energy and the environment. The JGI's approach to being a user facility is based on the concept that by focusing state-of-the-art sequencing and analysis capabilities on the best peer-reviewed ideas drawn from a broad community of scientists, the DOE JGI will effectively encourage creative approaches to DOE mission areas and produce important science. This clearly has occurred, only partially reflected in the fact that the DOE JGI has played a major role in more than 45 papers published in just the past three years alone in Nature and Science. The involvement of a large and engaged community of users working on important problems has helped maximize the impact of JGI science. A seismic technological change is presently underway at the JGI. The Sanger capillary-based sequencing process that dominated how sequencing was done in the last decade is being replaced by a variety of new processes and sequencing instruments. The JGI, with an increasing number of next-generation sequencers, whose throughput is 100- to 1,000-fold greater than the Sanger capillary-based sequencers, is increasingly focused in new directions on projects of scale and complexity not previously attempted. These new directions for the JGI come, in part, from the 2008 National Research Council report on the goals of the National Plant Genome Initiative as well as the 2007 National Research Council report on the New Science of Metagenomics. Both reports outline a crucial need for systematic large-scale surveys of the plant and microbial components of the biosphere as well as an increasing need for large-scale analysis capabilities to meet the challenge of converting sequence data into knowledge. The JGI is extensively discussed in both reports as vital to progress in these fields of major national interest. JGI's future plan for plants and microbes includes a systematic approach for investigation of these organisms at a scale requiring the special capabilities of the JGI to generate, manage, and analyze the datasets. JGI will generate and provide not only community access to these plant and microbial datasets, but also the tools for analyzing them. These activities will produce essential knowledge that will be needed if we are to be able to respond to the world's energy and environmental challenges. As the JGI Plant and Microbial programs advance, the JGI as a user facility is also evolving. The Institute has been highly successful in bending its technical and analytical skills to help users solve large complex problems of major importance, and that effort will continue unabated. The JGI will increasingly move from a central focus on 'one-off' user projects coming from small user communities to much larger scale projects driven by systematic and problem-focused approaches to selection of sequencing targets. Entire communities of scientists working in a particular field, such as feedstock improvement or biomass degradation, will be users of this information. Despite this new emphasis, an investigator-initiated user program will remain. This program in the future will replace small projects that increasingly can be accomplished without the involvement of JGI, with imaginative large-scale 'Grand Challenge' projects of foundational relevance to energy and the environment that require a new scale of sequencing and analysis capabilities. Close interactions with the DOE Bioenergy Research Centers, and with other DOE institutions that may follow, will also play a major role in shaping aspects of how the JGI operates as a user facility. Based on increased availability of high-throughput sequencing, the JGI will increasingly provide to users, in addition to DNA sequencing, an array of both pre- and post-sequencing value-added capabilities to accelerate their science.

  10. Metagenomic and Metaproteomic Analyses of Symbioses between Bacteria and Gutless Marine Worms (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Dubilier, Nicole

    2014-03-19

    Nicole Dubilier of the Max Planck Institute speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  11. Joint Genome Institute's Automation Approach and History

    SciTech Connect (OSTI)

    Roberts, Simon

    2006-07-05

    Department of Energy/Joint Genome Institute (DOE/JGI) collaborates with DOE national laboratories and community users, to advance genome science in support of the DOE missions of clean bio-energy, carbon cycling, and bioremediation.

  12. Today, DOE's Joint Genome Institute (a

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

    1 6/1/2011 6.2 Decoding the Human Genome Scientists are close to completing the genetic blueprint for a human being, thanks in large part to Office of Science funding. DOE was the first federal agency to propose that the human genome could be sequenced, and it launched the Human Genome Project in 1986. Today, DOE's Joint Genome Institute (a consortium of three laboratories) is one of the 16 institutions that constitute the Human Genome Sequencing Consortium, which recently announced completion

  13. Genomics of Climate Resilience (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Bermingham, Eldredge

    2013-03-27

    Eldredge Bermingham of the Smithsonian Tropical Research Institute-Panama on "Genomics of climate resilience" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  14. New Approaches and Technologies to Sequence de novo Plant reference Genomes (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Schmutz, Jeremy [HudsonAlpha Institute

    2013-03-01

    Jeremy Schmutz of the HudsonAlpha Institute for Biotechnology on "New approaches and technologies to sequence de novo plant reference genomes" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  15. Illumina Production Sequencing at the DOE Joint Genome Institute - Workflow and Optimizations

    SciTech Connect (OSTI)

    Tarver, Angela; Fern, Alison; Diego, Matthew San; Kennedy, Megan; Zane, Matthew; Daum, Christopher; Hack, Christopher; Tang, Eric; Deshpande, Shweta; Cheng, Jan-Fang; Roberts, Simon; Alexandre, Melanie; Harmon-Smith, Miranda; Lucas, Susan

    2010-06-18

    The U.S. Department of Energy (DOE) Joint Genome Institute?s (JGI) Production Sequencing group is committed to the generation of high-quality genomic DNA sequence to support the DOE mission areas of renewable energy generation, global carbon management, and environmental characterization and clean-up. Within the JGI?s Production Sequencing group, the Illumina Genome Analyzer pipeline has been established as one of three sequencing platforms, along with Roche/454 and ABI/Sanger. Optimization of the Illumina pipeline has been ongoing with the aim of continual process improvement of the laboratory workflow. These process improvement projects are being led by the JGI?s Process Optimization, Sequencing Technologies, Instrumentation& Engineering, and the New Technology Production groups. Primary focus has been on improving the procedural ergonomics and the technicians? operating environment, reducing manually intensive technician operations with different tools, reducing associated production costs, and improving the overall process and generated sequence quality. The U.S. DOE JGI was established in 1997 in Walnut Creek, CA, to unite the expertise and resources of five national laboratories? Lawrence Berkeley, Lawrence Livermore, Los Alamos, Oak Ridge, and Pacific Northwest ? along with HudsonAlpha Institute for Biotechnology. JGI is operated by the University of California for the U.S. DOE.

  16. Introduction to Using NERSC for the Joint Genome Institute

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

    NERSC Introduction to Using NERSC for the Joint Genome Institute May 2, 2011 jgi logo sm NERSC Training Event 1:00-5:00 p.m. PDT May 2, 2011 Joint Genome Institute, 2800 Mitchell...

  17. Improving biofuel feedstocks by modifying xylan biosynthesis (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Lau, Jane

    2013-03-01

    Jane Lau of the Joint BioEnergy Institute on "Improving biofuel feedstocks by modifying xylan biosynthesis" at the 8th Annual Genomics of Energy & Environment Meeting on March 28, 2013 in Walnut Creek, Calif.

  18. Final Technical Report of Institute for Environmental Genomics of

    Office of Scientific and Technical Information (OSTI)

    Final Technical Report of Institute for Environmental Genomics of University of Oklahoma (DE-FG02-07ER64383) Project Title: Integrated Genome-Based Studies of Shewanella Ecophysiology Contract Number: DE-FG02-07ER64383 PI: Jizhong Zhou, Professor and Director, Institute for Environmental Genomics, The University of Oklahoma, Norman, OK73019 As a part of the Shewanella Federation project, we have used integrated genomic, proteomic and computational technologies to study various aspects of energy

  19. 2013 Progress Report -- DOE Joint Genome Institute (Program Document) |

    Office of Scientific and Technical Information (OSTI)

    SciTech Connect Program Document: 2013 Progress Report -- DOE Joint Genome Institute Citation Details In-Document Search Title: 2013 Progress Report -- DOE Joint Genome Institute In October 2012, we introduced a 10-Year Strategic Vision [http://bit.ly/JGI-Vision] for the Institute. A central focus of this Strategic Vision is to bridge the gap between sequenced genomes and an understanding of biological functions at the organism and ecosystem level. This involves the continued massive-scale

  20. Eukaryotic Genomics Data from the DOE Joint Genome Institute (JGI)

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    From the JGI webportal users can choose Eukaryotic genomes from a photo list, access the JGI FTP directories to download data files, use the Tree of Life navigation tool, or choose a genome and go directly to a website specific to that one genome. The individual sites include direct access to download sequence files, BLAST, search, view and navigate the genomic annotations.

  1. Walnut Capital Acquisitions | Open Energy Information

    Open Energy Info (EERE)

    Walnut Capital Acquisitions Jump to: navigation, search Name: Walnut Capital Acquisitions Place: Pittsburgh, Pennsylvania Zip: 15232 Product: Walnut Capital Acquisitions is the...

  2. Genomics at the Ontario Institute for Cancer Research

    SciTech Connect (OSTI)

    Ali, Johar

    2010-06-02

    Johar Ali of the Ontario Institute for Cancer Research discusses genomics and next-gen applications at the OICR on June 2, 2010 at the "Sequencing, Finishing, Analysis in the Future" meeting in Santa Fe, NM

  3. 2013 Progress Report -- DOE Joint Genome Institute None 59 BASIC...

    Office of Scientific and Technical Information (OSTI)

    bit.lyJGI-Vision for the Institute. A central focus of this Strategic Vision is to bridge the gap between sequenced genomes and an understanding of biological functions at the...

  4. Rooted in Wonder: Joint Genome Institute Study Reveals Amazing World

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

    Underfoot | Department of Energy Rooted in Wonder: Joint Genome Institute Study Reveals Amazing World Underfoot Rooted in Wonder: Joint Genome Institute Study Reveals Amazing World Underfoot August 13, 2012 - 2:33pm Addthis By developing a better understanding of the microbes that affect the growth of other plants (crops like corn or wheat) researchers may be able to improve their growth -- or provide better care for them in times of drought. By developing a better understanding of the

  5. Genome Engineering

    SciTech Connect (OSTI)

    Voytas, Dan

    2014-03-20

    Dan Voytas, University of Minnesota, at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif

  6. The genome portal of the Department of Energy Joint Genome Institute: 2014 updates

    SciTech Connect (OSTI)

    Nordberg, Henrik; Cantor, Michael; Dushekyo, Serge; Hua, Susan; Poliakov, Alexander; Shabalov, Igor; Smirnova, Tatyana; Grigoriev, Igor V.; Dubchak, Inna

    2013-10-10

    The U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a national user facility, serves the diverse scientific community by providing integrated high-throughput sequencing and computational analysis to enable system-based scientific approaches in support of DOE missions related to clean energy generation and environmental characterization. The JGI Genome Portal (http://genome.jgi.doe.gov) provides unified access to all JGI genomic databases and analytical tools. The JGI maintains extensive data management systems and specialized analytical capabilities to manage and interpret complex genomic data. A user can search, download and explore multiple data sets available for all DOE JGI sequencing projects including their status, assemblies and annotations of sequenced genomes. Here we describe major updates of the Genome Portal in the past 2 years with a specific emphasis on efficient handling of the rapidly growing amount of diverse genomic data accumulated in JGI.

  7. Integrated Microbial Genomes (IMG) System from the DOE Joint Genome Institute (JGI)

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    The integrated microbial genomes (IMG) system is a data management, analysis and annotation platform for all publicly available genomes. IMG contains both draft and complete JGI microbial genomes integrated with all other publicly available genomes from all three domains of life, together with a large number of plasmids and viruses. IMG provides tools and viewers for analyzing and annotating genomes, genes and functions, individually or in a comparative context. Since its first release in 2005, IMG's data content and analytical capabilities have been constantly expanded through quarterly releases. IMG is provided by the DOE-Joint Genome Institute (JGI) and is available from http://img.jgi.doe.gov. [Abstract from The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions; Victor M. Markowitz, Ernest Szeto, Krishna Palaniappan, Yuri Grechkin, Ken Chu, I-Min A. Chen, Inna Dubchak, Iain Anderson, Athanasios Lykidis, Konstantinos Mavromatis, Natalia N. Ivanova and Nikos C. Kyrpides; Nucleic Acids Research, 2008, Vol. 36. (Database Issue) See also the companion system, Integrated Microbial Genomes with Microbiome Samples.

  8. Closing Keynote Presentation on the Genomics of Energy and the Environment (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Benner, Stephen [Foundation for Applied Molecular Evolution, Westheimer Institute of Science and Technology] [Foundation for Applied Molecular Evolution, Westheimer Institute of Science and Technology

    2012-03-22

    Steve Benner, a distinguished chemist at the Foundation for Applied Molecular Evolution, Westheimer Institute of Science and Technology, provides the closing keynote address for the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  9. Closing Keynote Presentation on the Genomics of Energy and the Environment (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Benner, Stephen [Foundation for Applied Molecular Evolution, Westheimer Institute of Science and Technology

    2013-01-22

    Steve Benner, a distinguished chemist at the Foundation for Applied Molecular Evolution, Westheimer Institute of Science and Technology, provides the closing keynote address for the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  10. Demand Management Institute (DMI) | Open Energy Information

    Open Energy Info (EERE)

    Demand Management Institute (DMI) Jump to: navigation, search Name: Demand Management Institute (DMI) Address: 35 Walnut Street Place: Wellesley, Massachusetts Zip: 02481 Region:...

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

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

    Joint Genome Institute (JGI) 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 Environmental Research U.S. Department of Energy

  12. DOE - Office of Legacy Management -- Dow Chemical Co - Walnut...

    Office of Legacy Management (LM)

    Walnut Creek - CA 02 FUSRAP Considered Sites Site: Dow Chemical Co. - Walnut Creek (CA.02 ... Also see Documents Related to Dow Chemical Co. - Walnut Creek CA.02-1 - DOE Report; FUSRAP ...

  13. Cassava Genomics: can genomic technology benefit smallholder farmers in Africa? (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Rounsley, Steve

    2014-03-20

    Steve Rounsley of the University of Arizona speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  14. Diamond Walnut Biomass Facility | Open Energy Information

    Open Energy Info (EERE)

    NEEDS 2006 Database Retrieved from "http:en.openei.orgwindex.php?titleDiamondWalnutBiomassFacility&oldid397401" Feedback Contact needs updating Image needs updating...

  15. 2012 U.S. Department of Energy: Joint Genome Institute: Progress Report

    SciTech Connect (OSTI)

    Gilbert, David

    2013-01-01

    The mission of the U.S. Department of Energy Joint Genome Institute (DOE JGI) is to serve the diverse scientific community as a user facility, enabling the application of large-scale genomics and analysis of plants, microbes, and communities of microbes to address the DOE mission goals in bioenergy and the environment. The DOE JGI's sequencing efforts fall under the Eukaryote Super Program, which includes the Plant and Fungal Genomics Programs; and the Prokaryote Super Program, which includes the Microbial Genomics and Metagenomics Programs. In 2012, several projects made news for their contributions to energy and environment research.

  16. A GSC Global Genome Census (GSC8 Meeting)

    ScienceCinema (OSTI)

    Kyrpides, Nikos [DOE JGI

    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. Nikos Kyrpides of the DOE Joint Genome Institute discusses the notion of a global genome census at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009.

  17. Critical Materials Institute uses the Materials Genome approach...

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

    The Critical Materials Institute, led by the U.S. Department of Energy's (DOE's) Ames ... When the market price of rare earth elements like europium and terbium went through the ...

  18. Rich Genomics Resources Facilitate Progress in Understanding Wood Formation

    SciTech Connect (OSTI)

    Tuskan, Gerald [Oak Ridge National Laboratory

    2014-03-20

    Gerald Tuskan, Oak Ridge National Laboratory, at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif

  19. Whole Genome Sequencing of Rice Mutants to identify Genes Controlling Cell Wall Saccharification and Response to Biotic Stress (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Ronald, Pamela [UC Davis

    2014-03-20

    Pamela Ronald of the University of California Davis speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  20. Keynote Presentation: Genome Beat (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Zimmer, Carl [New York Times] [New York Times

    2012-03-20

    Carl Zimmer, a reporter for the New York Times, speaks on "The Genome Beat," the opening keynote presentation at the JGI User 7th Annual Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, Calif

  1. Keynote Presentation: Genome Beat (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Zimmer, Carl [New York Times

    2013-01-22

    Carl Zimmer, a reporter for the New York Times, speaks on "The Genome Beat," the opening keynote presentation at the JGI User 7th Annual Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, Calif

  2. Genomic Speciation and Adaptation in Aquilegia (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Hodges, Scott [University of California, Santa Barbara

    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. Scott Hodges of the University of California, Santa Barbara gives a presentation on "Genomic Speciation and Adaptation in Aquilegia" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  3. Genomic Speciation and Adaptation in Aquilegia (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Hodges, Scott [University of California, Santa Barbara] [University of California, Santa Barbara

    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. Scott Hodges of the University of California, Santa Barbara gives a presentation on "Genomic Speciation and Adaptation in Aquilegia" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  4. Genomics of Extinct and Endangered Species (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Shuster, Stephen [Penn State University] [Penn State 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. Stephen Shuster of Penn State University gives a presentation on "Genomics of Extinct and Endangered Species" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  5. Genomics of Extinct and Endangered Species (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Shuster, Stephen [Penn State 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. Stephen Shuster of Penn State University gives a presentation on "Genomics of Extinct and Endangered Species" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  6. Genetic Control of Mosquitoes (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Matzen, Kelly

    2014-03-19

    Kelly Matzen of OXITEC speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  7. DOE Systems Biology Knowledgebase: KBase (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Arkin, Adam

    2014-03-20

    Adam Arkin from LBNL speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  8. Uncovering Signatures of Domestication Using Genomic Resequencing and Association Mapping of Common Bean

    SciTech Connect (OSTI)

    McClean, Phil [North Dakota State University

    2014-03-19

    Phil McClean, North Dakota State University, speaking at the 9th Annual Genomics of Energy & Environment Meeting on March 19, 2014 in Walnut Creek, Calif

  9. Using Genomics to Dissect Seed Development (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment Meeting)

    SciTech Connect (OSTI)

    Goldberg, Robert [UCLA] [UCLA

    2012-03-21

    Robert Goldberg of UCLA presents "Using Genomics to Dissect Seed Development" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  10. Entering the Era of Mega-genomics ( JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Schatz, Michael C [Cold Spring Harbor Laboratory] [Cold Spring Harbor Laboratory

    2012-03-21

    Michael Schatz from Cold Spring Harbor Laboratory on "Entering the Era of Mega-genomics" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif.

  11. The Sunflower Genome and its Evolution (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Rieseberg, Loren [University of British Columbia] [University of British Columbia

    2012-03-21

    Loren Rieseberg from the University of British Columbia on "The Sunflower Genome and its Evolution" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, California.

  12. Using Genomics to Dissect Seed Development (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment Meeting)

    ScienceCinema (OSTI)

    Goldberg, Robert [UCLA

    2013-01-22

    Robert Goldberg of UCLA presents "Using Genomics to Dissect Seed Development" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  13. Entering the Era of Mega-genomics ( JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Schatz, Michael C [Cold Spring Harbor Laboratory

    2013-01-15

    Michael Schatz from Cold Spring Harbor Laboratory on "Entering the Era of Mega-genomics" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif.

  14. The Sunflower Genome and its Evolution (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Rieseberg, Loren [University of British Columbia

    2013-01-15

    Loren Rieseberg from the University of British Columbia on "The Sunflower Genome and its Evolution" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, California.

  15. Development of High-Throughput Screens to Target SAM-I Riboswitches (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Hickey, Scott [UC Berkely

    2014-03-19

    Scott Hickey of the University of California Berkeley speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  16. Genomic and Systems Biology Analyses of Social Behavior or Evolutionary Genomic Analyses of Insect Society: Eat, Drink, and Be Scary (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Robinson, Gene

    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. Gene Robinson of the University of Illinois on "Genomic and Systems Biology Analyses of Social Behavior" at the 6th Annual Genomics of Energy & Environment Meeting on March 23, 2011

  17. Genomic and Systems Biology Analyses of Social Behavior or Evolutionary Genomic Analyses of Insect Society: Eat, Drink, and Be Scary (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Robinson, Gene

    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. Gene Robinson of the University of Illinois on "Genomic and Systems Biology Analyses of Social Behavior" at the 6th Annual Genomics of Energy & Environment Meeting on March 23, 2011

  18. Multi-kb Illumina reads Reveal Significant Strain Variation and Rare Organisms in Aquifer (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Sharon, Itai [UC Berkely

    2014-03-20

    Itai Sharon from the University of California at Berkely speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  19. Creating a Multi-functional Library of Grass Transcription Factors for the Energy Crop Model System Brachypodium Distachyon (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Coomey, Joshua [University of Massashusetts Amherst

    2014-03-20

    Joshua Coomey of the University of Massachusetts Amherst, speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  20. Single Cell Isotope Probing via Raman Microspectroscopy: A New Way for Functional Analyses of Microbes in Environmental and Medical Samples (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Berry, David

    2014-03-20

    David Berry, University of Vienna, at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  1. The Genomes and Metagenomes (GEM) Catalogue (first presentation) and The ISA-GCDML Workshop (second presentation) (GSC8 Meeting)

    ScienceCinema (OSTI)

    Field, Dawn [NERC Centre for Ecology and Hydrology]; Sansone, Susanna [EBI

    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. Dawn Field of the NERC Centre for Ecology & Hydrology briefly introduces the GEM Catalogue, followed by Susanna Sansone of the European Bioinformatics Institute who talks about the ISA-GCDML workshop at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009.

  2. AmeriFlux US-Wlr Walnut River Watershed (Smileyburg)

    SciTech Connect (OSTI)

    Cook, David; Coulter, Richard L.

    2016-01-01

    This is the AmeriFlux version of the carbon flux data for the site US-Wlr Walnut River Watershed (Smileyburg). Site Description - The Walnut River Watershed site rests on a C3/C4 mixed grassland, tallgrass prairie grazed by cattle. The land is owned by a local farmer and the land is leased on a year-to-year basis.

  3. The Genome of Selaginella: A Remnant of an Ancient Vascular Plant Lineage (JGI Seventh Annual User Meeting, 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Banks, Jody [Purdue University] [Purdue University

    2012-03-21

    Jody Banks from Purdue University on "The Genome of Selaginella, a Remnant of an Ancient Vascular Plant Lineage" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif.

  4. Genomic Analysis of Natural Variation for Seed and Plant Size in Maize ( JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Kaeppler, Shawn [University of Wisconsin, Madison] [University of Wisconsin, Madison

    2012-03-21

    Shawn Kaeppler from the University of Wisconsin-Madison on "Genomic Analysis of Biofuel Traits in Maize and Switchgrass" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif

  5. Uncovering Transcriptional Circuits in Arabidoposis by Functional Genomics (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Pruneda-Paz, Jose [UC San Diego

    2013-03-01

    Jose Pruneda-Paz of UC San Diego on "Uncovering Transcriptional Circuits in Arabidopsis by Functional Genomics" at the 8th Annual Genomics of Energy & Environment Meeting in Walnut Creek, Calif.

  6. The Challenges and Opportunities for Extending Plant Genomics to Climate (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Weston, David

    2013-03-01

    David Weston of Oak Ridge National Laboratory on "The challenges and opportunities for extending plant genomics to climate" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  7. The Genome of Selaginella: A Remnant of an Ancient Vascular Plant Lineage (JGI Seventh Annual User Meeting, 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Banks, Jody [Purdue University

    2013-01-22

    Jody Banks from Purdue University on "The Genome of Selaginella, a Remnant of an Ancient Vascular Plant Lineage" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif.

  8. Genomic Analysis of Natural Variation for Seed and Plant Size in Maize ( JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Kaeppler, Shawn [University of Wisconsin, Madison

    2013-01-15

    Shawn Kaeppler from the University of Wisconsin-Madison on "Genomic Analysis of Biofuel Traits in Maize and Switchgrass" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif

  9. Association Genetics of Populus trichocarpa or Resequencing in Populus: Towards Genome Wide Association Genetics (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Tuskan, Gerry

    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. Gerry Tuskan of Oak Ridge National Laboratory on "Resequencing in Populus: Towards Genome Wide Association Genetics" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  10. Association Genetics of Populus trichocarpa or Resequencing in Populus: Towards Genome Wide Association Genetics (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Tuskan, Gerry

    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. Gerry Tuskan of Oak Ridge National Laboratory on "Resequencing in Populus: Towards Genome Wide Association Genetics" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  11. Robotic Enrichment Processing of Roche 454 Titanium Emlusion PCR at the DOE Joint Genome Institute

    SciTech Connect (OSTI)

    Hamilton, Matthew; Wilson, Steven; Bauer, Diane; Miller, Don; Duffy-Wei, Kecia; Hammon, Nancy; Lucas, Susan; Pollard, Martin; Cheng, Jan-Fang

    2010-05-28

    Enrichment of emulsion PCR product is the most laborious and pipette-intensive step in the 454 Titanium process, posing the biggest obstacle for production-oriented scale up. The Joint Genome Institute has developed a pair of custom-made robots based on the Microlab Star liquid handling deck manufactured by Hamilton to mediate the complexity and ergonomic demands of the 454 enrichment process. The robot includes a custom built centrifuge, magnetic deck positions, as well as heating and cooling elements. At present processing eight emulsion cup samples in a single 2.5 hour run, these robots are capable of processing up to 24 emulsion cup samples. Sample emulsions are broken using the standard 454 breaking process and transferred from a pair of 50ml conical tubes to a single 2ml tube and loaded on the robot. The robot performs the enrichment protocol and produces beads in 2ml tubes ready for counting. The robot follows the Roche 454 enrichment protocol with slight exceptions to the manner in which it resuspends beads via pipette mixing rather than vortexing and a set number of null bead removal washes. The robotic process is broken down in similar discrete steps: First Melt and Neutralization, Enrichment Primer Annealing, Enrichment Bead Incubation, Null Bead Removal, Second Melt and Neutralization and Sequencing Primer Annealing. Data indicating our improvements in enrichment efficiency and total number of bases per run will also be shown.

  12. AmeriFlux US-Wkg Walnut Gulch Kendall Grasslands

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    Scott, Russell [United States Department of Agriculture

    2016-01-01

    This is the AmeriFlux version of the carbon flux data for the site US-Wkg Walnut Gulch Kendall Grasslands. Site Description - This site is located in a small, intensively-studied, experimental watershed within USDA-ARS's Walnut Gulch Experimental Watershed. Eddy covariance measurements of energy, water and CO2 fluxes began in the spring of 2004, though meteorological (including Bowen ratio) and hydrological measurements are available much further back.

  13. Standards in Genomic Science: An Open-Access Journal of the Genomic Standards Consortium (GSC8 Meeting)

    ScienceCinema (OSTI)

    Garrity, George

    2011-06-03

    George Garrity of Michigan State University talks about the GSC's open-access journal SIGS at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009.

  14. Illumina GA IIx& HiSeq 2000 Production Sequenccing and QC Analysis Pipelines at the DOE Joint Genome Institute

    SciTech Connect (OSTI)

    Daum, Christopher; Zane, Matthew; Han, James; Kennedy, Megan; San Diego, Matthew; Copeland, Alex; Li, Mingkun; Lucas, Susan

    2011-01-31

    The U.S. Department of Energy (DOE) Joint Genome Institute's (JGI) Production Sequencing group is committed to the generation of high-quality genomic DNA sequence to support the mission areas of renewable energy generation, global carbon management, and environmental characterization and clean-up. Within the JGI's Production Sequencing group, a robust Illumina Genome Analyzer and HiSeq pipeline has been established. Optimization of the sesequencer pipelines has been ongoing with the aim of continual process improvement of the laboratory workflow, reducing operational costs and project cycle times to increases ample throughput, and improving the overall quality of the sequence generated. A sequence QC analysis pipeline has been implemented to automatically generate read and assembly level quality metrics. The foremost of these optimization projects, along with sequencing and operational strategies, throughput numbers, and sequencing quality results will be presented.

  15. DOE Joint Genome Institute: A DOE Office of Science User Facility...

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

    Institute About Us Phone Book Contact Us Search Our Science Our DOE Mission Areas DOE Bioenergy Research Centers Science Programs Science Highlights Scientists at JGI Our Projects...

  16. Genome-Scale Discovery of Cell Wall Biosynthesis Genes in Populus (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Muchero, Wellington [Oak Ridge National Laboratory] [Oak Ridge National Laboratory

    2012-03-22

    Wellington Muchero from Oak Ridge National Laboratory gives a talk titled "Discovery of Cell Wall Biosynthesis Genes in Populus" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  17. Genome-Scale Discovery of Cell Wall Biosynthesis Genes in Populus (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Muchero, Wellington [Oak Ridge National Laboratory

    2013-01-22

    Wellington Muchero from Oak Ridge National Laboratory gives a talk titled "Discovery of Cell Wall Biosynthesis Genes in Populus" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  18. 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

  19. 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

  20. Algal Functional Annotation Tool from the DOE-UCLA Institute for Genomics and Proteomics

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    Lopez, David

    The Algal Functional Annotation Tool is a bioinformatics resource to visualize pathway maps, identify enriched biological terms, or convert gene identifiers to elucidate biological function in silico. These types of analysis have been catered to support lists of gene identifiers, such as those coming from transcriptome gene expression analysis. By analyzing the functional annotation of an interesting set of genes, common biological motifs may be elucidated and a first-pass analysis can point further research in the right direction. Currently, the following databases have been parsed, processed, and added to the tool: 1( Kyoto Encyclopedia of Genes and Genomes (KEGG) Pathways Database, 2) MetaCyc Encyclopedia of Metabolic Pathways, 3) Panther Pathways Database, 4) Reactome Pathways Database, 5) Gene Ontology, 6) MapMan Ontology, 7) KOG (Eukaryotic Clusters of Orthologous Groups), 5)Pfam, 6) InterPro.

  1. Ocean Viruses: Tiny entities with Global Impacts ( JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Sullivan, Matthew B [University of Arizona

    2013-01-15

    Matt Sullivan from the University of Arizona on "Ocean Viruses: Tiny Entities with Global Impacts" at the 7th Annual Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, Calif.

  2. Ocean Viruses: Tiny entities with Global Impacts ( JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Sullivan, Matthew B [University of Arizona] [University of Arizona

    2012-03-22

    Matt Sullivan from the University of Arizona on "Ocean Viruses: Tiny Entities with Global Impacts" at the 7th Annual Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, Calif.

  3. Part Mining for Synthetic Biology (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Voigt, Chris [MIT

    2013-03-01

    Chris Voigt from MIT delivers the opening keynote on "Part Mining for Synthetic Biology" at the 8th Annual Genomics of Energy & Environment Meeting on March 26, 2013 in Walnut Creek, Calif.

  4. Synthetic Biology and Bioenergy: Helping the Good Guy and Stopping the Bad (2014 DOE JGI Genomics of Energy & Environment Meeting)

    SciTech Connect (OSTI)

    Mercedes-Roca, Maria [Zamorano Panamerican Agriculture School

    2014-03-19

    Maria Mercedes-Roca of the Zamorano Panamerican Agriculture School speaks at the 9th Annual Genomics of Energy & Environment Meeting on March 20, 2014 in Walnut Creek, Calif.

  5. Regulation of Flowering in Brachypodium distachyon (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Amasino, Rick [University of Wisconsin

    2013-03-01

    Rick Amasino of the University of Wisconsin on "Regulation of Flowering in Brachypodium distachyon" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  6. Reprogramming Bacteria to Seek and Destroy Small Molecules (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Gallivan, Justin [Emory University] [Emory University

    2012-03-21

    Justin Gallivan, of Emory University presents a talk titled "Reprogramming Bacteria to Seek and Destroy Small Molecules" at the JGI User 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif

  7. PMI: Plant-Microbe Interfaces (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Schadt, Christopher [ORNL

    2013-03-01

    Christopher Schadt of Oak Ridge National Laboratory on "Plant-Microbe Interactions" in the context of poplar trees at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 held in Walnut Creek, Calif.

  8. Strange Tails: Viral Discovery and Deep Sequencing (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    DeRisi, Joe

    2013-03-01

    Joe DeRisi of UC San Francisco on "Strange Tails: Viral discovery & deep sequencing" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  9. Reprogramming Bacteria to Seek and Destroy Small Molecules (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Gallivan, Justin [Emory University

    2013-01-22

    Justin Gallivan, of Emory University presents a talk titled "Reprogramming Bacteria to Seek and Destroy Small Molecules" at the JGI User 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, Calif

  10. Genomics Encyclopedia of Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB): a resource for microsymbiont genomes (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Reeve, Wayne [Murdoch University

    2013-03-01

    Wayne Reeve of Murdoch University on "Genomics Encyclopedia of Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB): a resource for microsymbiont genomes" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  11. Assembly-driven metagenomics of a hypersaline microbial ecosystem (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Allen, Eric [Scripps and UCSD

    2013-03-01

    Eric Allen of Scripps and UC San Diego on "Assembly-driven metagenomics of a hypersaline microbial ecosystem" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  12. TARA OCEANS: A Global Analysis of Oceanic Plankton Ecosystems (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Karsenti, Eric [EMBL Heidelberg

    2013-03-01

    Eric Karsenti of EMBL delivers the closing keynote on "TARA OCEANS: A Global Analysis of Oceanic Plankton Ecosystems" at the 8th Annual Genomics of Energy & Environment Meeting on March 28, 2013 in Walnut Creek, Calif.

  13. Evolutionary Perspectives on Diversity of Lignocellulose Decay Mechanisms in Basidionycetes (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Hibbett, David [Clark University] [Clark University

    2012-03-21

    David Hibbett from Clark University on "Evolutionary Perspectives on Diversity of Lignocellulose Decay Mechanisms in Basidiomycetes" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, California.

  14. Synthetic Metagenomics: Converting digital information back to Biology (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Deutsch, Sam [DOE Joint Genome Institute

    2013-03-01

    Sam Deutsch of the DOE JGI on "Synthetic Metagenomics: Converting digital information back to Biology" at the 8th Annual Genomics of Energy & Environment Meeting in Walnut Creek, Calif.

  15. Delineating Molecular Interaction Mechanisms in an In Vitro Microbial-Plant Community (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Larsen, Peter [Argonne

    2013-03-01

    Peter Larsen of Argonne National Lab on "Delineating molecular interaction mechanisms in an in vitro microbial-plant community" at the 8th Annual Genomics of Energy & Environment Meeting in Walnut Creek, Calif.

  16. Modulation of Root Microbiome Community Assembly by the Plant Immune Response (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Lebeis, Sarah [University of North Carolina

    2013-03-01

    Sarah Lebeis of University of North Carolina on "Modulation of root microbiome community assembly by the plant immune response" at the 8th Annual Genomics of Energy & Environment Meeting on March 28, 2013 in Walnut Creek, Calif.

  17. Network as Discovery Instrument: A Quick-Start Guide (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Bell, Gregory [Berkeley Lab

    2013-03-01

    Gregory Bell of Berkeley Lab on "Network as discovery instrument: a Quick-Start Guide" at the 8th Annual Genomics of Energy & Environment Meeting in Walnut Creek, Calif.

  18. Genetic Regulation of Grass Biomass Accumulation and Biological Conversion Quality (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Hazen, Sam [University of Massachusetts

    2013-03-01

    Sam Hazen of the University of Massachusetts on "Genetic Regulation of Grass Biomass Accumulation and Biological Conversion Quality" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  19. Natural variation in Brachypodium disctachyon: Deep Sequencing of Highly Diverse Natural Accessions (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Gordon, Sean

    2013-03-01

    Sean Gordon of the USDA on "Natural variation in Brachypodium disctachyon: Deep Sequencing of Highly Diverse Natural Accessions" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  20. Succession of Phylogeny and Function During Plant Litter Decomposition (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Brodie, Eoin

    2013-03-01

    Eoin Brodie of Berkeley Lab on "Succession of phylogeny and function during plant litter decomposition" at the 8th Annual Genomics of Energy & Environment Meeting on March 27, 2013 in Walnut Creek, Calif.

  1. Metabolic Engineering of Clostridium thermocellum for Biofuel Production (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Guess, Adam

    2013-03-01

    Adam Guss of Oak Ridge National Lab on "Metabolic engineering of Clostridium thermocellum for biofuel production" at the 8th Annual Genomics of Energy & Environment Meeting on March 28, 2013 in Walnut Creek, Calif.

  2. Biodiversity Monitoring Using NGS Approaches on Unusual Substrates (2013 DOE JGI Genomics of Energy and Environment 8th Annual User Meeting)

    SciTech Connect (OSTI)

    Gilbert, Tom

    2013-03-01

    Tom Gilbert of the Natural History Museum of Denmark on "Biodiversity monitoring using NGS approaches on unusual substrates" at the 8th Annual Genomics of Energy & Environment Meeting in Walnut Creek, Calif.

  3. Evolutionary Perspectives on Diversity of Lignocellulose Decay Mechanisms in Basidionycetes (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Hibbett, David [Clark University

    2013-01-15

    David Hibbett from Clark University on "Evolutionary Perspectives on Diversity of Lignocellulose Decay Mechanisms in Basidiomycetes" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, California.

  4. Joint Genome Institute (JGI)

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

    data (Rumen HiSeq dataset). Investigators: Edward Rubin, Victor Markowitz, Shane Canon, Jeremy Brand, (LBNL) More Information: See the JGI web site Last edited: 2012-04-12...

  5. Applications of Genome-based Science in Shaping Citrus Industries of the World (JGI Seventh Annual User Meeting, 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Gmitter Jr, Fred [University of Florida

    2013-01-15

    Fred Gmitter from the University of Florida on "Applications of Genome-based Science in Shaping the Future of the World's Citrus Industries" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, California.

  6. Omics in the Arctic: Genome-enabled Contributions to Carbon Cycle Research in High-Latitude Ecosystems (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Wullschleger, Stan [ORNL

    2013-01-22

    Stan Wullschleger of Oak Ridge National Laboratory on "Omics in the Arctic: Genome-enabled Contributions to Carbon Cycle Research in High-Latitude Ecosystems" on March 22, 2012 at the 7th Annual Genomics of Energy & Environment Meeting in Walnut Creek, California.

  7. Omics in the Arctic: Genome-enabled Contributions to Carbon Cycle Research in High-Latitude Ecosystems (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Wullschleger, Stan [ORNL] [ORNL

    2012-03-22

    Stan Wullschleger of Oak Ridge National Laboratory on "Omics in the Arctic: Genome-enabled Contributions to Carbon Cycle Research in High-Latitude Ecosystems" on March 22, 2012 at the 7th Annual Genomics of Energy & Environment Meeting in Walnut Creek, California.

  8. Applications of Genome-based Science in Shaping Citrus Industries of the World (JGI Seventh Annual User Meeting, 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Gmitter Jr, Fred [University of Florida

    2012-03-21

    Fred Gmitter from the University of Florida on "Applications of Genome-based Science in Shaping the Future of the World's Citrus Industries" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, California.

  9. CyanoGEBA: A Better Understanding of Cynobacterial Diversity through Large-scale Genomics (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Shih, Patrick [Kerfeld Lab, UC Berkeley and JGI] [Kerfeld Lab, UC Berkeley and JGI

    2012-03-22

    Patrick Shih, representing both the University of California, Berkeley and JGI, gives a talk titled "CyanoGEBA: A Better Understanding of Cynobacterial Diversity through Large-scale Genomics" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  10. CyanoGEBA: A Better Understanding of Cynobacterial Diversity through Large-scale Genomics (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Shih, Patrick [Kerfeld Lab, UC Berkeley and JGI

    2013-01-22

    Patrick Shih, representing both the University of California, Berkeley and JGI, gives a talk titled "CyanoGEBA: A Better Understanding of Cynobacterial Diversity through Large-scale Genomics" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  11. Building America Whole-House Solutions for Existing Homes: 56th and Walnut:

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

    A Philly Gut Rehab Development | Department of Energy Building America Whole-House Solutions for Existing Homes: 56th and Walnut: A Philly Gut Rehab Development Building America Whole-House Solutions for Existing Homes: 56th and Walnut: A Philly Gut Rehab Development In this project, CPM partnered with the Consortium for Advanced Residential Buildings team to renovate 32 units in 11 three-story, historic, brick masonry urban buildings. PDF icon 56th and Walnut: A Philly Gut Rehab Development

  12. Understanding Historical Human Migration Patterns and Interbreeding (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Willerslev, Eske [University of Copenhagen] [University of Copenhagen

    2012-03-21

    Eske Willerslev from the University of Copenhagen on "Understanding Historical Human Migration Patterns and Interbreeding Using the Ancient Genomes of a Palaeo-Eskimo and an Aboriginal Australian" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, California.

  13. Understanding Historical Human Migration Patterns and Interbreeding (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Willerslev, Eske [University of Copenhagen

    2013-01-15

    Eske Willerslev from the University of Copenhagen on "Understanding Historical Human Migration Patterns and Interbreeding Using the Ancient Genomes of a Palaeo-Eskimo and an Aboriginal Australian" at the 7th Annual Genomics of Energy & Environment Meeting on March 21, 2012 in Walnut Creek, California.

  14. ZipperDB: Predictions of Fibril-forming Segments within Proteins Identified by the 3D Profile Method (from the UCLA-DOE Institute for Genomics and Proteomics)

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    Goldschmidt, L.; Teng, P. K.; Riek, R.; Eisenberg, D.

    ZipperDB contains predictions of fibril-forming segments within proteins identified by the 3D Profile Method. The UCLA-DOE Institute for Genomics and Proteomics has analyzed over 20,000 putative protein sequences for segments with high fibrillation propensity that could form a "steric zipper"ùtwo self-complementary beta sheets, giving rise to the spine of an amyloid fibril. The approach is unique in that structural information is used to evaluate the likelihood that a particular sequence can form fibrils. [copied with edits from http://www.doe-mbi.ucla.edu/]. In addition to searching the database, academic and non-profit users may also submit their protein sequences to the database.

  15. ZipperDB: Predictions of Fibril-forming Segments within Proteins Identified by the 3D Profile Method (from the UCLA-DOE Institute for Genomics and Proteomics)

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    Goldschmidt, L.; Teng, P. K.; Riek, R.; Eisenberg, D.

    ZipperDB contains predictions of fibril-forming segments within proteins identified by the 3D Profile Method. The UCLA-DOE Institute for Genomics and Proteomics has analyzed over 20,000 putative protein sequences for segments with high fibrillation propensity that could form a "steric zipper"two self-complementary beta sheets, giving rise to the spine of an amyloid fibril. The approach is unique in that structural information is used to evaluate the likelihood that a particular sequence can form fibrils. [copied with edits from http://www.doe-mbi.ucla.edu/]. In addition to searching the database, academic and non-profit users may also submit their protein sequences to the database.

  16. The Future of Microbial Genomics

    SciTech Connect (OSTI)

    Kyrpides, Nikos [Genome Biology group at the DOE Joint Genome Institute

    2010-06-02

    Nikos Kyrpides, head of the Genome Biology group at the DOE Joint Genome Institute discusses current challenges in the field of microbial genomics on June 2, 2010 at the "Sequencing, Finishing, Analysis in the Future" meeting in Santa Fe, NM

  17. DOE JGI Whole Genome Shotgun Sequencing, part 1

    ScienceCinema (OSTI)

    Miranda Harmon-Smith

    2010-09-01

    A Howard Hughes Medical Institute (HHMI) video production describing the Whole Genome Shotgun Sequencing process at the US Department of Energy's Joint Genome Institute (JGI).

  18. DOE JGI Whole Genome Shotgun Sequencing, part 2

    ScienceCinema (OSTI)

    Miranda Harmon-Smith

    2010-09-01

    A Howard Hughes Medical Institute (HHMI) video production describing the Whole Genome Shotgun Sequencing process at the US Department of Energy's Joint Genome Institute (JGI).

  19. DOE JGI Whole Genome Shotgun Sequencing, part 3

    ScienceCinema (OSTI)

    Miranda Harmon-Smith

    2010-09-01

    A Howard Hughes Medical Institute (HHMI) video production describing the Whole Genome Shotgun Sequencing process at the US Department of Energy's Joint Genome Institute (JGI).

  20. Getting to the Root of Things: Spatiotemporal Regulatory Networks (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Brady, Siobhan [UC Davis

    2013-01-22

    Siobhan Brady from University of California, Davis, gives a talk titled "tGetting to the Root of things: Spatiotemporal Regulatory Networks" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  1. Tapping the Molecular Potential of Microalgae to Produce Biomass (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Sayre, Richard [LANL] [LANL

    2012-03-22

    Richard Sayre, from Los Alamos National Laboratory, presents a talk titled "Tapping the Molecular Potential of Microalgae to Produce Biomass" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  2. Getting to the Root of Things: Spatiotemporal Regulatory Networks (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Brady, Siobhan [UC Davis] [UC Davis

    2012-03-22

    Siobhan Brady from University of California, Davis, gives a talk titled "tGetting to the Root of things: Spatiotemporal Regulatory Networks" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  3. Tapping the Molecular Potential of Microalgae to Produce Biomass (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Sayre, Richard [LANL

    2013-01-22

    Richard Sayre, from Los Alamos National Laboratory, presents a talk titled "Tapping the Molecular Potential of Microalgae to Produce Biomass" at the JGI 7th Annual Users Meeting: Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, California.

  4. In Situ Expression of Acidic and Thermophilic Carbohydrate Active Enzymes by Filamentous Fungi (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    SciTech Connect (OSTI)

    Mosier, Annika [Stanford University] [Stanford University

    2012-03-22

    Annika Mosier, graduate student from Stanford University presents a talk titled "In Situ Expression of Acidic and Thermophilic Carbohydrate Active Enzymes by Filamentous Fungi" at the JGI User 7th Annual Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, Calif

  5. 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.

  6. 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.

  7. In Situ Expression of Acidic and Thermophilic Carbohydrate Active Enzymes by Filamentous Fungi (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment)

    ScienceCinema (OSTI)

    Mosier, Annika [Stanford University

    2013-01-22

    Annika Mosier, graduate student from Stanford University presents a talk titled "In Situ Expression of Acidic and Thermophilic Carbohydrate Active Enzymes by Filamentous Fungi" at the JGI User 7th Annual Genomics of Energy & Environment Meeting on March 22, 2012 in Walnut Creek, Calif

  8. Fueling Future with Algal Genomics (Conference) | SciTech Connect

    Office of Scientific and Technical Information (OSTI)

    carbon cycle, and are prominent candidates for biofuel production. The US Department of Energy Joint Genome Institute (JGI) is leading the world in algal genome sequencing...

  9. 56th and Walnut: A Philly Gut Rehab Development; Philadelphia, Pennsylvania (Fact Sheet)

    SciTech Connect (OSTI)

    Not Available

    2013-11-01

    Load-bearing brick-masonry multifamily buildings are prevalent in urban areas across much of the Northeast and mid-Atlantic. In most instances, these buildings are un-insulated unless they have been renovated within the past two decades. Affordable housing capital budgets typically limit what can be spent and energy improvements often take a back seat to basic capital improvements such as interior finish upgrades and basic repairs. The Consortium for Advanced Residential Buildings (CARB) is researching cost effective solution packages for significant energy efficiency and indoor air-quality improvements in these urban buildings. To explore how these low-cost retrofits can effectively integrate energy efficiency upgrades, CARB partnered with Columbus Property Management and Development, Inc. on a community-scale gut rehabilitation project located at 56th Street and Walnut Street in Philadelphia, consisting of 32 units in eleven 3-story buildings. These buildings were built in the early 1900s using stone foundations and solid brick-masonry walls. They were renovated in the 1990s to have interior light gauge metal framing with R-13 batt in the above-grade walls, induced-draft furnaces, and central air conditioning.

  10. Financial Institutions

    Broader source: Energy.gov [DOE]

    A lending program begins with a financial institution that procures the funds they lend from a number of other sources.

  11. Engineering Institute

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

    Institute Engineering Institute Multidisciplinary engineering research that integrates advanced modeling and simulations, novel sensing systems and new developments in information technology. May 14, 2013 Los Alamos Research Park Los Alamos Research Park, the home of Engineering Institute Contact Institute Director Charles Farrar (505) 665-0860 Email UCSD EI Director Michael Todd (858) 534-5951 Executive Administrator Ellie Vigil (505) 667-2818 Email Administrative Assistant Rebecca Duran (505)

  12. Seaborg Institute

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

    Institute Seaborg Institute The institute provides a primary mechanism for fostering cooperation and collaboration in actinide science among the national laboratories, university campuses, and the national and international actinide science community. Contact Director Albert Migliori (505) 663-5627 Email Deputy Director Franz Freibert (505) 667-6879 Email Professional Staff Assistant Susan Ramsay (505) 665-0858 Email actinide The Seaborg Institute at Los Alamos integrates research programs,

  13. Engineering Institute

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

    upon completion of their graduate degrees Over the last seven years, 150 students from 50 academic institutions have participated in the summer school and sixteen such TSM's have...

  14. Joint BioEnergy Institute (Other) | SciTech Connect

    Office of Scientific and Technical Information (OSTI)

    JOINT BIOENERGY INSTITUTE; JBEI; GENOMICS; SYSTEMS BIOLOGY; SUGAR; FUEL SYNTHESIS; SWITCH GRASS Word Cloud More Like This Multimedia File size NAView Multimedia View Multimedia

  15. Engineering Institute

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

    EI Software Download Request EI Software Download Request Contact Institute Director Charles Farrar (505) 663-5330 Email UCSD EI Director Michael Todd (858) 534-5951 Executive Administrator Ellie Vigil (505) 667-2818 Email Administrative Assistant Rebecca Duran (505) 665-8899 Email Software Download and Data Sets First name * Last name * Email address * Institution * Software & Data Set Selection (Select one or more) SHMTools Software (0.20.0 Beta) mFUSE Interface (0.2.0 Beta) Datasets

  16. Quantum Institute

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

    Quantum Institute Quantum Institute A new research frontier awaits! Our door is open and we thrive on mutually beneficial partnerships, collaborations that drive innovations and new technologies. Contact Leader Malcolm Boshier (505) 665-8892 Email Two of LANL's most successful quantum technology initiatives: quantum cryptography and the race for quantum computer The area of quantum information, science, and technology is rapidly evolving, with important applications in the areas of quantum

  17. Fueling Future with Algal Genomics Grigoriev, Igor 59 BASIC BIOLOGICAL

    Office of Scientific and Technical Information (OSTI)

    play profound roles in the carbon cycle, and are prominent candidates for biofuel production. The US Department of Energy Joint Genome Institute (JGI) is leading the world...

  18. 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

  19. Genomes to Proteomes

    SciTech Connect (OSTI)

    Panisko, Ellen A.; Grigoriev, Igor; Daly, Don S.; Webb-Robertson, Bobbie-Jo; Baker, Scott E.

    2009-03-01

    Biologists are awash with genomic sequence data. In large part, this is due to the rapid acceleration in the generation of DNA sequence that occurred as public and private research institutes raced to sequence the human genome. In parallel with the large human genome effort, mostly smaller genomes of other important model organisms were sequenced. Projects following on these initial efforts have made use of technological advances and the DNA sequencing infrastructure that was built for the human and other organism genome projects. As a result, the genome sequences of many organisms are available in high quality draft form. While in many ways this is good news, there are limitations to the biological insights that can be gleaned from DNA sequences alone; genome sequences offer only a bird's eye view of the biological processes endemic to an organism or community. Fortunately, the genome sequences now being produced at such a high rate can serve as the foundation for other global experimental platforms such as proteomics. Proteomic methods offer a snapshot of the proteins present at a point in time for a given biological sample. Current global proteomics methods combine enzymatic digestion, separations, mass spectrometry and database searching for peptide identification. One key aspect of proteomics is the prediction of peptide sequences from mass spectrometry data. Global proteomic analysis uses computational matching of experimental mass spectra with predicted spectra based on databases of gene models that are often generated computationally. Thus, the quality of gene models predicted from a genome sequence is crucial in the generation of high quality peptide identifications. Once peptides are identified they can be assigned to their parent protein. Proteins identified as expressed in a given experiment are most useful when compared to other expressed proteins in a larger biological context or biochemical pathway. In this chapter we will discuss the automatic annotation and the generation of high quality gene models, the setup and execution of global proteomics experiments that are quantitative and statistically rigorous and finally add biological context to proteomics.

  20. 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

  1. Whose genome is it, anyway?

    SciTech Connect (OSTI)

    Marshall, E.

    1996-09-27

    The genome program has issued guidelines to ensure that sequencing is done on DNA from diverse sources who have given informed consent and are anonymous. Most current sources don`t meet those criteria. It may be the first question every nonexpert asks on learning about the Human Genome Project: Whose genome are we studying, anyway? It sounds naive, says one government scientist-so naive, in fact, that {open_quotes}we chuckle as we explain that we aren`t sequencing anyone`s genome in particular; we`re sequencing a representative genome{close_quotes} made up of a mosaic of DNA from a variety of anonymous sources. And Bruce Birren, a clone-maker now at the Massachusetts Institute of Technology`s (MIT`s) Whitehead Center for Genome Research says: {open_quotes}We spent many years pooh-poohing the question{close_quotes} of whose genome would be stored in the database. But now that labs have begun working on large stretches of human DNA-aiming to identify all 3 billion base pairs in the genetic code-the question no longer seems to laughable. To the distress of program managers in Bethesda, Maryland, the initial sources of DNA are not as diverse or as anonymous as they had assumed.

  2. Microsoft PowerPoint - Microbial Genome and Metagenome Analysis Case Study (NERSC Workshop - May 7-8, 2009).ppt [Compatibility

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

    Microbial Genome & Metagenome Analysis: Computational Challenges Natalia N. Ivanova * Nikos C. Kyrpides * Victor M. Markowitz ** * Genome Biology Program, Joint Genome Institute ** Lawrence Berkeley National Lab Microbial genome & metagenome analysis General aims Understand microbial life Apply to agriculture, bioremediation, biofuels, human health Specific aims include Specific aims include Predict biochemistry & physiology of organisms based on genome sequence Explain known

  3. Genome Improvement at JGI-HAGSC

    SciTech Connect (OSTI)

    Grimwood, Jane; Schmutz, Jeremy J.; Myers, Richard M.

    2012-03-03

    Since the completion of the sequencing of the human genome, the Joint Genome Institute (JGI) has rapidly expanded its scientific goals in several DOE mission-relevant areas. At the JGI-HAGSC, we have kept pace with this rapid expansion of projects with our focus on assessing, assembling, improving and finishing eukaryotic whole genome shotgun (WGS) projects for which the shotgun sequence is generated at the Production Genomic Facility (JGI-PGF). We follow this by combining the draft WGS with genomic resources generated at JGI-HAGSC or in collaborator laboratories (including BAC end sequences, genetic maps and FLcDNA sequences) to produce an improved draft sequence. For eukaryotic genomes important to the DOE mission, we then add further information from directed experiments to produce reference genomic sequences that are publicly available for any scientific researcher. Also, we have continued our program for producing BAC-based finished sequence, both for adding information to JGI genome projects and for small BAC-based sequencing projects proposed through any of the JGI sequencing programs. We have now built our computational expertise in WGS assembly and analysis and have moved eukaryotic genome assembly from the JGI-PGF to JGI-HAGSC. We have concentrated our assembly development work on large plant genomes and complex fungal and algal genomes.

  4. Genome Analyses and Supplement Data from the International Populus Genome Consortium (IPGC)

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    International Populus Genome Consortium (IPGC)

    The sequencing of the first tree genome, that of Populus, was a project initiated by the Office of Biological and Environmental Research in DOEs Office of Science. The International Populus Genome Consortium (IPGC) was formed to help develop and guide post-sequence activities. The IPGC website, hosted at the Oak Ridge National Laboratory, provides draft sequence data as it is made available from DOE Joint Genome Institute, genome analyses for Populus, lists of related publications and resources, and the science plan. The data are available at http://www.ornl.gov/sci/ipgc/ssr_resource.htm.

  5. Genome Analyses and Supplement Data from the International Populus Genome Consortium (IPGC)

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    International Populus Genome Consortium (IPGC)

    The sequencing of the first tree genome, that of Populus, was a project initiated by the Office of Biological and Environmental Research in DOE’s Office of Science. The International Populus Genome Consortium (IPGC) was formed to help develop and guide post-sequence activities. The IPGC website, hosted at the Oak Ridge National Laboratory, provides draft sequence data as it is made available from DOE Joint Genome Institute, genome analyses for Populus, lists of related publications and resources, and the science plan. The data are available at http://www.ornl.gov/sci/ipgc/ssr_resource.htm.

  6. INSTITUTE COLLOQUIA AND SEMINARS

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

    ... Sabin Stoica, National Institute of Physics & Nuclear Engineering, Bucharest, Romania Recent Results on Neutrino Properties December 8 Mr. Changbo Fu, Cyclotron Institute, Texas ...

  7. INSTITUTE COLLOQUIA AND SEMINARS

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

    INSTITUTE INSTITUTE INSTITUTE INSTITUTE COLLOQUIA AND SEMINARS April 1, 2000-March 31, 2001 2000 April 4 Dr. B. Launé, Institut de Physique Nucléaire - Orsay, France GANIL: Overview and Perspectives April 11 Dr. Z. Lin, Cyclotron Institute, TAMU J/psi Absorption in Hadronic Matter April 20 Dr. R. Tribble, Texas A&M University Nuclear Astrophysics at Texas A&M April 23 Prof. S.A. Gurvitz, The Weizmann Institute of Science, Rehovot, Israel Confinement and Scaling in Deep Inelastic

  8. GOLD: The Genomes Online Database

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    Kyrpides, Nikos; Liolios, Dinos; Chen, Amy; Tavernarakis, Nektarios; Hugenholtz, Philip; Markowitz, Victor; Bernal, Alex

    Since its inception in 1997, GOLD has continuously monitored genome sequencing projects worldwide and has provided the community with a unique centralized resource that integrates diverse information related to Archaea, Bacteria, Eukaryotic and more recently Metagenomic sequencing projects. As of September 2007, GOLD recorded 639 completed genome projects. These projects have their complete sequence deposited into the public archival sequence databases such as GenBank EMBL,and DDBJ. From the total of 639 complete and published genome projects as of 9/2007, 527 were bacterial, 47 were archaeal and 65 were eukaryotic. In addition to the complete projects, there were 2158 ongoing sequencing projects. 1328 of those were bacterial, 59 archaeal and 771 eukaryotic projects. Two types of metadata are provided by GOLD: (i) project metadata and (ii) organism/environment metadata. GOLD CARD pages for every project are available from the link of every GOLD_STAMP ID. The information in every one of these pages is organized into three tables: (a) Organism information, (b) Genome project information and (c) External links. [The Genomes On Line Database (GOLD) in 2007: Status of genomic and metagenomic projects and their associated metadata, Konstantinos Liolios, Konstantinos Mavromatis, Nektarios Tavernarakis and Nikos C. Kyrpides, Nucleic Acids Research Advance Access published online on November 2, 2007, Nucleic Acids Research, doi:10.1093/nar/gkm884]

    The basic tables in the GOLD database that can be browsed or searched include the following information:

    • Gold Stamp ID
    • Organism name
    • Domain
    • Links to information sources
    • Size and link to a map, when available
    • Chromosome number, Plas number, and GC content
    • A link for downloading the actual genome data
    • Institution that did the sequencing
    • Funding source
    • Database where information resides
    • Publication status and information

    (Specialized Interface)

  9. Genome patent fight erupts

    SciTech Connect (OSTI)

    Roberts, L.

    1991-10-11

    At a Congressional briefing while describing a new project to sequence partially every gene active in the human brain, it was made known that the National Institutes of Health was planning to file patent applications on 1,000 of these sequences a month. The scheme has engendered a firestorm of criticism from genome scientists and project officials alike. The critics argue that these sequences probably can't be patented in the first place - and even if they can, they shouldn't be. The plan would undercut patent protection for those who labor long and hard at the real task of elucidating the function of the proteins encoded by the genes, thereby driving industry away from developing inventions based on that work.

  10. Genomics Dan Rokhsar, DOE JGI/LBNL & UC Berkeley NERSC User Meeting

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

    for Genomics Dan Rokhsar, DOE JGI/LBNL & UC Berkeley NERSC User Meeting 4 February 2014 Computing for Genomics * The DOE Joint Genome Institute - Who we are, what we do, and why * Two computational problems in genomics - "Assembling" genomes from "shotgun" sequence - "Annotating" "metagenomic" data 2 DOE JGI- A Genomics User Facility * In 1997, as part of the ramp-up for the human genome project, the DOE Office of Biological and Environmental Research

  11. The Critical Materials Institute | Critical Materials Institute

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

    The Critical Materials Institute Director Alex King, Operations Manager Cynthia Feller, Jenni Brockpahler and Melinda Thach. Photo left to right: CMI Director Alex King, Operations Manager Cynthia Feller, Jenni Brockpahler and Melinda Thach. Not pictured: Carol Bergman. CMI staff phone 515-296-4500, e-mail CMIdirector@ameslab.gov The Critical Materials Institute focuses on technologies that make better use of materials and eliminate the need for materials that are subject to supply disruptions.

  12. INSTITUTE COLLOQUIA AND SEMINARS

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

    Bency John, Cyclotron Institute, Texas A&M University Isoscalar Giant Resonances in 12 C ... and V. E. Jacob, Cyclotron Institute, Texas A&M University Test of the Unitarity of ...

  13. Southern Research Institute Visit

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

    Southern Reaserch Engineering Capabilities Briefing 2010 Southern Research Institute Pharmaceutical and Biotechnology Research Briefing 2010 CAMD Introduction - Richard Kurtz Mary ...

  14. INSTITUTE COLLOQUIA AND SEMINARS

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

    5-March 31, 2006 2005 April 1 Dr. Ralf Rapp, Cyclotron Institute, Texas A&M University, College Station, Texas Thermal Field Theory and Instantons II April 8 Mr. Deqiang Sun, Cyclotron Institute, Texas A&M University, College Station, Texas Bottomonium in QGP and Heavy-Ion Collisions April 22 Dr. Ralf Rapp, Cyclotron Institute, Texas A&M University, College Station, Texas Thermal Field Theory and Instantons III May 6 Dr. Massimo Mannarelli, Massachusetts Institute of Technology,

  15. Genomic Advances to Improve Biomass for Biofuels (LBNL Science at the Theater)

    ScienceCinema (OSTI)

    Rokhsar, Daniel

    2011-04-28

    Lawrence Berkeley National Lab bioscientist Daniel Rokhsar discusses genomic advances to improve biomass for biofuels. He presented his talk Feb. 11, 2008 in Berkeley, California as part of Berkeley Lab's community lecture series. Rokhsar works with the U.S. Department of Energy's Joint Genome Institute and Berkeley Lab's Genomics Division.

  16. JGI Case Study (NERSC-BER Workshop, Sep 11 2012).pptx

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

    Genome Institute Computing Requirements Shane Canon, Rob Egan, David Goodstein Victor M Markowitz NERSC BER Requirements for 2017 September 11-12, 2012 Established in 1999, located in Walnut Creek Supported by the DOE Office of Science. Budget of ~70 Million/ yr ~ 300 Employees Mission User facility for large scale genomics to enable bioenergy & environmental research DOE Joint Genome Institute (JGI) JGI Programs Plants Fungi Microbes Metagenomes Bioenergy Carbon Cycling Biogeochemistry

  17. Phytozome System for Comparative Plant Genomics

    Energy Science and Technology Software Center (OSTI)

    2011-09-27

    Phytozome is a joint project of the Department of Energy's Joint Genome Institute and the UC Berkeley Center for Integrative Genomics to facilitate comparative genomic studies amongst green plants. Families of orthologous and paralogous genes that represent the modern descendents of ancestral gene sets are constructed at key phylogenetic nodes. These families allow easy access to clade specific orthology/paralogy relationships as well as clade specific genes and gene expansions. As of release 7.0, Phytozome providesmore » access to twenty-five sequenced and annotated green plant genomes which have been clustered into gene families at eleven evolutionarily significant nodes., Where possible, each gene has been annotated with PFAM, KOG, KEGG, and PANTHER assignments, and publicly available annotations from RefSeq, UniProt, TAIR, JGI are lyper-linked and searchable.« less

  18. U.S. Department of Energy Joint Genome Institute

    Office of Scientific and Technical Information (OSTI)

    ... "Many bacteria and archaea in these communities are novel at the phylum level or belong ... Barcoding: The practice of appending known unique synthetic DNA sequences to sequencing ...

  19. Rooted in Wonder: Joint Genome Institute Study Reveals Amazing...

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

    ... investments in science and innovation, please visit the Office of Science website. ... will broaden our understanding of the biogeochemistry of plant-microbe-soil interactions. ...

  20. MycoCosm portal: gearing up for 1000 fungal genomes

    SciTech Connect (OSTI)

    Grigoriev, Igor V.; Nikitin, Roman; Haridas, Sajeet; Kuo, Alan; Ohm, Robin; Riley, Robert; Salamov, Asaf; Zhao, Xueling; Korzeniewski, Frank; Smirnova, Tatyana; Nordberg, Henrik; Dubchak, Inna; Shabalov, Igor

    2013-10-09

    MycoCosm is a fungal genomics portal (http://jgi.doe.gov/fungi), developed by the US Department of Energy Joint Genome Institute to support integration, analysis and dissemination of fungal genome sequences and other omics data by providing interactive web-based tools. MycoCosm also promotes and facilitates user community participation through the nomination of new species of fungi for sequencing, and the annotation and analysis of resulting data. By efficiently filling gaps in the Fungal Tree of Life, MycoCosm will help address important problems associated with energy and the environment, taking advantage of growing fungal genomics resources.

  1. Institute for Advanced Studies

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

    Video Collaboration » Education Opportunities » Institute for Advanced Studies Institute for Advanced Studies NMC leverages the strengths of three research universities to build joint programs, develop strategic partnerships, provide common organization and facilities. Contact Leader TBD LANL Program Administrator Pam Hundley (505) 663-5453 Email Building regional partnerships in education, leveraging strengths of three research universities The Institute for Advanced Studies (IAS) works with

  2. Graduate Studies - Cyclotron Institute

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

    Students wishing to carry out their dissertation research at the Cyclotron Institute must be formally enrolled in the graduate program of either the Department of Physics or the Department of Chemistry, but may elect to work with any Institute faculty research advisor, irrespective of that advisor's departmental affiliation. Research programs at the Cyclotron Institute are funded by the U.S. Department of Energy, the National Science Foundation, and the Robert A. Welch Foundation. Application

  3. Facilities - Cyclotron Institute

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

    The Cyclotron Institute has expanded steadily since commissioning the original cyclotron in 1967 and is currently upgrading again. The diagram to the left shows the variety of...

  4. Edison Electric Institute Update

    Broader source: Energy.gov [DOE]

    Presentation—given at the Fall 2011 Federal Utility Partnership Working Group (FUPWG) meeting—discusses the Edison Electric Institute (EEI) and the current electricity landscape.

  5. UNCLASSIFIED Institute for Materials ...

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

    Emeritus Institute for Theoretical Condensed Matter Physics (KIT) The Exotic World of Quantum Matter: Novel States Induced by Fluctuations Tuesday, June 30, 2015 2 - 3pm MSL...

  6. UNCLASSIFIED Institute for Materials ...

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

    professor in the Woodruff School of Mechanical Engineering at Georgia Institute of Technology. She was previously a postdoctoral research fellow at the Center for Integrated...

  7. Defining Genome Project Standards in a New Era of Sequencing (GSC8 Meeting)

    ScienceCinema (OSTI)

    Chain, Patrick [DOE JGI

    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.

  8. Building international genomics collaboration for global health security

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

    Cui, Helen H.; Erkkila, Tracy; Chain, Patrick S. G.; Vuyisich, Momchilo

    2015-12-07

    Genome science and technologies are transforming life sciences globally in many ways and becoming a highly desirable area for international collaboration to strengthen global health. The Genome Science Program at the Los Alamos National Laboratory is leveraging a long history of expertise in genomics research to assist multiple partner nations in advancing their genomics and bioinformatics capabilities. The capability development objectives focus on providing a molecular genomics-based scientific approach for pathogen detection, characterization, and biosurveillance applications. The general approaches include introduction of basic principles in genomics technologies, training on laboratory methodologies and bioinformatic analysis of resulting data, procurement, and installationmore » of next-generation sequencing instruments, establishing bioinformatics software capabilities, and exploring collaborative applications of the genomics capabilities in public health. Genome centers have been established with public health and research institutions in the Republic of Georgia, Kingdom of Jordan, Uganda, and Gabon; broader collaborations in genomics applications have also been developed with research institutions in many other countries.« less

  9. Cyclotron Institute Upgrade Project - Facilities - Cyclotron Institute

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

    Upgrade Overview / K150 Cyclotron / Light Ion Guide / Heavy Ion Guide / Negative Ion Source / CB-ECRIS Facility Upgrade White Paper Overview Picture of the experimental set up to measure beta-decay half-lives. On January 3, 2005 the Cyclotron Institute Upgrade Project (CIUP) began with the approval of the CIUP management plan by the Department of Energy Nuclear Physics Office. The project will extend to the first quarter of calendar year 2011. When completed, the upgraded facility will provide

  10. 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

  11. Genome Science/Technologies

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

    Genome Genome Science/Technologies Los Alamos using cutting-edge sequencing, finishing, and analysis, impact valuable genomic data. Srinivas Iyer Bioscience Group Leader Email Get Expertise David Bruce Bioscience Deputy Group Leader Email Momchilo Vuyisich Scientist Email Rebecca McDonald Bioscience Communications Email State-of-the art technology and extensive genomics expertise Protein research Read caption + Los Alamos National Laboratory graduate student, Patricia Langan, changes the

  12. The human genome project

    SciTech Connect (OSTI)

    Yager, T.D.; Zewert, T.E.; Hood, L.E. )

    1994-04-01

    The Human Genome Project (HGP) is a coordinated worldwide effort to precisely map the human genome and the genomes of selected model organisms. The first explicit proposal for this project dates from 1985 although its foundations (both conceptual and technological) can be traced back many years in genetics, molecular biology, and biotechnology. The HGP has matured rapidly and is producing results of great significance.

  13. INSTITUTE COLLOQUIA AND SEMINARS

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

    2-March 31, 2003 2002 April 2 Dr. Bency John, Cyclotron Institute, Texas A&M University Isoscalar Giant Resonances in 12 C April 9 Professor J. Rapaport, Ohio University, Athens, Ohio Charge Exchange Reactions and Spin Transfer Measurements April 16 M. Sanchez-Vega and V. E. Jacob, Cyclotron Institute, Texas A&M University Test of the Unitarity of the CKM Matrix via Superallowed β + decay. April 23 Dr. Subrata Pal, Cyclotron Institute, Texas A&M University Strange Particle

  14. Contact - Cyclotron Institute

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

    Contact Website Manager Bruce Hyman Email: hyman@comp.tamu.edu Mailing Address Cyclotron Institute Texas A&M University 3366 TAMU College Station, TX, 77843-3366 Campus Location...

  15. Cyclotron Institute REU Program

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

    led by Institute faculty. Students will have the opportunity to share their work via an oral presentation and virtual poster session. Gopal Subedi at the TAMU REU poster session....

  16. Critical Materials Institute

    ScienceCinema (OSTI)

    Alex King

    2013-06-05

    Ames Laboratory Director Alex King talks about the goals of the Critical Materials Institute in diversifying the supply of critical materials, developing substitute materials, developing tools and techniques for recycling critical materials, and forecasting materials needs to avoid future shortages.

  17. INSTITUTE COLLOQUIA AND SEMINARS

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

    5-March 31, 2006 2005 April 1 Dr. Ralf Rapp, Cyclotron Institute, Texas A&M University, College Station, Texas Thermal Field Theory and Instantons II April 8 Mr. Deqiang Sun, ...

  18. About - Cyclotron Institute

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

    About The Texas A&M University Cyclotron Institute, a Department of Energy University Facility, is jointly supported by DOE and the State of Texas and is a major technical and ...

  19. UNCLASSIFIED Institute for Materials ...

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

    PSI: the X-ray free electron laser SwissFEL and its future experimental capabilities. Biography: Prof. Dr. Jol Mesot is, since 2008, director of the Paul Scherrer Institute...

  20. Classification Training Institute Catalog | Department of Energy

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

    Classification Training Institute Catalog Classification Training Institute Catalog Classification Training Institute (CTI) Catalog

  1. INSTITUTE COLLOQUIA AND SEMINARS

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

    INSTITUTE COLLOQUIA AND SEMINARS April 1, 2010-March 31, 2011 2010 May 11 Dr. J. J. Ressler, Lawrence Livermore National Laboratory, Livermore, California Surrogate Reactions for Nuclear Energy Application May 12 Professor Lie-Wen Chen, Institute of Nuclear, Particle Astronomy and Cosmology (INPAC) and Department of Physics, Shanghai Jiao Tong University, Shanghai, China Probing the Nuclear Symmetry Energy with Heavy-Ion Reactions and Neutron Skin Thickness of Heavy Nuclei May 13 Professor A. R.

  2. People - Cyclotron Institute

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

    Overview Dr. Ralf Rapp meets with his research group. At the Institute we focus on conducting basic research, educating students in accelerator-based science and technology, and providing technical capabilities for a wide variety of applications in space science, materials science, analytical procedures and nuclear medicine. Approximately 100 Institute members - scientists, engineers, technicians, support staff, graduate students and undergraduate students - are involved in these programs.

  3. Resources | Critical Materials Institute

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

    Resources The Critical Materials Institute offers connections to resources, including: List of resources U.S. Rare Earth Magnet Patents Table Government agency contacts CMI unique facilities CMI recent presentations Photographs via Flick'r: Critical Materials Institute, The Ames Laboratory Videos from The Ames Laboratory Webinars from Colorado School of Mines To offer comments on the CMI website or to ask questions, please contact us via e-mail at CMIdirector@ameslab.gov or call 515-296-4500.

  4. Site Map - Cyclotron Institute

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

    Site Map Cyclotron Institute About K500 Beam Schedule Recent News Seminars and Colloquia Cyclotron Institute Safety (limited access) Radiation Effects Facility REU Program Research Heavy Ion Reactions Fundamental Interactions Nuclear Astrophysics Interactions of Highly Charged Ions With Matter Theoretical Nuclear Physics Nuclear Structure External Collaborations Publications Research Groups Facilities K500 Cyclotron ECR Ion Sources MARS Big Sol MDM Spectrometer NIMROD Precision On-Line Decay

  5. Gene Calling Standards (GSC8 Meeting)

    ScienceCinema (OSTI)

    Kyrpides, Nikos [Genome Biology Program, DOE JGI

    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. Nikos Kyrpides of the DOE Joint Genome Institute discusses gene calling standards at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 10, 2009.

  6. Connecting Genomic Alterations to Cancer Biology with Proteomics: The NCI Clinical Proteomic Tumor Analysis Consortium

    SciTech Connect (OSTI)

    Ellis, Matthew; Gillette, Michael; Carr, Steven A.; Paulovich, Amanda G.; Smith, Richard D.; Rodland, Karin D.; Townsend, Reid; Kinsinger, Christopher; Mesri, Mehdi; Rodriguez, Henry; Liebler, Daniel

    2013-10-03

    The National Cancer Institute (NCI) Clinical Proteomic Tumor Analysis Consortium is applying the latest generation of proteomic technologies to genomically annotated tumors from The Cancer Genome Atlas (TCGA) program, a joint initiative of the NCI and the National Human Genome Research Institute. By providing a fully integrated accounting of DNA, RNA, and protein abnormalities in individual tumors, these datasets will illuminate the complex relationship between genomic abnormalities and cancer phenotypes, thus producing biologic insights as well as a wave of novel candidate biomarkers and therapeutic targets amenable to verifi cation using targeted mass spectrometry methods.

  7. A Taste of Algal Genomes from the Joint Genome Institute Kuo...

    Office of Scientific and Technical Information (OSTI)

    Algae play profound roles in aquatic food chains and the carbon cycle, can impose health and economic costs through toxic blooms, provide models for the study of symbiosis,...

  8. A Taste of Algal Genomes from the Joint Genome Institute (Conference...

    Office of Scientific and Technical Information (OSTI)

    Algae play profound roles in aquatic food chains and the carbon cycle, can impose health and economic costs through toxic blooms, provide models for the study of symbiosis,...

  9. A Taste of Algal Genomes from the Joint Genome Institute (Conference...

    Office of Scientific and Technical Information (OSTI)

    from the National Technical Information Service, Springfield, VA at www.ntis.gov. Algae play profound roles in aquatic food chains and the carbon cycle, can impose health and...

  10. Achievements of structural genomics (Conference) | SciTech Connect

    Office of Scientific and Technical Information (OSTI)

    Conference: Achievements of structural genomics Citation Details In-Document Search Title: Achievements of structural genomics Authors: Terwilliger, Thomas C [1] + Show Author Affiliations Los Alamos National Laboratory Publication Date: 2012-03-08 OSTI Identifier: 1170663 Report Number(s): LA-UR-12-01239; LA-UR-12-1239 DOE Contract Number: AC52-06NA25396 Resource Type: Conference Resource Relation: Conference: Institute of biological chemistry, academia sinica Taiwan ; March 21, 2012 ; Taipai,

  11. Microsoft Word - Document1

    Office of Scientific and Technical Information (OSTI)

    Genome-wide experimental determination of barriers to horizontal gene transfer Rotem Sorek 1,2 , Yiwen Zhu 2 , Christopher J. Creevey 3 , M. Pilar Francino 1 , Peer Bork 3 and Edward M. Rubin 1,2 1 DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, USA 2 Genome Sciences Department, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA. 3 European Molecular Biology Laboratory, Meyerhofstrasse 1, 69012 Heidelberg, Germany Abstract Horizontal gene transfer, in which genetic

  12. Gerber-JGI

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

    NERSC for the Joint Genome Institute Richard Gerber NERSC User Services May 2, 2011 Joint Genome Institute, Walnut Creek, CA 2 * What is NERSC? * Computing Resources * Storage Resources * How to Get Help * Accounts and Allocations * Connecting to NERSC * Computing Environment * Compiling Code * Running Jobs Outline What is NERSC? 3 !"#$% &'% ()$% *+'% ()"% ,*'% -)"% *+'% .)/% *&'% 0/% **'% 2010 Allocations 4 * NERSC serves a large population Over 3000 users, 400 projects,

  13. 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

  14. Ecologic Institute | Open Energy Information

    Open Energy Info (EERE)

    Institute Name: Ecologic Institute Address: Pfalzburger Strasse 4344 Place: Berlin, Germany Year Founded: 1995 Phone Number: +49 (30) 86880-0 Website: ecologic.eu...

  15. Institutional Change Process for Sustainability

    Broader source: Energy.gov [DOE]

    For establishing institutional change in a federal agency to achieve sustainability or other energy efficiency goals, follow the five-step institutional change process.

  16. Strategies for Achieving Institutional Change

    Broader source: Energy.gov [DOE]

    Many strategies—including those derived from Institutional Change Principles–may be used to effect institutional change in support of energy and sustainability objectives.

  17. Rahus Institute | Open Energy Information

    Open Energy Info (EERE)

    article is a stub. You can help OpenEI by expanding it. Rahus Institute is a policy organization located in Martinez, California. References About Rahus Institute Retrieved...

  18. Policies - Cyclotron Institute

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

    Policies Policies Web Accessibility Privacy and Security Policy Use of Information Resources Contact Information Texas A&M University College of Science Department of Chemistry Department of Physics and Astronomy Cyclotron Institute Additional Links University Rules Texas A&M System Policies

  19. Commitment Institutional Change Principle

    Broader source: Energy.gov [DOE]

    Commitment can be a crucial element that helps federal agencies inject and emphasize sustainability in their organizational culture. Institutions and people change when they have made definite commitments to change, especially when those commitments relate to future conditions. Research shows that explicit commitments improve the rate at which people adopt energy-efficient behaviors.

  20. Use of Institutional Controls

    Broader source: Directives, Delegations, and Requirements [Office of Management (MA)]

    2003-04-09

    The Policy ensures that the Department of Energy will use institutional controls in the management of resources, facilities and properties under its control, and in implementing its programmatic responsibilities. Certified 1-28-11. Supersedes DOE P 454.1, dated 4-9-03.

  1. Use of Institutional Controls

    Broader source: Directives, Delegations, and Requirements [Office of Management (MA)]

    2003-04-09

    The Policy ensures that the Department of Energy will use institutional controls in the management of resources, facilities and properties under its control, and in implementing its programmatic responsibilities. Certified 1-28-11. Superseded by Chg 1 (Admin Chg), dated 12-7-15.

  2. Genomics Division Home

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

    to the most primitive soil microbe represent a watershed opportunity for biology. The Genomics Division is taking advantage of this wealth of new information. While it is well...

  3. Human Genome: DOE Origins

    Office of Scientific and Technical Information (OSTI)

    of the Department of Energy; DOE Technical Report; 1988 Mapping and Sequencing the Human Genome; DOE Technical Report; 1988 Understanding our Genetic Inheritance: The U.S....

  4. Fungal Genomics Program

    SciTech Connect (OSTI)

    Grigoriev, Igor

    2012-03-12

    The JGI Fungal Genomics Program aims to scale up sequencing and analysis of fungal genomes to explore the diversity of fungi important for energy 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 in fungal genome sequencing and analysis. Over 120 sequenced fungal genomes with analytical tools are available via MycoCosm (www.jgi.doe.gov/fungi), a web-portal for fungal biologists. Our model of interacting with user communities, unique among other sequencing centers, helps organize these communities, improves genome annotation and analysis work, and facilitates new larger-scale genomic projects. This resulted in 20 high-profile papers published in 2011 alone and contributing to the Genomics Encyclopedia of Fungi, which targets fungi related to plant health (symbionts, pathogens, and biocontrol agents) and biorefinery processes (cellulose degradation, sugar fermentation, industrial hosts). Our next grand challenges include larger scale exploration of fungal diversity (1000 fungal genomes), developing molecular tools for DOE-relevant model organisms, and analysis of complex systems and metagenomes.

  5. Tackling the Triple-Threat Genome of Miscanthus x giganteus (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Moose, Steve

    2011-04-25

    Steve Moose from the University of Illinois at Urbana-Champaign and the Energy Biosciences Institute on "Tackling the Triple-Threat Genome of Miscanthus x giganteus" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  6. INSTITUTE COLLOQUIA AND SEMINARS

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

    1-March 31, 2002 2001 April 10 Dr. Massimo Di Toro, LNS/INFN and the University of Catania, Italy Isospin Effects on Nuclear Dynamics April 12 Dr. C. Lewis, U.S. Environmental Protection Agency, Research Triangle, North Carolina Air Pollution Research Using Radiocarbon Measurements April 17 Professor Olga Kocharovskaya, Department of Physics, Texas A&M University, College Station, Texas Laser Control of Mossbauer Nuclear Transitions May 1 Dr. Bency John, Cyclotron Institute, Texas A&M

  7. INSTITUTE COLLOQUIA AND SEMINARS

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

    6-March 31, 2007 2006 April 6 Dr. Jamal Jalilian-Marian, Institute for Nuclear Theory, University of Washington, Seattle, Washington An Introduction to Particle Production in High Energy Nuclear Collisions April 7 Professor Taka Kajino, National Astronomical Observatory, University of Tokyo, Tokyo, Japan A Frontier of Nuclear Astrophysics: Big-Bang Cosmology and Supernova Nucleosynthesis April 19 Dr. Anna Stasto, Brookhaven National Laboratory, Upton, New York High Energy Limit and Parton

  8. INSTITUTE COLLOQUIA AND SEMINARS

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

    7-March 31, 2008 2007 April 5 Dr. Nigel Orr, Laboratoire de Physique Corpusculaire, Universite de Caen Basse-Normandie, France Probing Nuclear Structure Far from Stability: from Breakup to Knockout April 10 Dr. Lie-wen Chen, Institute of Theoretical Physics, Shanghai Jiao Tong University, Shanghai, China Probing the Nuclear Symmetry Energy with Heavy-Ion Reactions Induced by Neutron- Rich Nuclei April 11 Dr. Nigel Orr, Laboratoire de Physique Corpusculaire, Universite de Caen Basse-Normandie,

  9. INSTITUTE COLLOQUIA AND SEMINARS

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

    09-March 31, 2010 2009 April 17 Professor Jian-Wei Qiu, Department of Physics and Astronomy, Iowa State University, Ames, Iowa and Brookhaven National Laboratory, Upton, New York QCD and High Energy Nuclear Collisions April 21 Dr. Peter Levai, KFKI Research Institute for Particle and Nuclear Physics, Budapest, Hungary Can We Find Quark-Gluon Plasma in pp Collision at LHC? April 28 Professor Wolfgang Mittig, NSCL, Michigan State University, East Lansing, Michigan Nuclear Power and Global Energy

  10. Publications - Cyclotron Institute

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

    Publications "Progress in Research", Cyclotron Institute Annual Reports View individual articles: 2015 / 2014 / 2013 / 2012 / 2011 / 2010 / 2009 / 2008 / 2007 / 2006 / 2005 / 2004 / 2003 / 2002 / 2001 / 2000 / 1999 Download complete documents: 2015 / 2014 / 2013 / 2012 / 2011 / 2010 / 2009 / 2008 / 2007 / 2006 / 2005 / 2004 / 2003 List of Papers Published by Year 2012 / 2011 / 2010 / 2009 / 2008 / 2007/ 2006 / 2005 / 2004 / 2003 / 2002 / 2001 / 2000 / 1999 / 1998 / 1997 / 1996 / 1995 /

  11. Research - Cyclotron Institute

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

    Overview Viewing gamma ray spectra. The Institute research program focuses on the atomic nucleus, a many-body system of strongly interacting constituents bound together by the strongest forces known in nature. The properties investigated often can be described in terms of the motions of single nucleons (neutrons and protons), the correlated motions of several nucleons, and the collective motions of many nucleons. On a finer scale, they can be understood in terms of the degrees of freedom of

  12. Research | Critical Materials Institute

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

    Research Four Research Thrusts organizational chart of four research thrusts (A click on the org chart image will lead to a pdf version that includes hotlinks for the e-mail addresses for leaders.) CMI has more than 30 projects focused in four areas. Project titles are available in a table, which can be sorted by project leader, location of project leader, project title or project number. CMI research is conducted at partner institutions, including national laboratories, universities and

  13. SRF Institute | Jefferson Lab

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

    SRF Institute Jefferson Lab is recognized as a world leader in accelerator science. This expertise comes from the planning, building, maintaining and operating of the Continuous Electron Beam Accelerator Facility (CEBAF) - the lab's particle accelerator. CEBAF is based on superconducting radiofrequency (SRF) technology and produces a stream of charged electrons that scientists use to probe the nucleus of the atom. CEBAF was the first large-scale application of SRF technology in the U.S., and it

  14. ORGANIZATIONAL CHART - CYCLOTRON INSTITUTE

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

    INSTITUTE April 1, 2000 - March 31, 2001 Health Physics Rodriguez DIRECTOR Natowitz SEE Line Proj. Manager Clark Horvat Hyman Utley Senior ME Derrig Graduate Students Research Associates Research Scientists Research Group Leaders Administration Harris Wellmann Batson Valerian Deason Computer Syst. Hagel Burch Student Wkrs Senior Acc. Phys. May Acc. Phys. Kim Clark Operations Chief Abegglen Target Maker Utley Building Maintenance Mynar Gallegos Kingsbury Shumbera Electrical Shop Cowden Haisler

  15. Careers | Critical Materials Institute

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

    Careers The Critical Materials Institute at the The Ames Laboratory, a Department of Energy national laboratory affiliated with Iowa State University, offers a variety of career opportunities. These include: Postdoctoral Research Associate Also, The Ames Laboratory participates in federal programs that help develop the research workforce. These include the following programs with the U.S. Department of Energy: Graduate Student Research Program (new in 2014) Science Undergraduate Laboratory

  16. Advanced Studies Institute

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

    Nuclear Security Administration Programs Advanced Simulation and Computing and Institutional R&D Programs The Advanced Simulation and Computing (ASC) Program supports the Department of Energy's National Nuclear Security Administration (DOE/NNSA) Defense Programs' use of simulation-based evaluation of the nation's nuclear weapons stockpile. The ASC Program is responsible for providing the simulation tools and computing environments required to qualify and certify the nation's nuclear

  17. SciTech Connect: genomics

    Office of Scientific and Technical Information (OSTI)

    genomics Find + Advanced Search Term Search Semantic Search Advanced Search All Fields: genomics Semantic Semantic Term Title: Full Text: Bibliographic Data: Creator Author:...

  18. Towards the Perfect Genome Sequence (Opening Keynote) ( 7th Annual SFAF Meeting, 2012)

    ScienceCinema (OSTI)

    Weinstock, George [Washington University

    2013-03-22

    George Weinstock, associate director at the Genome Institute at Washington University, delivered the opening keynote "Towards the Perfect Genome Sequence" at the 2012 Sequencing, Finishing, Analysis in the Future Meeting held June 5-7, 2012 in Santa Fe, New Mexico.

  19. Ethiopian Development Research Institute | Open Energy Information

    Open Energy Info (EERE)

    Ethiopian Development Research Institute Jump to: navigation, search Logo: Ethiopian Development Research Institute Name: Ethiopian Development Research Institute Address: Ethiopia...

  20. CMI Social Media | Critical Materials Institute

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

    Social Media Facebook: Critical Materials Institute Twitter: CMI_hub LinkedIn: Critical Materials Institute Flickr: Critical Materials Institute

  1. Utilization Technology Institute | Open Energy Information

    Open Energy Info (EERE)

    Utilization Technology Institute Jump to: navigation, search Name: Utilization Technology Institute Place: Des Plaines, IL References: Utilization Technology Institute1...

  2. MASSACHUSETTS INSTITUTE OF TECHNOLOGY | Princeton Plasma Physics...

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

    MASSACHUSETTS INSTITUTE OF TECHNOLOGY American Fusion News Category: Massachusetts Institute of Technology (MIT) Link: MASSACHUSETTS INSTITUTE OF TECHNOLOGY...

  3. Genome Project Standards in a New Era of Sequencing

    SciTech Connect (OSTI)

    GSC Consortia; HMP Jumpstart Consortia; Chain, P. S. G.; Grafham, D. V.; Fulton, R. S.; FitzGerald, M. G.; Hostetler, J.; Muzny, D.; Detter, J. C.; Ali, J.; Birren, B.; Bruce, D. C.; Buhay, C.; Cole, J. R.; Ding, Y.; Dugan, S.; Field, D.; Garrity, G. M.; Gibbs, R.; Graves, T.; Han, C. S.; Harrison, S. H.; Highlander, S.; Hugenholtz, P.; Khouri, H. M.; Kodira, C. D.; Kolker, E.; Kyrpides, N. C.; Lang, D.; Lapidus, A.; Malfatti, S. A.; Markowitz, V.; Metha, T.; Nelson, K. E.; Parkhill, J.; Pitluck, S.; Qin, X.; Read, T. D.; Schmutz, J.; Sozhamannan, S.; Strausberg, R.; Sutton, G.; Thomson, N. R.; Tiedje, J. M.; Weinstock, G.; Wollam, A.

    2009-06-01

    For over a decade, genome 43 sequences have adhered to only two standards that are relied on for purposes of sequence analysis by interested third parties (1, 2). However, ongoing developments in revolutionary sequencing technologies have resulted in a redefinition of traditional whole genome sequencing that requires a careful reevaluation of such standards. With commercially available 454 pyrosequencing (followed by Illumina, SOLiD, and now Helicos), there has been an explosion of genomes sequenced under the moniker 'draft', however these can be very poor quality genomes (due to inherent errors in the sequencing technologies, and the inability of assembly programs to fully address these errors). Further, one can only infer that such draft genomes may be of poor quality by navigating through the databases to find the number and type of reads deposited in sequence trace repositories (and not all genomes have this available), or to identify the number of contigs or genome fragments deposited to the database. The difficulty in assessing the quality of such deposited genomes has created some havoc for genome analysis pipelines and contributed to many wasted hours of (mis)interpretation. These same novel sequencing technologies have also brought an exponential leap in raw sequencing capability, and at greatly reduced prices that have further skewed the time- and cost-ratios of draft data generation versus the painstaking process of improving and finishing a genome. The resulting effect is an ever-widening gap between drafted and finished genomes that only promises to continue (Figure 1), hence there is an urgent need to distinguish good and poor datasets. The sequencing institutes in the authorship, along with the NIH's Human Microbiome Project Jumpstart Consortium (3), strongly believe that a new set of standards is required for genome sequences. The following represents a set of six community-defined categories of genome sequence standards that better reflect the quality of the genome sequence, based on our collective understanding of the different technologies, available assemblers, and the varied efforts to improve upon drafted genomes. Due to the increasingly rapid pace of genomics we avoided the use of rigid numerical thresholds in our definitions to take into account the types of products achieved by any combination of technology, chemistry, assembler, or improvement/finishing process.

  4. INSTITUTE COLLOQUIA AND SEMINARS

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

    4-March 31, 2005 2004 April 8 Dr. Jeffrey W. Martin, Kellogg Radiation Laboratory, California Institute of Technology, Pasadena, California Ultracold Neutrons April 20 Professor J. W. Watson, Department of Physics, Kent State University, Kent, Ohio Short-range Correlations in Nuclei from (p,2p+n) and (e,e'p+N) Measurements May 10 Mr. Sean Liddick, NSCL- Michigan State University, East Lansing, Michigan The Evolution of Shell Structure in the A~60 Mass Region May 25 Dr. Juha Ärje, Department of

  5. Massachusetts Institute of Technology

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

    05/2010 Teppei Katori, MIT 1 Teppei Katori for the MiniBooNE collaboration Massachusetts Institute of Technology U-Maryland Nuclear/HEP seminar, College Park, October, 5, 2010 MiniBooNE, a neutrino oscillation experiment at Fermilab 10/05/2010 Teppei Katori, MIT 2 Outline 1. Introduction 2. Neutrino beam 3. Events in the detector 4. Cross section model 5. Oscillation analysis and result 6. New Low energy excess result 7. Anti-neutrino oscillation result 8. Neutrino disappearance result 9.

  6. LIG - Facilities - Cyclotron Institute

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

    Light Ion Guide Light Ion Guide. Texas A&M University is currently configuring a scheme for the production of radioactive-ion beams that incorporates a light-ion guide (LIG) coupled with an ECRIS constructed for charge-boosting (CB-ECRIS). This scheme is part of an upgrade to the Cyclotron Institute and is intended to produce radioactive beams suitable for injection into the K500 superconducting cyclotron. The Light-Ion Guide (LIG) will produce radioactive species mainly from (p,n)

  7. Human Genome Program

    SciTech Connect (OSTI)

    Not Available

    1993-01-01

    The DOE Human Genome program has grown tremendously, as shown by the marked increase in the number of genome-funded projects since the last workshop held in 1991. The abstracts in this book describe the genome research of DOE-funded grantees and contractors and invited guests, and all projects are represented at the workshop by posters. The 3-day meeting includes plenary sessions on ethical, legal, and social issues pertaining to the availability of genetic data; sequencing techniques, informatics support; and chromosome and cDNA mapping and sequencing.

  8. Genomic definition of species

    SciTech Connect (OSTI)

    Crkvenjakov, R.; Drmanac, R.

    1991-07-01

    The subject of this paper is the definition of species based on the assumption that genome is the fundamental level for the origin and maintenance of biological diversity. For this view to be logically consistent it is necessary to assume the existence and operation of the new law which we call genome law. For this reason the genome law is included in the explanation of species phenomenon presented here even if its precise formulation and elaboration are left for the future. The intellectual underpinnings of this definition can be traced to Goldschmidt. We wish to explore some philosophical aspects of the definition of species in terms of the genome. The point of proposing the definition on these grounds is that any real advance in evolutionary theory has to be correct in both its philosophy and its science.

  9. Genomic library construction

    DOE Patents [OSTI]

    Church, George M.; Zhang, Kun

    2011-07-26

    Compositions and methods for amplifying nucleic acid sequences from a single cell are provided. Compositions and methods for constructing a genomic library from a single cell are also provided.

  10. Integrative Genomics Building

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

    Integrative Genomics Building Community Berkeley Global Campus Environmental Documents Tours Community Programs Friends of Berkeley Lab ⇒ Navigate Section Community Berkeley Global Campus Environmental Documents Tours Community Programs Friends of Berkeley Lab Project Description The Integrative Genomics Building (IGB) is proposed to be an approximately 77,000 gsf, four-story research and office building constructed in the former Bevatron area - a fully developed site in the geographic

  11. Phytozome: a Tool for Green Plant Comparative Genomics

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    Phytozome is a joint project of the Department of Energy's Joint Genome Institute and the Center for Integrative Genomics to facilitate comparative genomic studies amongst green plants. Clusters of orthologous and paralogous genes that represent the modern descendents of ancestral gene sets are constructed at key phylogenetic nodes. These clusters allow easy access to clade specific orthology/paralogy relationships as well as clade specific genes and gene expansions. As of release v4.0, Phytozome provides access to nine sequenced and annotated green plant genomes, eight of which have been clustered into gene families at six evolutionarily significant nodes. Where possible, each gene has been annotated with PFAM, KOG, KEGG, and PANTHER assignments, and publicly available annotations from RefSeq, UniProt, TAIR, JGI are hyper-linked and searchable. [Copied from the Overview at http://www.phytozome.net/Phytozome_info.php

  12. The MicrobesOnline Web site for comparative genomics

    SciTech Connect (OSTI)

    Alm, Eric J.; Huang, Katherine H.; Price, Morgan N.; Koche,Richard P.; Keller, Keith; Dubchak, Inna L.; Arkin, Adam P.

    2004-11-05

    At present, hundreds of microbial genomes have been sequenced, and hundreds more are currently in the pipeline. The Virtual Institute for Microbial Stress and Survival has developed a publicly available suite of Web-based comparative genomic tools (http://www.microbesonline.org) designed to facilitate multispecies comparison among prokaryotes. Highlights of the Microbes Online Web site include operon and regulon predictions, a multispecies genome browser, a multispecies Gene Ontology browser, a comparative KEGG metabolic pathway viewer, a Bioinformatics Workbench for in-depth sequence analysis, and Gene Carts that allow users to save genes of interest for further study while they browse. In addition, we provide an interface for genome annotation, which like all of the tools reported here, is freely available to the scientific community.

  13. Cyclotron Institute Upgrade Project

    SciTech Connect (OSTI)

    Clark, Henry; Yennello, Sherry; Tribble, Robert

    2014-08-26

    The Cyclotron Institute at Texas A&M University has upgraded its accelerator facilities to extend research capabilities with both stable and radioactive beams. The upgrade is divided into three major tasks: (1) re-commission the K-150 (88”) cyclotron, couple it to existing beam lines to provide intense stable beams into the K-500 experimental areas and use it as a driver to produce radioactive beams; (2) develop light ion and heavy ion guides for stopping radioactive ions created with the K-150 beams; and (3) transport 1+ ions from the ion guides into a charge-breeding electron-cyclotron-resonance ion source (CB-ECR) to produce highly-charged radioactive ions for acceleration in the K-500 cyclotron. When completed, the upgraded facility will provide high-quality re-accelerated secondary beams in a unique energy range in the world.

  14. GenomeVista

    Energy Science and Technology Software Center (OSTI)

    2002-11-04

    Aligning large vertebrate genomes that are structurally complex poses a variety of problems not encountered on smaller scales. Such genomes are rich in repetitive elements and contain multiple segmental duplications, which increases the difficulty of identifying true orthologous SNA segments in alignments. The sizes of the sequences make many alignment algorithms designed for comparing single proteins extremely inefficient when processing large genomic intervals. We integrated both local and global alignment tools and developed a suitemore » of programs for automatically aligning large vertebrate genomes and identifying conserved non-coding regions in the alignments. Our method uses the BLAT local alignment program to find anchors on the base genome to identify regions of possible homology for a query sequence. These regions are postprocessed to find the best candidates which are then globally aligned using the AVID global alignment program. In the last step conserved non-coding segments are identified using VISTA. Our methods are fast and the resulting alignments exhibit a high degree of sensitivity, covering more than 90% of known coding exons in the human genome. The GenomeVISTA software is a suite of Perl programs that is built on a MySQL database platform. The scheduler gets control data from the database, builds a queve of jobs, and dispatches them to a PC cluster for execution. The main program, running on each node of the cluster, processes individual sequences. A Perl library acts as an interface between the database and the above programs. The use of a separate library allows the programs to function independently of the database schema. The library also improves on the standard Perl MySQL database interfere package by providing auto-reconnect functionality and improved error handling.« less

  15. Microsoft Word - Sorek_CRISPR_revised.doc

    Office of Scientific and Technical Information (OSTI)

    CRISPR - a widespread system that provides acquired resistance against phages in bacteria and archaea Rotem Sorek*, Victor Kunin and Philip Hugenholtz Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 * Corresponding author: rsorek@lbl.gov Abstract Arrays of clustered, regularly spaced short palindromic repeats (CRISPR) are widespread in the genomes of many bacteria and almost all archaea. These arrays are composed of direct repeats sized 24-47 bp separated by similarly sized

  16. Integrative Bioengineering Institute

    SciTech Connect (OSTI)

    Eddington, David; Magin,L,Richard; Hetling, John; Cho, Michael

    2009-01-09

    Microfabrication enables many exciting experimental possibilities for medicine and biology that are not attainable through traditional methods. However, in order for microfabricated devices to have an impact they must not only provide a robust solution to a current unmet need, but also be simple enough to seamlessly integrate into standard protocols. Broad dissemination of bioMEMS has been stymied by the common aim of replacing established and well accepted protocols with equally or more complex devices, methods, or materials. The marriage of a complex, difficult to fabricate bioMEMS device with a highly variable biological system is rarely successful. Instead, the design philosophy of my lab aims to leverage a beneficial microscale phenomena (e.g. fast diffusion at the microscale) within a bioMEMS device and adapt to established methods (e.g. multiwell plate cell culture) and demonstrate a new paradigm for the field (adapt instead of replace). In order for the field of bioMEMS to mature beyond novel proof-of-concept demonstrations, researchers must focus on developing systems leveraging these phenomena and integrating into standard labs, which have largely been ignored. Towards this aim, the Integrative Bioengineering Institute has been established.

  17. Berkeley Quantitative Genome Browser

    Energy Science and Technology Software Center (OSTI)

    2008-02-29

    The Berkeley Quantitative Genome Browser provides graphical browsing functionality for genomic data organized, at a minimum, by sequence and position. While supporting the annotation browsing features typical of many other genomic browsers, additional emphasis is placed on viewing and utilizing quantitative data. Data may be read from GFF, SGR, FASTA or any column delimited format. Once the data has been read into the browser's buffer, it may be searched. filtered or subjected to mathematical transformation.more » The browser also supplies some graphical design manipulation functionality geared towards preparing figures for presentations or publication. A plug-in mechanism enables development outside the core functionality that adds more advanced or esoteric analysis capabilities. BBrowse's development and distribution is open-source and has been built to run on Linux, OSX and MS Windows operating systems.« less

  18. Human Genome: DOE Origins

    Office of Scientific and Technical Information (OSTI)

    DOE Origins Resources with Additional Information Charles DeLisi Charles DeLisi The genesis of the Department of Energy (DOE) human genome project took place when "Charles DeLisi ... conceived of a concerted effort to sequence the human genome under the aegis of the ... DOE. ... In 1985, DeLisi took the reins of DOE's Office of Health and Environmental Research [OHER], the program that supported most Biology in the Department. The origins of DOE's biology program traced to the Manhattan

  19. Latest News | Critical Materials Institute

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

    News News releases CMI in the news News archive CMI social media Latest News News about CMI: Critical Materials Institute gains ten industrial and research affiliates, April 11, 2016 On energy.gov: Critical Materials Institute Gains Ten Industrial and Research Affiliates How true is conventional wisdon about price volatility of tech metals?, Feb. 11, 2016 Need rare-earths know-how? The Critical Materials Institute offers lower-cost access to experts and research, Dec. 1, 2015 Get schooled in

  20. Los Alamos National Laboratory Institutes

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

    Los Alamos National Laboratory Institutes The National Security Education Center has formed several institutes, each with a partner university or consortia of universities. The formation of these institutes serves the need for LANL to recruit new staff and provide educational opportunities that will enhance retention at the Laboratory. This is accomplished by:  Developing long-term collaborative relationships with universities whose research interests are important to the Laboratory. 

  1. Oceanic Communities in a Changing Planet - The Tara Oceans Project (GSC8 Meeting)

    ScienceCinema (OSTI)

    Raes, Jeroen [University of Brussels

    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. Jeroen Raes of the University of Brussels discusses the Tara-Oceans expedition at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009

  2. 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.

  3. Terragenome: International Soil Metagenome Sequencing Consortium (GSC8 Meeting)

    ScienceCinema (OSTI)

    Jansson, Janet [LBNL

    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. Janet Jansson of the Lawrence Berkeley National Laboratory discusses the Terragenome Initiative at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009

  4. The Biocurator Society (GSC8 Meeting)

    ScienceCinema (OSTI)

    Gaudet, Pascal [Northwestern University

    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. Pascal Gaudet of Northwestern University talks about "The Biocurator Society" at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 11, 2009

  5. Standards and the INSDC: Submission of MIGS, MIMS, MIENS (GSC8 Meeting)

    ScienceCinema (OSTI)

    Mizrachi, Ilene [NCBI

    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. Ilene Mizrachi of the NCBI talks about submission of MIGS/MIMS/MIENS information at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009.

  6. Annotations in Refseq (GSC8 Meeting)

    ScienceCinema (OSTI)

    Tatusova, Tatiana

    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. Tatiana Tatusova of NCBI discusses "Annotations in Refseq" at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 10, 2009.

  7. Towards a Consensus Annotation System (GSC8 Meeting)

    ScienceCinema (OSTI)

    White, Owen [University of Maryland

    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. "Comparing Annotations: Towards Consensus Annotation" at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 10, 2009

  8. Nuclear Structure - Research - Cyclotron Institute

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

    Nuclear Structure depiction of giant resonance modes (ref. Xinfeng Chen, "Giant Resonance Study By 6Li Scattering" Nuclear structure studies at the Institute explore a wide range...

  9. Continuous Change Institutional Change Principle

    Broader source: Energy.gov [DOE]

    ecause it takes time to establish institutional change, federal agencies need multiyear plans that continuously work to achieve, reinforce, and improve significant and persistent sustainability goals.

  10. Institutional Change Basics for Sustainability

    Broader source: Energy.gov [DOE]

    Institutional change integrates technology, policy, and behavior to make new sustainability practices and perspectives become a typical part of how an agency operates.

  11. Financial Institution Lending Program Webinars

    Broader source: Energy.gov [DOE]

    Provides a listing of past Financial Institution Lending Program webinars and associated files. Author: U. S. Department of Energy, Energy Efficiency & Renewable Energy

  12. CASL - Massachusetts Institute of Technology

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

    Massachusetts Institute of Technology Cambridge, MA The Department of Nuclear Science and Engineering at MIT has been a leader in the development of the nuclear engineering...

  13. invention disclosures | Critical Materials Institute

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

    Critical Materials Institute will be defined by how well it meets its mission to assure supply chains of materials critical to clean energy technologies. To enable innovation in...

  14. Research and Institutional Integrity Office

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

    about any of these ethics policies and related procedures, please contact Meredith Montgomery, Director of Institutional Assurance and Integrity, at 510-486-4453 or...

  15. Izabela Stroe: Worcester Polytechnic Institute

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

    Izabela Stroe: Worcester Polytechnic Institute Alumni Link: Opportunities, News and Resources for Former Employees Latest Issue:September 2015 all issues All Issues submit...

  16. Hitachi Research Institute | Open Energy Information

    Open Energy Info (EERE)

    Institute Jump to: navigation, search Name: Hitachi Research Institute Place: Tokyo, Japan Zip: 101-8010 Product: Hitachi Research Institute is the think tank of the Hitachi...

  17. GHG Management Institute | Open Energy Information

    Open Energy Info (EERE)

    GHG Management Institute Jump to: navigation, search Name: GHG Management Institute Address: Greenhouse Gas Management Institute 9215 View Avenue NW Seattle, WA USA 98117 Place:...

  18. Cornell Fuel Cell Institute | Open Energy Information

    Open Energy Info (EERE)

    Cornell Fuel Cell Institute Jump to: navigation, search Name: Cornell Fuel Cell Institute Place: Ithaca, New York Zip: 14850 Product: The Cornell Fuel Cell Institute (CFCI)...

  19. Form:Research Institution | Open Energy Information

    Open Energy Info (EERE)

    Research Institution Jump to: navigation, search Add a Research or Development Institution Input your research or development institution name below to add to the registry. If your...

  20. UC Berkeley- Energy Institute | Open Energy Information

    Open Energy Info (EERE)

    Berkeley- Energy Institute Jump to: navigation, search Logo: UC Berkeley- Energy Institute Name: UC Berkeley- Energy Institute Address: 2547 Channing Way Place: Berkeley,...

  1. Honda Research Institute | Open Energy Information

    Open Energy Info (EERE)

    search Name: Honda Research Institute Place: Mountain View, California Sector: Biofuels, Solar Product: California-based research institute of Honda. The institute conducts...

  2. Sustainable Europe Research Institute | Open Energy Information

    Open Energy Info (EERE)

    Europe Research Institute Jump to: navigation, search Logo: Sustainable Europe Research Institute Name: Sustainable Europe Research Institute Address: Garnisongasse 721 A -1090...

  3. Industrial Technology Research Institute | Open Energy Information

    Open Energy Info (EERE)

    Technology Research Institute Jump to: navigation, search Logo: Industrial Technology Research Institute Name: Industrial Technology Research Institute Address: Rm. 112, Bldg. 24,...

  4. Low Carbon Research Institute | Open Energy Information

    Open Energy Info (EERE)

    Research Institute Jump to: navigation, search Logo: Low Carbon Research Institute Name: Low Carbon Research Institute Address: King Edward VII Avenue CF10 3NB Place: Cardiff,...

  5. Rocky Mountain Institute | Open Energy Information

    Open Energy Info (EERE)

    Rocky Mountain Institute Jump to: navigation, search Logo: Rocky Mountain Institute Name: Rocky Mountain Institute Address: 1820 Folsom Street Place: Boulder, Colorado Zip: 80302...

  6. Determine Institutional Change Sustainability Goals

    Office of Energy Efficiency and Renewable Energy (EERE)

    The first step in the institutional change process is defining your federal agency's sustainability goals. That is, decide what outcomes are desired (or required) over what period of time. Behavioral, organizational, and institutional changes typically are means to achieve desired energy, resource, or greenhouse gas emission outcomes. They are not ends in and of themselves.

  7. Plumbing Manufacturer's Institute Ex Parte Communication Regarding...

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

    Plumbing Manufacturer's Institute Ex Parte Communication Regarding Showerheads Plumbing Manufacturer's Institute Ex Parte Communication Regarding Showerheads Letter to Department ...

  8. Clean Energy Manufacturing Innovation Institute for Composites...

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

    Clean Energy Manufacturing Innovation Institute for Composites Materials and Structures Clean Energy Manufacturing Innovation Institute for Composites Materials and Structures ...

  9. Manufacturing Innovation Institute for Smart Manufacturing: Advanced...

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

    Manufacturing Innovation Institute for Smart Manufacturing: Advanced Sensors, Controls, Platforms, and Modeling for Manufacturing Manufacturing Innovation Institute for Smart ...

  10. Denver University - International Institute for Environment and...

    Open Energy Info (EERE)

    - International Institute for Environment and Enterprise Name: Denver University - International Institute for Environment and Enterprise Address: 2199 S. University Blvd....

  11. Project Management Institute Highlights Savannah River Nuclear...

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

    Project Management Institute Highlights Savannah River Nuclear Solutions in Publication Project Management Institute Highlights Savannah River Nuclear Solutions in Publication ...

  12. Comprehensive Legacy Management and Institutional Controls Plan

    Office of Legacy Management (LM)

    Department of Energy Comprehensive Legacy Management and Institutional Controls Plan Doc. .........32 Comprehensive Legacy Management and Institutional Controls ...

  13. Comprehensive Legacy Management and Institutional Controls Plan

    Office of Legacy Management (LM)

    Department of Energy Comprehensive Legacy Management and Institutional Controls Plan Doc. .........49 Comprehensive Legacy Management and Institutional Controls ...

  14. Comprehensive Legacy Management and Institutional Controls Plan

    Office of Legacy Management (LM)

    Department of Energy Comprehensive Legacy Management and Institutional Controls Plan Doc. .........52 Comprehensive Legacy Management and Institutional Controls ...

  15. Comprehensive Legacy Management and Institutional Controls Plan

    Office of Legacy Management (LM)

    Department of Energy Comprehensive Legacy Management and Institutional Controls Plan Doc. .........33 Comprehensive Legacy Management and Institutional Controls ...

  16. Comprehensive Legacy Management and Institutional Controls Plan

    Office of Legacy Management (LM)

    Department of Energy Comprehensive Legacy Management and Institutional Controls Plan Doc. .........34 Comprehensive Legacy Management and Institutional Controls ...

  17. Gas Technology Institute (Partnership for Advanced Residential...

    Open Energy Info (EERE)

    Technology Institute (Partnership for Advanced Residential Retrofit) Jump to: navigation, search Name: Gas Technology Institute Place: Des Plaines, IL Website:...

  18. Performance Assessment Institute-NV

    SciTech Connect (OSTI)

    Lombardo, Joesph

    2012-12-31

    The National Supercomputing Center for Energy and the Environment’s intention is to purchase a multi-purpose computer cluster in support of the Performance Assessment Institute (PA Institute). The PA Institute will serve as a research consortium located in Las Vegas Nevada with membership that includes: national laboratories, universities, industry partners, and domestic and international governments. This center will provide a one-of-a-kind centralized facility for the accumulation of information for use by Institutions of Higher Learning, the U.S. Government, and Regulatory Agencies and approved users. This initiative will enhance and extend High Performance Computing (HPC) resources in Nevada to support critical national and international needs in "scientific confirmation". The PA Institute will be promoted as the leading Modeling, Learning and Research Center worldwide. The program proposes to utilize the existing supercomputing capabilities and alliances of the University of Nevada Las Vegas as a base, and to extend these resource and capabilities through a collaborative relationship with its membership. The PA Institute will provide an academic setting for interactive sharing, learning, mentoring and monitoring of multi-disciplinary performance assessment and performance confirmation information. The role of the PA Institute is to facilitate research, knowledge-increase, and knowledge-sharing among users.

  19. Institutional computing (IC) information session

    SciTech Connect (OSTI)

    Koch, Kenneth R; Lally, Bryan R

    2011-01-19

    The LANL Institutional Computing Program (IC) will host an information session about the current state of unclassified Institutional Computing at Los Alamos, exciting plans for the future, and the current call for proposals for science and engineering projects requiring computing. Program representatives will give short presentations and field questions about the call for proposals and future planned machines, and discuss technical support available to existing and future projects. Los Alamos has started making a serious institutional investment in open computing available to our science projects, and that investment is expected to increase even more.

  20. Facility Upgrade - Cyclotron Institute - TAMU

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

    the Cyclotron Institute Facility Upgrade White Paper Follow the links below to open the files, or right click and select "Save Target As..." to save the file to your computer. File...

  1. My Account | Critical Materials Institute

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

    My Account Primary tabs Log in(active tab) Request new password Username * Enter your Critical Materials Institute username. Password * Enter the password that accompanies your username. Log in

  2. Multiple Motivations Institutional Change Principle

    Broader source: Energy.gov [DOE]

    The multiple motivations principle suggests that a portfolio approach—rather than a single strategy—may be required to achieve change. Research demonstrates that people and institutions adopt new...

  3. Hydraulic Institute Mission and Vision:

    Energy Savers [EERE]

    Institute Mission and Vision: Vision: To be a global authority on pumps and pumping systems. Mission: To be a value-adding resource to member companies and pump users worldwide by: * Developing and delivering comprehensive industry standards. * Expanding knowledge by providing education and tools for the effective application, testing, installation, operation and maintenance of pumps and pumping systems. * Serving as a forum for the exchange of industry information. The Hydraulic Institute is a

  4. News Releases | Critical Materials Institute

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

    Releases Critical Materials Institute gains ten industrial and research affiliates, April 11, 2016 How true is conventional wisdom about price volatility of tech metals?, Feb. 11, 2016 Ames Laboratory scientist named to National Academy of Inventors, Jan. 11, 2016 Need rare-earths know-how? The Critical Materials Institute offers lower-cost access to experts and research, December 1, 2015 Get schooled in rare-earth metals: CMI, Iowa State to offer unique materials science class, November 30,

  5. Diverse Lifestyles and Strategies of Plant Pathogenesis Encoded in the Genomes of Eighteen Doethideomycetes Fungi

    SciTech Connect (OSTI)

    Ohm, Robin A.; Feau, Nicolas; Henrissat, Bernard; Schoch, Conrad L.; Horwitz, Benjamin A.; Barry, Kerrie W.; Condon, Bradford J.; Copeland, Alex C.; Dhillon, Braham; Glaser, Fabien; Hesse, Cedar N.; Kosti, Idit; LaButti, Kurt; Lindquist, Erika A.; Lucas, Susan; Salamov, Asaf A.; Bradshaw, Rosie E.; Ciuffetti, Lynda; Hamelin, Richard C.; Kema, Gert H. J.; Lawrence, Christopher; Scott, James A.; Spatafora, Joseph W.; Turgeon, B. Gillian; de Wit, Pierre J. G. M.; Zhong, Shaobin; Goodwin, Stephen B.; Grigoriev, Igor V.

    2012-03-13

    The class of Dothideomycetes is one of the largest and most diverse groups of fungi. Many are plant pathogens and pose a serious threat to agricultural crops grown for biofuel, food or feed. Most Dothideomycetes have only a single host and related species can have very diverse host plants. Eighteen genomes of Dothideomycetes have currently been sequenced by the Joint Genome Institute and other sequencing centers. Here we describe the results of comparative analyses of the fungi in this group.

  6. *** CANCELED *** SCIENCE ON SATURDAY- "Finding a Needle in A (Genomic)

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

    Haystack or How Can Computers Help Cure Cancer" | Princeton Plasma Physics Lab February 9, 2013, 9:30am Science On Saturday MBG Auditorium *** CANCELED *** SCIENCE ON SATURDAY- "Finding a Needle in A (Genomic) Haystack or How Can Computers Help Cure Cancer" Professor Olga G. Troyanskaya Lewis-Sigler Institute for Integrative Genomics & Department of Computer Science, Princeton University Science on Saturday is a series of lectures given by scientists, mathematicians, and

  7. Fungal Genome Sequencing and Bioenergy

    SciTech Connect (OSTI)

    Schadt, Christopher Warren; Baker, Scott; Thykaer, Jette; Adney, William S; Brettin, Tom; Brockman, Fred; Dhaeseleer, Patrick; Martinez, A diego; Miller, R michael; Rokhsar, Daniel; Torok, Tamas; Tuskan, Gerald A; Bennett, Joan; Berka, Randy; Briggs, Steven; Heitman, Joseph; Rizvi, L; Taylor, John; Turgeon, Gillian; Werner-Washburne, Maggie; Himmel, Michael

    2008-01-01

    To date, the number of ongoing filamentous fungal genome sequencing projects is almost tenfold fewer than those of bacterial and archaeal genome projects. The fungi chosen for sequencing represent narrow kingdom diversity; most are pathogens or models. We advocate an ambitious, forward-looking phylogenetic-based genome sequencing program, designed to capture metabolic diversity within the fungal kingdom, thereby enhancing research into alternative bioenergy sources, bioremediation, and fungal-environment interactions.

  8. Fungal Genome Sequencing and Bioenergy

    SciTech Connect (OSTI)

    Baker, Scott; Thykaer, Jette; Adney, William S; Brettin, Tom; Brockman, Fred; Dhaeseleer, Patrick; Martinez, A diego; Miller, R michael; Rokhsar, Daniel; Schadt, Christopher Warren; Torok, Tamas; Tuskan, Gerald A; Bennett, Joan; Berka, Randy; Briggs, Steven; Heitman, Joseph; Taylor, John; Turgeon, Gillian; Werner-Washburne, Maggie; Himmel, Michael E

    2008-01-01

    To date, the number of ongoing filamentous fungal genome sequencing projects is almost tenfold fewer than those of bacterial and archaeal genome projects. The fungi chosen for sequencing represent narrow kingdom diversity; most are pathogens or models. We advocate an ambitious, forward-looking phylogenetic-based genome sequencing program, designed to capture metabolic diversity within the fungal kingdom, thereby enhancing research into alternative bioenergy sources, bioremediation, and fungal-environment interactions. Published by Elsevier Ltd on behalf of The British Mycological Society.

  9. Institutional

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

    Expand Utility Resources News & Events Expand News & Events Skip navigation links Marketing Resources Reports, Publications, and Research Agricultural Commercial Consumer...

  10. The Petascale Data Storage Institute

    SciTech Connect (OSTI)

    Gibson, Garth; Long, Darrell; Honeyman, Peter; Grider, Gary; Kramer, William; Shalf, John; Roth, Philip; Felix, Evan; Ward, Lee

    2013-07-01

    Petascale computing infrastructures for scientific discovery make petascale demands on information storage capacity, performance, concurrency, reliability, availability, and manageability.The Petascale Data Storage Institute focuses on the data storage problems found in petascale scientific computing environments, with special attention to community issues such as interoperability, community buy-in, and shared tools.The Petascale Data Storage Institute is a collaboration between researchers at Carnegie Mellon University, National Energy Research Scientific Computing Center, Pacific Northwest National Laboratory, Oak Ridge National Laboratory, Sandia National Laboratory, Los Alamos National Laboratory, University of Michigan, and the University of California at Santa Cruz.

  11. Category:Academic Institutions | Open Energy Information

    Open Energy Info (EERE)

    title"Alternative Energy Institute">Alternative Energy Institute","title":"Alternative Energy Institute","link":null,"lat":34.9848017,"lon":-101.9100121,"alt":0,"add...

  12. Human Genome Program Image Gallery (from genomics.energy.gov)

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    This collection contains approximately 240 images from the genome programs of DOE's Office of Science. The images are divided into galleries related to biofuels research, systems biology, and basic genomics. Each image has a title, a basic citation, and a credit or source. Most of the images are original graphics created by the Genome Management Information System (GMIS). GMIS images are recognizable by their credit line. Permission to use these graphics is not needed, but please credit the U.S. Department of Energy Genome Programs and provide the website http://genomics.energy.gov. Other images were provided by third parties and not created by the U.S. Department of Energy. Users must contact the person listed in the credit line before using those images. The high-resolution images can be downloaded.

  13. Introduction to Metagenomics at DOE JGI: Program Overview and Program Informatics (Metagenomics Informatics Challenges Workshop: 10K Genomes at a Time)

    ScienceCinema (OSTI)

    Tringe, Susannah [DOE JGI

    2013-01-22

    Susannah Tringe of the DOE Joint Genome Institute talks about the Program Overview and Program Informatics at the Metagenomics Informatics Challenges Workshop held at the DOE JGI on October 12-13, 2011

  14. Southface Energy Institute: Advanced Commercial Buildings Initiative...

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

    Southface Energy Institute: Advanced Commercial Buildings Initiative Lead Performer: Southface Energy Institute - Atlanta, GA Partners: - City of Atlanta - Atlanta, GA - Georgia ...

  15. Australian Solar Institute | Open Energy Information

    Open Energy Info (EERE)

    search Name: Australian Solar Institute Place: Newcastle, New South Wales, Australia Zip: 2300 Sector: Solar Product: New South Wales-based institute providing support...

  16. Paul Scherrer Institut | Open Energy Information

    Open Energy Info (EERE)

    Paul Scherrer Institut Jump to: navigation, search Name: Paul Scherrer Institut Place: Aargau, Villigen Zip: 5232 Number of Employees: 1001-5000 Website: www.psi.ch Coordinates:...

  17. Institute for Environmental Solutions | Open Energy Information

    Open Energy Info (EERE)

    Environmental Solutions Jump to: navigation, search Logo: Institute for Environmental Solutions Name: Institute for Environmental Solutions Address: 761 Newport St. Place: Denver,...

  18. Tokyo Institute of Technology | Open Energy Information

    Open Energy Info (EERE)

    Jump to: navigation, search Name: Tokyo Institute of Technology Place: Tokyo, Tokyo, Japan Zip: 152-8550 Product: The Tokyo Institute of Technology runs collaboration programmes...

  19. Victoria Transport Policy Institute | Open Energy Information

    Open Energy Info (EERE)

    Transport Policy Institute Jump to: navigation, search Name: Victoria Transport Policy Institute Address: 1250 Rudlin Street, Place: Victoria, British Columbia Website:...

  20. Manufacturing Institutes Exhibit American Innovation at Hannover...

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

    Manufacturing Institutes Exhibit American Innovation at Hannover Messe Manufacturing Institutes Exhibit American Innovation at Hannover Messe April 25, 2016 - 4:30pm Addthis The ...

  1. Resources on Institutional Change for Sustainability | Department...

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

    Publications These publications offer information about institutional change programs. Communities of Practice: A Tool for Creating Institutional Change in Support of the Mission ...

  2. Hahn Meitner Institute | Open Energy Information

    Open Energy Info (EERE)

    Meitner Institute Jump to: navigation, search Name: Hahn-Meitner-Institute Place: Berlin, Germany Zip: 14109 Product: Berlin-based, scientific research centre. Coordinates:...

  3. National Environmental Research Institute | Open Energy Information

    Open Energy Info (EERE)

    Research Institute Jump to: navigation, search Name: National Environmental Research Institute Address: Box. 358 Frederiksborgvej 399 DK 4000 Place: Roskilde, Denmark Phone Number:...

  4. Stockholm Environment Institute (SEI) | Open Energy Information

    Open Energy Info (EERE)

    The Stockholm Environment Institute, located in Stockholm, Sweden, is an independent international research institute. The SEI is dedicated to bringing scientific insights to...

  5. Institute for Energy Research | Open Energy Information

    Open Energy Info (EERE)

    Energy Research Jump to: navigation, search Logo: Institute for Energy Research Name: Institute for Energy Research Address: 1415 S. Voss Rd. Place: Houston, Texas Zip: 77057...

  6. Shaoxing Jinggong Mechanical and Electrical Research Institute...

    Open Energy Info (EERE)

    Shaoxing Jinggong Mechanical and Electrical Research Institute Company SJMERI Jump to: navigation, search Name: Shaoxing Jinggong Mechanical and Electrical Research Institute...

  7. EMei Semiconductor Materials Plant Research Institute | Open...

    Open Energy Info (EERE)

    EMei Semiconductor Materials Plant Research Institute Jump to: navigation, search Name: EMei Semiconductor Materials Plant & Research Institute Place: Emei, Sichuan Province, China...

  8. Electronics and Telecommunications Research Institute ETRI |...

    Open Energy Info (EERE)

    and Telecommunications Research Institute ETRI Jump to: navigation, search Name: Electronics and Telecommunications Research Institute (ETRI) Place: Daejeon, Korea (Republic) Zip:...

  9. Solar Living Institute | Open Energy Information

    Open Energy Info (EERE)

    Living Institute Jump to: navigation, search Name: Solar Living Institute Address: 13771 S. Hwy. 101 Place: Hopland, California Zip: 95449 Region: Bay Area Website:...

  10. Energy Biosciences Institute EBI | Open Energy Information

    Open Energy Info (EERE)

    EBI Jump to: navigation, search Name: Energy Biosciences Institute (EBI) Place: Berkeley, California Zip: 94720 Sector: Biofuels Product: US-based research institution...

  11. Institutional Research & Development Reports | National Nuclear...

    National Nuclear Security Administration (NNSA)

    Home About Us Our Programs Defense Programs Future Science & Technology Programs Advanced Simulation and Computing and Institutional R&D Programs Institutional Research ...

  12. Edison Welding Institute | Open Energy Information

    Open Energy Info (EERE)

    Welding Institute Jump to: navigation, search Name: Edison Welding Institute Address: 1250 Arthur E. Adams Drive Place: Columbus, Ohio Zip: 43221-3585 Sector: Efficiency, Services...

  13. ORISE: Oak Ridge Sitewide Institutional Review Board

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

    Oak Ridge Sitewide Institutional Review Board The Federal Policy for the Protection of Human Subjects, also known as the Common Rule, requires that each institution that engages in...

  14. Global Climate Change Institute | Open Energy Information

    Open Energy Info (EERE)

    Change Institute Jump to: navigation, search Name: Global Climate Change Institute Place: Tsinghua University, Beijing Municipality, China Zip: 100084 Product: Global Climate...

  15. Comprehensive Legacy Management and Institutional Controls Plan

    Office of Legacy Management (LM)

    Department of Energy Comprehensive Legacy Management and Institutional Controls Plan Doc. ... Appendix A Contact List Comprehensive Legacy Management and Institutional Controls ...

  16. Comprehensive Legacy Management and Institutional Controls Plan

    Office of Legacy Management (LM)

    Fernald Preserve, Fernald, Ohio Comprehensive Legacy Management and Institutional Controls ... blank LMSFERS03496-9.0 Comprehensive Legacy Management and Institutional Controls ...

  17. Contacts: Alex King, Director, Critical Materials Institute,...

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

    Institute researchers named Most Influential Scientific Minds of 2014 Contacts: Alex King, Director, Critical Materials Institute, (515) 296-4505 Laura Millsaps, Public Affairs,...

  18. International Institute for Sustainable Development (IISD) |...

    Open Energy Info (EERE)

    by working collaboratively with other institutions -building long term strategic alliances, while retaining the institutional agility necessary to confront the challenges of...

  19. Alternative Energy Institute | Open Energy Information

    Open Energy Info (EERE)

    Alternative Energy Institute Name: Alternative Energy Institute Address: 2402 russell long blvd Place: Canyon, Texas Zip: 79016 Region: Texas Area Number of Employees: 11-50 Year...

  20. Category:Public Institutions | Open Energy Information

    Open Energy Info (EERE)

    :,"polygons":,"circles":,"rectangles":,"locations":"text":"Institute" title"Alternative Energy Institute">Alternative Energy...

  1. Institute of Geophysics, Planetary Physics, and Signatures

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

    Institute of Geophysics, Planetary Physics, and Signatures Institute of Geophysics, Planetary Physics, and Signatures Promoting and supporting high-quality, cutting-edge science in...

  2. Renewable Energy Institute International | Open Energy Information

    Open Energy Info (EERE)

    International Jump to: navigation, search Logo: Renewable Energy Institute International Name: Renewable Energy Institute International Address: 5022 Bailey Loop Place: McClellan,...

  3. Joint BioEnergy Institute

    SciTech Connect (OSTI)

    Keasling, Jay; Simmons, Blake; Tartaglino, Virginia; Baidoo, Edward; Kothari, Ankita

    2015-06-15

    The Joint BioEnergy Institute (JBEI) is a U.S. Department of Energy (DOE) Bioenergy Research Center dedicated to developing advanced biofuelsliquid fuels derived from the solar energy stored in plant biomass that can replace gasoline, diesel and jet fuels.

  4. NERSC Nick Balthaser NERSC Storage Systems Group

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

    Introduction to HPSS at NERSC Nick Balthaser NERSC Storage Systems Group nabalthaser@lbl.gov Joint Genome Institute, Walnut Creek, CA Feb 10, 2011 * NERSC Archive Technologies Overview * Use Cases for the Archive * Hands-on: - Authentication - Client Usage and Examples * Client Installation Agenda 2 * Current data volume: 12PB in 100M files written to 26k tapes (user system) * Permanent storage is magnetic tape, disk cache is transient - All data written to HPSS goes through the disk cache -

  5. Department of Energy - Chromosomes News Release 4/13/2000

    Office of Scientific and Technical Information (OSTI)

    FOR IMMEDIATE RELEASE April 13, 2000 NEWS MEDIA CONTACT: Jeff Sherwood, 202/586-5806 Ron Kolb (JGI), 510/486-7586 Researchers Decode Three Human Chromosomes Information May Lead to Treatments for Kidney Disease, Diabetes and Prostate and Colorectal Cancer U.S. Secretary of Energy Bill Richardson announced today that researchers at the Department of Energy’s Joint Genome Institute in Walnut Creek, California, have decoded in draft form the genetic information on human chromosomes 5, 16 and 19.

  6. The genome of Eucalyptus grandis

    SciTech Connect (OSTI)

    Myburg, Alexander A; Grattapaglia, Dario; Tuskan, Gerald A; Yang, Xiaohan; Priya, Ranjan; Tschaplinski, Timothy J; Ye, Chuyu; Li, Ting

    2014-01-01

    Eucalypts are the world s most widely planted hardwood trees. Their broad adaptability, rich species diversity, fast growth and superior multipurpose wood, have made them a global renewable resource of fiber and energy that mitigates human pressures on natural forests. We sequenced and assembled >94% of the 640 Mbp genome of Eucalyptus grandis into its 11 chromosomes. A set of 36,376 protein coding genes were predicted revealing that 34% occur in tandem duplications, the largest proportion found thus far in any plant genome. Eucalypts also show the highest diversity of genes for plant specialized metabolism that act as chemical defence against biotic agents and provide unique pharmaceutical oils. Resequencing of a set of inbred tree genomes revealed regions of strongly conserved heterozygosity, likely hotspots of inbreeding depression. The resequenced genome of the sister species E. globulus underscored the high inter-specific genome colinearity despite substantial genome size variation in the genus. The genome of E. grandis is the first reference for the early diverging Rosid order Myrtales and is placed here basal to the Eurosids. This resource expands knowledge on the unique biology of large woody perennials and provides a powerful tool to accelerate comparative biology, breeding and biotechnology.

  7. Saint Joseph's University Institute for Environmental Stewardship

    SciTech Connect (OSTI)

    McCann, Michael; Springer, Clint

    2014-06-18

    Task A: Examination of the physiological, morphological, and reproductive responses of Panicum virgatum (switchgrass) cultivars identified as potential biofuel producing cultivars as well as naturally-occurring varieties of switchgrass to projected changes in climate for the central portion of the United States. This project was a multi-year project set in a field site located at the Konza Prairie Biological Station near Manhattan, KS USA. The major objective of the study was to understand the physiological and growth responses of the important biofuel grass species, Panicum virgatum (switch grass) to simulated changes in precipitation expected for the Central Plains region of the United States. Population level adaptation to broad-scale regional climates or within-population variation in genome size of this genetically and phenotypically diverse C4 grass species may influence the responses to future precipitation variability associated with climate change. Therefore, we investigated switchgrass responses to water variability between natural populations collected across latitudinal gradient and populations. P. virgatum plants from natural populations originating from Kansas, Oklahoma, and Texas received frequent, small precipitation events (“ambient’) or infrequent, large precipitation events (‘altered”) to simulate contrasting rainfall variability expected from this region. We measured leaf-level physiology, aboveground biomass varied significantly by population origin but did not differ by genome size. Our results suggest that trait variation in P. virgatum is primarily attributed to population-level adaptation across latitudinal gradient, not genome size, and that neither population-level adaptation nor genome size may be important predictors of P. virgatum responses to future climatic conditions. Based solely on the data presented here, the most important consideration when deciding what varieties of switchgrass to cultivate for biofuel feedstocks under future climate scenarios is local adaptation and not necessarily genome size as has been hypothesized in the literature. Task B: Installation of an extensive green roof system on the Science Center at Saint Joseph's University for research, research-training and educational outreach activities. An experimental green roof system was designed and installed by an outside contractor (Roofmeadows) on the roof of the Science Center at Saint Joseph's University. The roof system includes four test plots, each with a different drainage system, instrumentation to monitor storm water retention, roof deck temperature, heat flux into and out of the building, rain fall, wind speed and direction, relative humidity and heat emission from the roof system. The vegetative roof was planted with 26 species of plants, distributed throughout the roof area, to assess species/variety growth and coverage characteristics, both in terms of the different drain layer systems, and in terms of the different exposures along the north to south axis of the building. Analysis of the drain layer performance, in terms of storm water retention, shows that the aggregate (stone) drainage layer system performed the best, with the moisture management mat system second, and the geotextile drain layer and reservoir sheet layer systems coming in last. This information is of value in the planning and design of vegetative roof systems since the different types of drainage layer systems have different installation costs and different weights. The different drainage layer systems also seem to be having an impact on plant growth and spread with the test plot with the reservoir sheet layer actually having the poorest plant coverage and plant spread of all areas of the roof studied. Plant growth performance analysis is ongoing, but significant differences have been observed in the third growing season ('13) along the north to south axis, with most species doing better towards the northern end of the roof (in terms of percent ground coverage and plant spread and reproduction). Interestingly, plant growth in all four of the test plots was reduced relative to the lower areas of the roof (the lower area was ca. 2 inches lower than the test plots, due to the space needed for sensors under the plots. The lower roof area uses an aggregate drain layer comparable to that in the third test plot), even when accounting for the north to south differences. The reasons for these differences are not clear and studies are underway to examine the impact of wind scour, drainage rates, temperature, and other factors. This information will be of value to planners of extensive vegetative roof systems in the Philadelphia (and broader) region, since plant growth and roof system overall performance is influenced by local climate, making broad generalizations of performance difficult. Task C: Education and community outreach efforts by the IES involving conferences at SJU, presentations by faculty and students off campus, and educational signage. The Institute for Environmental Stewardship hosted three storm water management workshops on the SJU campus in Philadelphia, in collaboration with the Lower Merion Conservancy, a not-for-profit organization located in Montgomery County, PA. These workshops were free and open to the public. The three workshops (held each year in March) drew more than 200 participants total. The presenters included local and state government agencies, not for profit organizations involved in storm water and open space preservation, designers, engineers, planners and others. Feedback was uniformly positive and we plan to continue the workshops for the foreseeable future. Educational signage has been installed at four locations on campus to explain campus infrastructure related to storm water (rain gardens, vegetative roof and green facades), as well as detailed signage installed on the Science Center roof for the vegetative roof system. More than 100 people (from in and outside of SJU) have thus far participated in tours of the roof system. A digital signage system has been installed in the adjacent library and this system provides information about the vegetative roof project and other efforts. A web camera system for the roof has also been installed and the video will be simulcast to the digital signage and with web site (www.sju.edu/ies) in the near future.

  8. Saint Joseph's University Institute for Environmental Stewardship

    SciTech Connect (OSTI)

    McCann, Micahel P.; Springer, Clint J.

    2014-06-03

    Task A: Examination of the physiological, morphological, and reproductive responses of Panicum virgatum (switchgrass) cultivars identified as potential biofuel producing cultivars as well as naturally-occurring varieties of switchgrass to projected changes in climate for the central portion of the United States. This project was a multi-year project set in a field site located at the Konza Prairie Biological Station near Manhattan, KS USA. The major objective of the study was to understand the physiological and growth responses of the important biofuel grass species, Panicum virgatum (switch grass) to simulated changes in precipitation expected for the Central Plains region of the United States. Population level adaptation to broad-scale regional climates or within-population variation in genome size of this genetically and phenotypically diverse C4 grass species may influence the responses to future precipitation variability associated with climate change. Therefore, we investigated switchgrass responses to water variability between natural populations collected across latitudinal gradient and populations. P. virgatum plants from natural populations originating from Kansas, Oklahoma, and Texas received frequent, small precipitation events (“ambient’) or infrequent, large precipitation events (‘altered”) to simulate contrasting rainfall variability expected from this region. We measured leaf-level physiology, aboveground biomass varied significantly by population origin but did not differ by genome size. Our results suggest that trait variation in P. virgatum is primarily attributed to population-level adaptation across latitudinal gradient, not genome size, and that neither population-level adaptation nor genome size may be important predictors of P. virgatum responses to future climatic conditions. Based solely on the data presented here, the most important consideration when deciding what varieties of switchgrass to cultivate for biofuel feedstocks under future climate scenarios is local adaptation and not necessarily genome size as has been hypothesized in the literature. Task B: Installation of an extensive green roof system on the Science Center at Saint Joseph's University for research, research-training and educational outreach activities. An experimental green roof system was designed and installed by an outside contractor (Roofmeadows) on the roof of the Science Center at Saint Joseph's University. The roof system includes four test plots, each with a different drainage system, instrumentation to monitor storm water retention, roof deck temperature, heat flux into and out of the building, rain fall, wind speed and direction, relative humidity and heat emission from the roof system. The vegetative roof was planted with 26 species of plants, distributed throughout the roof area, to assess species/variety growth and coverage characteristics, both in terms of the different drain layer systems, and in terms of the different exposures along the north to south axis of the building. Analysis of the drain layer performance, in terms of storm water retention, shows that the aggregate (stone) drainage layer system performed the best, with the moisture management mat system second, and the geotextile drain layer and reservoir sheet layer systems coming in last. This information is of value in the planning and design of vegetative roof systems since the different types of drainage layer systems have different installation costs and different weights. The different drainage layer systems also seem to be having an impact on plant growth and spread with the test plot with the reservoir sheet layer actually having the poorest plant coverage and plant spread of all areas of the roof studied. Plant growth performance analysis is ongoing, but significant differences have been observed in the third growing season ('13) along the north to south axis, with most species doing better towards the northern end of the roof (in terms of percent ground coverage and plant spread and reproduction). Interestingly, plant growth in all four of the test plots was reduced relative to the lower areas of the roof (the lower area was ca. 2 inches lower than the test plots, due to the space needed for sensors under the plots. The lower roof area uses an aggregate drain layer comparable to that in the third test plot), even when accounting for the north to south differences. The reasons for these differences are not clear and studies are underway to examine the impact of wind scour, drainage rates, temperature, and other factors. This information will be of value to planners of extensive vegetative roof systems in the Philadelphia (and broader) region, since plant growth and roof system overall performance is influenced by local climate, making broad generalizations of performance difficult. Task C: Education and community outreach efforts by the IES involving conferences at SJU, presentations by faculty and students off campus, and educational signage. The Institute for Environmental Stewardship hosted three storm water management workshops on the SJU campus in Philadelphia, in collaboration with the Lower Merion Conservancy, a not-for-profit organization located in Montgomery County, PA. These workshops were free and open to the public. The three workshops (held each year in March) drew more than 200 participants total. The presenters included local and state government agencies, not for profit organizations involved in storm water and open space preservation, designers, engineers, planners and others. Feedback was uniformly positive and we plan to continue the workshops for the foreseeable future. Educational signage has been installed at four locations on campus to explain campus infrastructure related to storm water (rain gardens, vegetative roof and green facades), as well as detailed signage installed on the Science Center roof for the vegetative roof system. More than 100 people (from in and outside of SJU) have thus far participated in tours of the roof system. A digital signage system has been installed in the adjacent library and this system provides information about the vegetative roof project and other efforts. A web camera system for the roof has also been installed and the video will be simulcast to the digital signage and with web site (www.sju.edu/ies) in the near future.

  9. Saint Joseph's University Institute for Environmental Stewardship

    SciTech Connect (OSTI)

    McCann, Michael P.; Springer, Clint J.

    2014-06-05

    Task A: Examination of the physiological, morphological, and reproductive responses of Panicum virgatum (switchgrass) cultivars identified as potential biofuel producing cultivars as well as naturally-occurring varieties of switchgrass to projected changes in climate for the central portion of the United States. This project was a multi-year project set in a field site located at the Konza Prairie Biological Station near Manhattan, KS USA. The major objective of the study was to understand the physiological and growth responses of the important biofuel grass species, Panicum virgatum (switch grass) to simulated changes in precipitation expected for the Central Plains region of the United States. Population level adaptation to broad-scale regional climates or within-population variation in genome size of this genetically and phenotypically diverse C4 grass species may influence the responses to future precipitation variability associated with climate change. Therefore, we investigated switchgrass responses to water variability between natural populations collected across latitudinal gradient and populations. P. virgatum plants from natural populations originating from Kansas, Oklahoma, and Texas received frequent, small precipitation events (“ambient’) or infrequent, large precipitation events (‘altered”) to simulate contrasting rainfall variability expected from this region. We measured leaf-level physiology, aboveground biomass varied significantly by population origin but did not differ by genome size. Our results suggest that trait variation in P. virgatum is primarily attributed to population-level adaptation across latitudinal gradient, not genome size, and that neither population-level adaptation nor genome size may be important predictors of P. virgatum responses to future climatic conditions. Based solely on the data presented here, the most important consideration when deciding what varieties of switchgrass to cultivate for biofuel feedstocks under future climate scenarios is local adaptation and not necessarily genome size as has been hypothesized in the literature. Task B: Installation of an extensive green roof system on the Science Center at Saint Joseph's University for research, research-training and educational outreach activities. An experimental green roof system was designed and installed by an outside contractor (Roofmeadows) on the roof of the Science Center at Saint Joseph's University. The roof system includes four test plots, each with a different drainage system, instrumentation to monitor storm water retention, roof deck temperature, heat flux into and out of the building, rain fall, wind speed and direction, relative humidity and heat emission from the roof system. The vegetative roof was planted with 26 species of plants, distributed throughout the roof area, to assess species/variety growth and coverage characteristics, both in terms of the different drain layer systems, and in terms of the different exposures along the north to south axis of the building. Analysis of the drain layer performance, in terms of storm water retention, shows that the aggregate (stone) drainage layer system performed the best, with the moisture management mat system second, and the geotextile drain layer and reservoir sheet layer systems coming in last. This information is of value in the planning and design of vegetative roof systems since the different types of drainage layer systems have different installation costs and different weights. The different drainage layer systems also seem to be having an impact on plant growth and spread with the test plot with the reservoir sheet layer actually having the poorest plant coverage and plant spread of all areas of the roof studied. Plant growth performance analysis is ongoing, but significant differences have been observed in the third growing season ('13) along the north to south axis, with most species doing better towards the northern end of the roof (in terms of percent ground coverage and plant spread and reproduction). Interestingly, plant growth in all four of the test plots was reduced relative to the lower areas of the roof (the lower area was ca. 2 inches lower than the test plots, due to the space needed for sensors under the plots. The lower roof area uses an aggregate drain layer comparable to that in the third test plot), even when accounting for the north to south differences. The reasons for these differences are not clear and studies are underway to examine the impact of wind scour, drainage rates, temperature, and other factors. This information will be of value to planners of extensive vegetative roof systems in the Philadelphia (and broader) region, since plant growth and roof system overall performance is influenced by local climate, making broad generalizations of performance difficult. Task C: Education and community outreach efforts by the IES involving conferences at SJU, presentations by faculty and students off campus, and educational signage. The Institute for Environmental Stewardship hosted three storm water management workshops on the SJU campus in Philadelphia, in collaboration with the Lower Merion Conservancy, a not-for-profit organization located in Montgomery County, PA. These workshops were free and open to the public. The three workshops (held each year in March) drew more than 200 participants total. The presenters included local and state government agencies, not for profit organizations involved in storm water and open space preservation, designers, engineers, planners and others. Feedback was uniformly positive and we plan to continue the workshops for the foreseeable future. Educational signage has been installed at four locations on campus to explain campus infrastructure related to storm water (rain gardens, vegetative roof and green facades), as well as detailed signage installed on the Science Center roof for the vegetative roof system. More than 100 people (from in and outside of SJU) have thus far participated in tours of the roof system. A digital signage system has been installed in the adjacent library and this system provides information about the vegetative roof project and other efforts. A web camera system for the roof has also been installed and the video will be simulcast to the digital signage and with web site (www.sju.edu/ies) in the near future.

  10. PNNL: About PNNL - Institutional Partnerships

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

    Research, Development, and Deployment Collaborations See what we offer universities, other research institutions, and private industry. We look forward to working with you! For Universities Here's what we offer our university partners: Paloma Borque and Andrea Neumann Paloma Borque of McGill University and Andrea Neumann of the University of North Dakota monitor sophisticated instruments onboard an atmospheric research aircraft as part of a climate field study. It's part of a national,

  11. University of Delaware Energy Institute

    SciTech Connect (OSTI)

    Klein, Michael T

    2012-09-30

    The main goal of this project funded through this DOE grant is to help in the establishment of the University of Delaware Energy Institute (UDEI) which is designed to be a long-term, on-going project. The broad mission of UDEI is to develop collaborative programs encouraging research activities in the new and emerging energy technologies and to partner with industry and government in meeting the challenges posed by the nationâ??s pressing energy needs.

  12. PNNL: About PNNL - Institutional Partnerships

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

    Collaborate to Address Complex, National Challenges By working with other experts and sharing information, we can make significant advances in science and in technological solutions for the nation. See what we offer universities, other research institutions, and private industry. Why Collaborate With Us? Tap into unique capabilities and expertise. For example: Dr. Jonas Warneke Jonas Warneke received the Feodor Lynen Research Fellowship to advance catalysis research at PNNL. Image copyright:

  13. Information Science & Technology Institute

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

    Opportunities » ISTI Information Science & Technology Institute Providing connection to program management for capability needs, as well as IS&T integration and support for mission-critical centers and activities. Contact Leader Francis Alexander (505) 665-4518 Email Deputy Carolyn Connor (505) 665-9891 Email Professional Staff Assistant Josephine Olivas (505) 663-5725 Email Enhancing capabilities in information science and technology by fostering science, technology, and engineering to

  14. Human genome. 1993 Program report

    SciTech Connect (OSTI)

    Not Available

    1994-03-01

    The purpose of this report is to update the Human Genome 1991-92 Program Report and provide new information on the DOE genome program to researchers, program managers, other government agencies, and the interested public. This FY 1993 supplement includes abstracts of 60 new or renewed projects and listings of 112 continuing and 28 completed projects. These two reports, taken together, present the most complete published view of the DOE Human Genome Program through FY 1993. Research is progressing rapidly toward 15-year goals of mapping and sequencing the DNA of each of the 24 different human chromosomes.

  15. Challenges in Whole-Genome Annotation of Pyrosequenced Eukaryotic Genomes

    SciTech Connect (OSTI)

    Kuo, Alan; Grigoriev, Igor

    2009-04-17

    Pyrosequencing technologies such as 454/Roche and Solexa/Illumina vastly lower the cost of nucleotide sequencing compared to the traditional Sanger method, and thus promise to greatly expand the number of sequenced eukaryotic genomes. However, the new technologies also bring new challenges such as shorter reads and new kinds and higher rates of sequencing errors, which complicate genome assembly and gene prediction. At JGI we are deploying 454 technology for the sequencing and assembly of ever-larger eukaryotic genomes. Here we describe our first whole-genome annotation of a purely 454-sequenced fungal genome that is larger than a yeast (>30 Mbp). The pezizomycotine (filamentous ascomycote) Aspergillus carbonarius belongs to the Aspergillus section Nigri species complex, members of which are significant as platforms for bioenergy and bioindustrial technology, as members of soil microbial communities and players in the global carbon cycle, and as agricultural toxigens. Application of a modified version of the standard JGI Annotation Pipeline has so far predicted ~;;10k genes. ~;;12percent of these preliminary annotations suffer a potential frameshift error, which is somewhat higher than the ~;;9percent rate in the Sanger-sequenced and conventionally assembled and annotated genome of fellow Aspergillus section Nigri member A. niger. Also,>90percent of A. niger genes have potential homologs in the A. carbonarius preliminary annotation. Weconclude, and with further annotation and comparative analysis expect to confirm, that 454 sequencing strategies provide a promising substrate for annotation of modestly sized eukaryotic genomes. We will also present results of annotation of a number of other pyrosequenced fungal genomes of bioenergy interest.

  16. Genomic Aspects of Research Involving Polyploid Plants

    SciTech Connect (OSTI)

    Yang, Xiaohan [ORNL; Ye, Chuyu [ORNL; Tschaplinski, Timothy J [ORNL; Wullschleger, Stan D [ORNL; Tuskan, Gerald A [ORNL

    2011-01-01

    Almost all extant plant species have spontaneously doubled their genomes at least once in their evolutionary histories, resulting in polyploidy which provided a rich genomic resource for evolutionary processes. Moreover, superior polyploid clones have been created during the process of crop domestication. Polyploid plants generated by evolutionary processes and/or crop domestication have been the intentional or serendipitous focus of research dealing with the dynamics and consequences of genome evolution. One of the new trends in genomics research is to create synthetic polyploid plants which provide materials for studying the initial genomic changes/responses immediately after polyploid formation. Polyploid plants are also used in functional genomics research to study gene expression in a complex genomic background. In this review, we summarize the recent progress in genomics research involving ancient, young, and synthetic polyploid plants, with a focus on genome size evolution, genomics diversity, genomic rearrangement, genetic and epigenetic changes in duplicated genes, gene discovery, and comparative genomics. Implications on plant sciences including evolution, functional genomics, and plant breeding are presented. It is anticipated that polyploids will be a regular subject of genomics research in the foreseeable future as the rapid advances in DNA sequencing technology create unprecedented opportunities for discovering and monitoring genomic and transcriptomic changes in polyploid plants. The fast accumulation of knowledge on polyploid formation, maintenance, and divergence at whole-genome and subgenome levels will not only help plant biologists understand how plants have evolved and diversified, but also assist plant breeders in designing new strategies for crop improvement.

  17. Human Genome Research: Decoding DNA

    Office of Scientific and Technical Information (OSTI)

    Decoding DNA Resources with Additional Information Charles DeLisi As head of DOE's Office of Health and Environmental Research, Charles DeLisi played a pivotal role in proposing and initiating the Human Genome Program in 1986. The U.S. Department of Energy (DOE) has historically been active in supporting human genome research. On September 10, 2003, Secretary of Energy Spencer Abraham presented the Secretary's Gold Award to Aristides Patrinos and Francis Collins for their leadership of the

  18. Structural Genomics: Expectations and Reality

    Office of Scientific and Technical Information (OSTI)

    Impact of Structural Genomics: Expectations and Outcomes Running head: Same Authors: John-Marc Chandonia 1 and Steven E. Brenner 1,2 Address for correspondence: Steven E. Brenner Department of Plant and Microbial Biology 461A Koshland Hall University of California Berkeley, CA 94720-3102 email: brenner@compbio.berkeley.edu fax: (413) 280-7813 Affiliations: 1 - Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA 2 -

  19. WIPP - Passive Institutional Controls (PICs)

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

    The U.S. Department of Energy has developed a program for the development of Passive Institutional Controls to alert future generations to the potential hazards of intersecting the Waste Isolation Pilot Plant (WIPP) repository. These controls are required by U.S. Environmental Protection Agency [Title 40 CFR, Sections 191.14 and 194.43]. The purpose of a passive control, or a PIC, is to indicate the location of the repository and to convey the dangers associated with human exposure to the

  20. Critical Materials Institute Affiliates Program

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

    4 Critical Materials Institute Affiliates Program MEMBER AGREEMENT ("Agreement") WHEREAS, The Ames Laboratory ("AMES"), a U.S. Department of Energy ("DOE") National Laboratory operated by Iowa State University of Science and Technology ("ISU") under the authority of its Contract DE-AC02-07CH11358, with administrative offices at 311 TASF, Ames, IA 50011-3020, is the recipient of funding from the U.S. Department of Energy's Office of Energy Efficiency and

  1. Comparative Genome Structure, Secondary Metabolite, and Effector Coding Capacity across Cochliobolus Pathogens

    SciTech Connect (OSTI)

    Condon, Bradford J.; Leng, Yueqiang; Wu, Dongliang; Bushley, Kathryn E.; Ohm, Robin A.; Otillar, Robert; Martin, Joel; Schackwitz, Wendy; Grimwood, Jane; MohdZainudin, NurAinlzzati; Xue, Chunsheng; Wang, Rui; Manning, Viola A.; Dhillon, Braham; Tu, Zheng Jin; Steffenson, Brian J.; Salamov, Asaf; Sun, Hui; Lowry, Steve; LaButti, Kurt; Han, James; Copeland, Alex; Lindquist, Erika; Barry, Kerrie; Schmutz, Jeremy; Baker, Scott E.; Ciuffetti, Lynda M.; Grigoriev, Igor V.; Zhong, Shaobin; Turgeon, B. Gillian

    2013-01-24

    The genomes of five Cochliobolus heterostrophus strains, two Cochliobolus sativus strains, three additional Cochliobolus species (Cochliobolus victoriae, Cochliobolus carbonum, Cochliobolus miyabeanus), and closely related Setosphaeria turcica were sequenced at the Joint Genome Institute (JGI). The datasets were used to identify SNPs between strains and species, unique genomic regions, core secondary metabolism genes, and small secreted protein (SSP) candidate effector encoding genes with a view towards pinpointing structural elements and gene content associated with specificity of these closely related fungi to different cereal hosts. Whole-genome alignment shows that three to five of each genome differs between strains of the same species, while a quarter of each genome differs between species. On average, SNP counts among field isolates of the same C. heterostrophus species are more than 25 higher than those between inbred lines and 50 lower than SNPs between Cochliobolus species. The suites of nonribosomal peptide synthetase (NRPS), polyketide synthase (PKS), and SSP encoding genes are astoundingly diverse among species but remarkably conserved among isolates of the same species, whether inbred or field strains, except for defining examples that map to unique genomic regions. Functional analysis of several strain-unique PKSs and NRPSs reveal a strong correlation with a role in virulence.

  2. The mouse genome informatics and the mouse genome database

    SciTech Connect (OSTI)

    Maltais, L.J.; Blackburn, R.E.; Bradt, D.W.

    1994-09-01

    The Mouse Genome Database (MGD) is a centralized, comprehensive database of the mouse genome that includes genetic mapping data, comparative mapping data, gene descriptions, mutant phenotype descriptions, strains and allelic polymorphism data, inbred strain characteristics, physical mapping data, and molecular probes and clones data. Data in MGD are obtained from the published literature and by electronic transfer from laboratories working on large backcross panels of mice. MGD provides tools that enable the user to search the database, retrieve data, generate reports, analyze data, annotate records, and build genetic maps. The Encyclopedia of the Mouse Genome provides a graphic user interface to mouse genome data. It consists of software tools including: LinkMap, a graphic display of genetic linkage maps with the ability to magnify regions of high locus density: CytoMap, a graphic display of cytogenetic maps showing banded chromosomes with cytogenetic locations of genes and chromosomal aberrations; CATS, a catalog searching tool for text retrieval of mouse locus descriptions. These software tools provide access to the following data sets: Chromosome Committee Reports, MIT Genome Center data, GBASE reports, Mouse Locus Catalog (MLC), and Mouse Cytogenetic Mapping Data. The MGD is available to the scientific community through the World Wide Web (WWW) and Gopher. In addition GBASE can be accessed via the Internet.

  3. The Energy Institute | Open Energy Information

    Open Energy Info (EERE)

    The Energy Institute (EI), located in London, United Kingdom, is a professional support body for nearly 13,500 professionals worldwide. The Energy Institute is a tool for society...

  4. Energy & Geoscience Institute | Open Energy Information

    Open Energy Info (EERE)

    Institute Name: Energy & Geoscience Institute Address: 423 Wakara way, Suite 300 Place: Salt Lake City, Utah Zip: 84108 Region: Utah Number of Employees: 51-200 Year Founded: 1972...

  5. Institutional Plan FY 2003 - 2007

    SciTech Connect (OSTI)

    Chartock, Michael; Hansen, Todd

    2003-01-27

    The Fiscal Year (FY) 2003-2007 Institutional Plan describes the strategic directions and key issues that Lawrence Berkeley National Laboratory management must address with the Department of Energy (DOE) in charting its future as a multiprogram national laboratory. The Plan provides an overview of the Laboratory's mission, strategic plan, initiatives, and the resources required to fulfill its role in support of national needs in fundamental science and technology, energy resources, and environmental quality. The Plan facilitates the Department of Energy's ongoing efforts to strengthen the Integrated Laboratory System. Preparation and review of the Institutional Plan is one element of the Department of Energy's strategic management planning activities, implemented through an annual planning process. The Plan supports the President's Management Agenda and the Government Performance and Results Act of 1993. The Plan complements the current performance-based contract between the Department of Energy and the Regents of the University of California, and summarizes Best Management Practices for a potential future results-based contract as a basis for achieving DOE goals and the Laboratory's scientific and operations objectives. It identifies technical and administrative directions in the context of national energy policy and research needs and the Department of Energy's program planning initiatives. Preparation of the Plan is coordinated by the Planning and Strategic Development Office from information contributed by Berkeley Lab's scientific and support divisions and DOE comments on prior years' plans. The Laboratory Mission section identifies the specific strengths of Berkeley Lab that contribute to the mission in general and the Integrated Laboratory System in particular. The Laboratory Strategic Plan section identifies the existing activities in support of DOE Office of Science and other sponsors; support for DOE goals; and the Laboratory Scientific Vision and operations goals. The Initiatives section describes some of the specific new research programs representing major long-term opportunities for the Department of Energy and Berkeley Lab. The Operations Strategic Planning section describes our strategic thinking in the areas of human resources; site and cyber security; workforce diversity; communications and trust; integrated safety management; and technology transfer activities. The Infrastructure Strategic Planning section describes Berkeley Lab's facilities planning process and our site and facility needs. The Summary of Major Issues section provides context for discussions at the Institutional Planning On-Site Review. The Resource Projections are estimates of required budgetary authority for Berkeley Lab's research programs.

  6. Minority Serving Institutions | Department of Energy

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

    Serving Institutions Minority Serving Institutions Map by Matt Loveless, Department of Energy. Our Office of Minority Economic Impact works daily to tap into the talents of students and faculty attending our nation's Minority Serving Institutions. To accomplish the mission of the Department of Energy, we need the best and brightest individuals to work at and partner with the Department. We're proud of the work of our Minority Educational Institution partners, and we work to advance our

  7. Biomass IBR Fact Sheet: Gas Technology Institute

    Broader source: Energy.gov [DOE]

    Gas Technology Institute will conduct research and development on hydropyrolysis and hydroconversion processes to make gasoline and diesel.

  8. White House Announces Eighth Manufacturing Innovation Institute |

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

    Department of Energy White House Announces Eighth Manufacturing Innovation Institute White House Announces Eighth Manufacturing Innovation Institute April 6, 2016 - 4:49pm Addthis On Thursday, April 1, the White House announced a new institute which will focus on revolutionary fibers and textile manufacturing. This new institute is the eighth manufacturing hub to be awarded as part of the National Network for Manufacturing Innovation (NNMI). Collectively, the federal government's commitment

  9. Financial Institution Lending Programs | Department of Energy

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

    Financial Institution Lending Programs Financial Institution Lending Programs Financial institution loans for clean energy projects are originated and serviced through an entity other than the government, typically banks. In this case, a state or local government is not the finance program administrator, but may still play a role through credit enhancement or providing capital for the loan pool or both. Loans from financial institutions can be structured in many different ways and often look

  10. Resources on Institutional Change for Sustainability

    Broader source: Energy.gov [DOE]

    The Federal Energy Management Program (FEMP) offers resources to help agencies achieve institutional change in their organizations.

  11. Local Information - Radiation Effects Facility / Cyclotron Institute...

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

    These pages provide visitor and travel information for the cyclotron institute and College Station, texas. Quick Links Parking Map

  12. Francesco Grilli: Karlsruhe Institute of Technology

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

    Francesco Grilli: Karlsruhe Institute of Technology Alumni Link: Opportunities, News and Resources for Former Employees Latest Issue:September 2015 all issues All Issues » submit Francesco Grilli: Karlsruhe Institute of Technology High-temperature superconductors January 1, 2015 Francesco Grilli Francesco Grilli Contact Linda Anderman Email Peter Hosemann Francesco Grilli now at Karlsruhe Institute of Technology After graduating with his Ph.D. from the Swiss Federal Institute of Technology in

  13. Ecogenomics Sheds Light on Synergistic Networks of Microbial Dark Matter in a

    SciTech Connect (OSTI)

    Nobu, Masaru [University of Illinois at Urbana-Champaign

    2014-03-19

    Masaru Nobu, University of Illinois at Urbana-Champaign, speaking at the 9th Annual Genomics of Energy & Environment Meeting on March 19, 2014 in Walnut Creek, Calif.

  14. Unlocking Plant Metabolic Diversity

    SciTech Connect (OSTI)

    Osbourn, Anne [John Innes Centre

    2014-03-19

    Anne Osbourn, John Innes Centre, UK, at the 9th Annual Genomics of Energy & Environment Meeting on March 19, 2014 in Walnut Creek, Calif.

  15. Understanding the Forest Microbiome: A Fungal Perspective

    SciTech Connect (OSTI)

    Vilgalys, Rytas [Duke University

    2014-03-19

    Rytas Vilgalys, Duke University, speaking at the 9th Annual Genomics of Energy & Environment Meeting on March 19, 2014 in Walnut Creek, Calif

  16. Mapping Soil Carbon from Cradle to Grave: Identifying the Microbial Blueprint for Root-carbon Transformations in Soil

    SciTech Connect (OSTI)

    Nuccio, Erin [Lawrence Livermore National Laboratory

    2014-03-19

    Erin Nuccio, Lawrence Livermore National Laboratory, at the 9th Annual Genomics of Energy & Environment Meeting on March 19, 2014 in Walnut Creek, Calif.

  17. Pectinases Link Early Fungal Evolution to the Land Plant Lineage

    SciTech Connect (OSTI)

    Berbee, Mary [University of British Columbia

    2014-03-19

    Mary Berbee, University of British Columbia, Canada, speaking at the 9th Annual Genomics of Energy & Environment Meeting on March 19, 2014 in Walnut Creek, Calif.

  18. Minority Educational Institution Student Partnership Program (MEISPP) |

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

    Department of Energy Development » Minority Educational Institution Student Partnership Program (MEISPP) Minority Educational Institution Student Partnership Program (MEISPP) Our Minority Educational Institution Student Partnership Program (MEISPP) offers talented undergraduate and graduate students summer internship positions with the Department of Energy and our National Laboratories, with the goal of reaching underrepresented students in STEM fields, such as women and girls. Positions

  19. Geophysical Institute. Biennial report, 1993-1994

    SciTech Connect (OSTI)

    1996-01-01

    The 1993-1994 Geophysical Institute Biennial Report was published in November 1995 by the Geophysical Institute of the University of Alaska Fairbanks. It contains an overview of the Geophysical Institute, the Director`s Note, and research presentations concerning the following subjects: Scientific Predictions, Space Physics, Atmospheric Sciences, Snow, Ice and Permafrost, Tectonics and Sedimentation, Seismology, Volcanology, Remote Sensing, and other projects.

  20. Expanding genomics of mycorrhizal symbiosis

    SciTech Connect (OSTI)

    Kuo, Alan; Kohler, Annegret; Martin, Francis M.; Grigoriev, Igor V.

    2014-11-04

    The mycorrhizal symbiosis between soil fungi and plant roots is a ubiquitous mutualism that plays key roles in plant nutrition, soil health, and carbon cycling. The symbiosis evolved repeatedly and independently as multiple morphotypes [e.g., arbuscular mycorrhizae (AM), ectomycorrhizal (ECM)] in multiple fungal clades (e.g., phyla Glomeromycota, Ascomycota, Basidiomycota). The accessibility and cultivability of many mycorrhizal partners make them ideal models for symbiosis studies. Alongside molecular, physiological, and ecological investigations, sequencing led to the first three mycorrhizal fungal genomes, representing two morphotypes and three phyla. The genome of the ECM basidiomycete Laccaria bicolor showed that the mycorrhizal lifestyle can evolve through loss of plant cell wall-degrading enzymes (PCWDEs) and expansion of lineage-specific gene families such as short secreted protein (SSP) effectors. The genome of the ECM ascomycete Tuber melanosporum showed that the ECM type can evolve without expansion of families as in Laccaria, and thus a different set of symbiosis genes. The genome of the AM glomeromycete Rhizophagus irregularis showed that despite enormous phylogenetic distance and morphological difference from the other two fungi, symbiosis can involve similar solutions as symbiosis-induced SSPs and loss of PCWDEs. The three genomes provide a solid base for addressing fundamental questions about the nature and role of a vital mutualism.

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

    Office of Science (SC) Website

    Radiobiology: Low Dose Radiation Research DOE Human Subjects Protection Program Climate and Environmental Sciences Division (CESD) Research Abstracts Searchable Archive of ...

  2. Human Genome Education Program

    SciTech Connect (OSTI)

    Richard Myers; Lane Conn

    2000-05-01

    The funds from the DOE Human Genome Program, for the project period 2/1/96 through 1/31/98, have provided major support for the curriculum development and field testing efforts for two high school level instructional units: Unit 1, ''Exploring Genetic Conditions: Genes, Culture and Choices''; and Unit 2, ''DNA Snapshots: Peaking at Your DNA''. In the original proposal, they requested DOE support for the partial salary and benefits of a Field Test Coordinator position to: (1) complete the field testing and revision of two high school curriculum units, and (2) initiate the education of teachers using these units. During the project period of this two-year DOE grant, a part-time Field-Test Coordinator was hired (Ms. Geraldine Horsma) and significant progress has been made in both of the original proposal objectives. Field testing for Unit 1 has occurred in over 12 schools (local and non-local sites with diverse student populations). Field testing for Unit 2 has occurred in over 15 schools (local and non-local sites) and will continue in 12-15 schools during the 96-97 school year. For both curricula, field-test sites and site teachers were selected for their interest in genetics education and in hands-on science education. Many of the site teachers had no previous experience with HGEP or the unit under development. Both of these first-year biology curriculum units, which contain genetics, biotechnology, societal, ethical and cultural issues related to HGP, are being implemented in many local and non-local schools (SF Bay Area, Southern California, Nebraska, Hawaii, and Texas) and in programs for teachers. These units will reach over 10,000 students in the SF Bay Area and continues to receive support from local corporate and private philanthropic organizations. Although HGEP unit development is nearing completion for both units, data is still being gathered and analyzed on unit effectiveness and student learning. The final field testing result from this analysis will contribute to the final revisions of each unit during the second-year of this grant.

  3. Enhancer Identification through Comparative Genomics

    SciTech Connect (OSTI)

    Visel, Axel; Bristow, James; Pennacchio, Len A.

    2006-10-01

    With the availability of genomic sequence from numerousvertebrates, a paradigm shift has occurred in the identification ofdistant-acting gene regulatory elements. In contrast to traditionalgene-centric studies in which investigators randomly scanned genomicfragments that flank genes of interest in functional assays, the modernapproach begins electronically with publicly available comparativesequence datasets that provide investigators with prioritized lists ofputative functional sequences based on their evolutionary conservation.However, although a large number of tools and resources are nowavailable, application of comparative genomic approaches remains far fromtrivial. In particular, it requires users to dynamically consider thespecies and methods for comparison depending on the specific biologicalquestion under investigation. While there is currently no single generalrule to this end, it is clear that when applied appropriately,comparative genomic approaches exponentially increase our power ingenerating biological hypotheses for subsequent experimentaltesting.

  4. Strategies and tools for whole genome alignments

    SciTech Connect (OSTI)

    Couronne, Olivier; Poliakov, Alexander; Bray, Nicolas; Ishkhanov,Tigran; Ryaboy, Dmitriy; Rubin, Edward; Pachter, Lior; Dubchak, Inna

    2002-11-25

    The availability of the assembled mouse genome makespossible, for the first time, an alignment and comparison of two largevertebrate genomes. We have investigated different strategies ofalignment for the subsequent analysis of conservation of genomes that areeffective for different quality assemblies. These strategies were appliedto the comparison of the working draft of the human genome with the MouseGenome Sequencing Consortium assembly, as well as other intermediatemouse assemblies. Our methods are fast and the resulting alignmentsexhibit a high degree of sensitivity, covering more than 90 percent ofknown coding exons in the human genome. We have obtained such coveragewhile preserving specificity. With a view towards the end user, we havedeveloped a suite of tools and websites for automatically aligning, andsubsequently browsing and working with whole genome comparisons. Wedescribe the use of these tools to identify conserved non-coding regionsbetween the human and mouse genomes, some of which have not beenidentified by other methods.

  5. GDB - Human Genome Database final report

    SciTech Connect (OSTI)

    Talbot, C. Conover, Jr.

    2002-01-08

    This is the DOE final report for the GDB, Human Genome Database, project at the Johns Hopkins University.

  6. Complete genome sequences for the anaerobic, extremely thermophilic...

    Office of Scientific and Technical Information (OSTI)

    Complete genome sequences for the anaerobic, extremely thermophilic plant ... Title: Complete genome sequences for the anaerobic, extremely thermophilic plant ...

  7. Incorporating Genomics and Bioinformatics across the Life Sciences Curriculum

    SciTech Connect (OSTI)

    Ditty, Jayna L.; Kvaal, Christopher A.; Goodner, Brad; Freyermuth, Sharyn K.; Bailey, Cheryl; Britton, Robert A.; Gordon, Stuart G.; Heinhorst, Sabine; Reed, Kelynne; Xu, Zhaohui; Sanders-Lorenz, Erin R.; Axen, Seth; Kim, Edwin; Johns, Mitrick; Scott, Kathleen; Kerfeld, Cheryl A.

    2011-08-01

    Undergraduate life sciences education needs an overhaul, as clearly described in the National Research Council of the National Academies publication BIO 2010: Transforming Undergraduate Education for Future Research Biologists. Among BIO 2010's top recommendations is the need to involve students in working with real data and tools that reflect the nature of life sciences research in the 21st century. Education research studies support the importance of utilizing primary literature, designing and implementing experiments, and analyzing results in the context of a bona fide scientific question in cultivating the analytical skills necessary to become a scientist. Incorporating these basic scientific methodologies in undergraduate education leads to increased undergraduate and post-graduate retention in the sciences. Toward this end, many undergraduate teaching organizations offer training and suggestions for faculty to update and improve their teaching approaches to help students learn as scientists, through design and discovery (e.g., Council of Undergraduate Research [www.cur.org] and Project Kaleidoscope [www.pkal.org]). With the advent of genome sequencing and bioinformatics, many scientists now formulate biological questions and interpret research results in the context of genomic information. Just as the use of bioinformatic tools and databases changed the way scientists investigate problems, it must change how scientists teach to create new opportunities for students to gain experiences reflecting the influence of genomics, proteomics, and bioinformatics on modern life sciences research. Educators have responded by incorporating bioinformatics into diverse life science curricula. While these published exercises in, and guidelines for, bioinformatics curricula are helpful and inspirational, faculty new to the area of bioinformatics inevitably need training in the theoretical underpinnings of the algorithms. Moreover, effectively integrating bioinformatics into courses or independent research projects requires infrastructure for organizing and assessing student work. Here, we present a new platform for faculty to keep current with the rapidly changing field of bioinformatics, the Integrated Microbial Genomes Annotation Collaboration Toolkit (IMG-ACT). It was developed by instructors from both research-intensive and predominately undergraduate institutions in collaboration with the Department of Energy-Joint Genome Institute (DOE-JGI) as a means to innovate and update undergraduate education and faculty development. The IMG-ACT program provides a cadre of tools, including access to a clearinghouse of genome sequences, bioinformatics databases, data storage, instructor course management, and student notebooks for organizing the results of their bioinformatic investigations. In the process, IMG-ACT makes it feasible to provide undergraduate research opportunities to a greater number and diversity of students, in contrast to the traditional mentor-to-student apprenticeship model for undergraduate research, which can be too expensive and time-consuming to provide for every undergraduate. The IMG-ACT serves as the hub for the network of faculty and students that use the system for microbial genome analysis. Open access of the IMG-ACT infrastructure to participating schools ensures that all types of higher education institutions can utilize it. With the infrastructure in place, faculty can focus their efforts on the pedagogy of bioinformatics, involvement of students in research, and use of this tool for their own research agenda. What the original faculty members of the IMG-ACT development team present here is an overview of how the IMG-ACT program has affected our development in terms of teaching and research with the hopes that it will inspire more faculty to get involved.

  8. Genome informatics: Requirements and challenges

    SciTech Connect (OSTI)

    Robbins, R.J.

    1993-12-31

    Informatics of some kind will play a role in every aspect of the Human Genome Project (HGP); data acquisition, data analysis, data exchange, data publication, and data visualization. What are the real requirements and challenges? The primary requirement is clear thinking and the main challenge is design. If good design is lacking, the price will be failure of genome informatics and ultimately failure of the genome project itself. Scientists need good designs to deliver the tools necessary for acquiring and analyzing DNA sequences. As these tools become more efficient, they will need new tools for comparative genomic analyses. To make the tools work, the scientists will need to address and solve nomenclature issues that are essential, if also tedious. They must devise systems that will scale gracefully with the increasing flow of data. The scientists must be able to move data easily from one system to another, with no loss of content. As scientists, they will have failed in their responsibility to share results, should repeating experiments ever become preferable to searching the literature. Their databases must become a new kind of scientific literature and the scientists must develop ways to make electronic data publishing as routine as traditional journal publishing. Ultimately, they must build systems so advanced that they are virtually invisible. In summary, the HGP can be considered the most ambitious, most audacious information-management project ever undertaken. In the HGP, computers will not merely serve as tools for cataloging existing knowledge. Rather, they will serve as instruments, helping to create new knowledge by changing the way the scientists see the biological world. Computers will allow them to see genomes, just as radio telescopes let them see quasars and electron microscopes let them see viruses.

  9. Battelle Memorial Institute Technology Marketing Summaries - Energy

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

    Innovation Portal Battelle Memorial Institute Technology Marketing Summaries Here you'll find marketing summaries for technologies available for licensing from the Battelle Memorial Institute (BMI). The summaries provide descriptions of the technologies including their benefits, applications and industries, and development stage. Battelle Memorial Institute 24 Technology Marketing Summaries Category Title and Abstract Laboratories Date Energy Analysis Find More Like This HELM(tm) Flow

  10. Classification Training Institute | Department of Energy

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

    Classification Training Institute Classification Training Institute Welcome to the Classification Training Institute (CTI) Webpage. This page provides information for Department of Energy (DOE) and non-DOE personnel concerning courses offered by the CTI, the current course schedule, and provides training and resources (reference materials and links to web pages with additional information) concerning information classified and controlled information within the DOE. This page also contains short

  11. Guidance for Developing and Implementing Institutional Controls |

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

    Department of Energy Guidance for Developing and Implementing Institutional Controls Guidance for Developing and Implementing Institutional Controls This guidance document is to help U.S. Department of Energy (DOE) Office of Legacy Management (LM) personnel understand what is necessary and acceptable for implementing the provisions of DOE Policy 454.1, Use of Institutional Controls, for long-term surveillance and maintenance (LTS&M) at LM sites. PDF icon Guidance for Developing and

  12. institutional research | National Nuclear Security Administration

    National Nuclear Security Administration (NNSA)

    institutional research Sniffing out danger from above NNSA's efforts to prevent, counter, and respond to the dangers of nuclear proliferation and terrorism are vital to U.S. national security. Terrorist attacks in the past year in Europe and the United States have highlighted the evolving and unpredictable nature of the threat. Science,... Institutional Research & Development Functions The Office of Advanced Simulation and Computing and Institutional R&D, a program office part of the

  13. Institutional Change Principles for Fostering Sustainability | Department

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

    of Energy Principles for Fostering Sustainability Institutional Change Principles for Fostering Sustainability The following eight principles serve as the foundational building blocks for developing strategies to achieve institutional change-but they are not the strategies themselves. They are derived from academic literature and inform the framework for achieving institutional change in a federal organization. Each statement is followed by a general strategy for how the principle can be

  14. Social Network and Communications Institutional Change Principle |

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

    Department of Energy Network and Communications Institutional Change Principle Social Network and Communications Institutional Change Principle Federal agencies can use social networks and communications to spark and reinforce behavior change for meeting sustainability goals. This principle is based on research findings showing that people and institutions often are strongly influenced by the behaviors and expectations of others. Methods The social network and communications behavior change

  15. Information Science and Technology Institute (ISTI)

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

    Computer System, Cluster, and Networking Summer Institute Class of 2015 Computer System, Cluster, and Networking Summer Institute Viz Collab Viz Collab Scientific collaboration and educational resource for visualizing data ISTI News Next IS&T Seminars: Date Speaker Org/Institution Host Title of Presentation 07/28/2016 Richard Barret Sandia National Laboratory Robert Robey TBD 07/13/2016 Klus Miller Stony Brook University and SUNY Korea Curt Canada TBD 06/22/2016 Kerstin Kleve van Dam

  16. Commitment Institutional Change Principle | Department of Energy

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

    Commitment Institutional Change Principle Commitment Institutional Change Principle Commitment can be a crucial element that helps federal agencies inject and emphasize sustainability in their organizational culture. Institutions and people change when they have made definite commitments to change, especially when those commitments relate to future conditions. Research shows that explicit commitments improve the rate at which people adopt energy-efficient behaviors. Methods Explicit commitments

  17. International Institute for Sustainable Development (IISD) |...

    Open Energy Info (EERE)

    while retaining the institutional agility necessary to confront the challenges of sustainable development. Resources IISD Tools Building REDD Capacity in Developing...

  18. Complete Project List | Critical Materials Institute

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

    substitutes, improve reuse and recycling, enable research, sustain the environment, study the supply chain and analyze economics. The institute started with more than 30 projects. ...

  19. EM's Minority Serving Institutions Partnership Program Issues...

    Office of Environmental Management (EM)

    MSIPP supports science, technology, engineering, and mathematics (STEM) at MSIs, which include Historically Black Colleges and Universities, Hispanic-Serving Institutions, and ...

  20. News about CMI Partners | Critical Materials Institute

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

    joins the Critical Materials Institute Reverse mining: Scientists extract rare earth materials from consumer products, March 7, 2013 UCDavis: Navrotsky Participates in DOE-funded...

  1. Swedish Petroleum Institute | Open Energy Information

    Open Energy Info (EERE)

    71795,"alt":0,"address":"","icon":"","group":"","inlineLabel":"","visitedicon":"" Hide Map References: Stockholm Petroleum Institute1 SPI Background2 The Stockholm Petroleum...

  2. Summer 2012 Cyclotron Institute REU Program

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

    led by Institute faculty. Students will have the opportunity to share their work via an oral presentation and virtual poster session. 2012 REU Group Participating Students...

  3. Summer 2013 Cyclotron Institute REU Program

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

    led by Institute faculty. Students will have the opportunity to share their work via an oral presentation and virtual poster session. 2013 REU Group Participating Students...

  4. Member Institutions | Photosynthetic Antenna Research Center

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

    institutions and 21 principal investigators that comprise the Photosynthetic Antenna Research Center (PARC) are listed below. Washington University in St. Louis -- PARC's...

  5. Danish Technological Institute | Open Energy Information

    Open Energy Info (EERE)

    Institute Place: Denmark Sector: Services Product: DTI develops, applies and disseminates research- and technologically-based knowledge for the Danish and International business...

  6. VerdeXchange Institute | Open Energy Information

    Open Energy Info (EERE)

    Institute Place: Los Angeles, California Zip: 90017 Product: Los Angeles-based start up environmental think tank, publishing the VerdeXchange News, a journal providing...

  7. Minority Educational Institution Student Partnership Program...

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

    and selected National Laboratories. This program is designed specifically to recruit students from Minority Serving Institutions to intern for 10 weeks during the summer months at...

  8. WEBINAR: MODULAR CHEMICAL PROCESS INTENSIFICATION INSTITUTE FOR...

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

    The Energy Department's Office of Energy Efficiency and Renewable Energy will conduct an informational webinar for the Modular Chemical Process Intensification Institute for Clean ...

  9. Institutional Research & Development | National Nuclear Security...

    National Nuclear Security Administration (NNSA)

    Home About Us Our Programs Defense Programs Future Science & Technology Programs ... Institutional Research & Development Functions The Office of Advanced Simulation and ...

  10. About Critical Materials | Critical Materials Institute

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

    earth metals, includes links to a whitepaper "Understanding the Rare Earth Materials Crisis" and "Rare Earths FAQs" Massachusetts Institute of Technology: a comprehensive...

  11. Comprehensive Legacy Management and Institutional Controls Plan

    Office of Legacy Management (LM)

    Section 4.0 No significant changes. Comprehensive Legacy Management and Institutional Controls Plan, Revision 9, Draft Volume I, Legacy Management Plan Significant Changes Summary ...

  12. Computing and Computational Sciences Directorate - Joint Institute...

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

    (JICS). JICS combines the experience and expertise in theoretical and computational science and engineering, computer science, and mathematics in these two institutions and ...

  13. VII-14 INSTITUTE COLLOQUIA AND SEMINARS

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

    Pibero Djawotho, Cyclotron Institute, Texas A&M University, College Station, Texas Gluon Polarization Measurements with STAR May 2 Professor G. Wolschin, University of Heidelberg, ...

  14. News About CMI | Critical Materials Institute

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

    Speciality Metal Recycling Firm Teams Up with US Critical Materials Institute, Nov. 17, 2015 American Manganese Inc. Enters NDA with U.S. Government's Ames Laboratory on Lithium ...

  15. Global Green Growth Institute | Open Energy Information

    Open Energy Info (EERE)

    Growth Institute Redirect page Jump to: navigation, search REDIRECT Green Growth Strategy Support Retrieved from "http:en.openei.orgwindex.php?titleGlobalGreenGrowthIn...

  16. Business Institute Solar Strategy | Open Energy Information

    Open Energy Info (EERE)

    Solar Strategy Jump to: navigation, search Name: Business Institute Solar Strategy Place: Hamburg, Hamburg, Germany Zip: 22587 Product: A specialised consultancy for the PV...

  17. Institute of Concentration Photovoltaic Systems ISFOC | Open...

    Open Energy Info (EERE)

    Photovoltaic Systems ISFOC Jump to: navigation, search Name: Institute of Concentration Photovoltaic Systems (ISFOC) Place: Puertallano, Spain Zip: 13500 Product: Part of the R&D...

  18. Minority Serving Institutions Partnerships Program | National...

    National Nuclear Security Administration (NNSA)

    Partnerships Program Minority Serving Institutions Partnerships Program NNSA Hosts Cybersecurity Consortium Members Following White House Announcement of 25 Million in Grants to...

  19. Notices INSTITUTE OF EDUCATION SCIENCES-Continued

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

    Tuesday, April 23, 2013 Notices INSTITUTE OF EDUCATION SCIENCES-Continued CFDA No. and name Application package available Deadline for trans- mittal of applications Estimated...

  20. Smart Manufacturing Innovation Institute: Overview, Goals and...

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

    ... o A manufacturing platform architecture, based on an open-standards, open- ... facilities Transition Plan o Sustainability plan for the proposed Institute past ...

  1. New Guidance Helps LM Manage Institutional Controls

    Broader source: Energy.gov [DOE]

    The official Guidance for Developing and Implementing Institutional Controls for Long-Term Surveillance and Maintenance at DOE Legacy Management Sites, was issued in January as a supplemental...

  2. Massachusetts Institute of Technology Hydrodynamics | Open Energy...

    Open Energy Info (EERE)

    Name Massachusetts Institute of Technology Address 77 Massachusetts Avenue Place Cambridge, Massachusetts Zip 02139 Sector Hydro Phone number (617) 254-4348 Website http:...

  3. Utah Geothermal Institutional Handbook | Open Energy Information

    Open Energy Info (EERE)

    search OpenEI Reference LibraryAdd to library PermittingRegulatory Guidance - GuideHandbook: Utah Geothermal Institutional HandbookPermittingRegulatory GuidanceGuide...

  4. Stockholm Environment Institute (SEI) | Open Energy Information

    Open Energy Info (EERE)

    vulnerability and governance, as well as specific problems such as water resources and air pollution.2 References Stockholm Environment Institute 2.0 2.1 About SEI...

  5. VI-13 INSTITUTE COLLOQUIA AND SEMINARS

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

    Livius Trache, National Institute for Physics and Nuclear Engineering, Bucharest-Magurele, Romania Current and Future Nuclear Physics Research at IFIN-HH Bucharest, Romania ...

  6. Applications from Universities and Other Research Institutions...

    Office of Science (SC) Website

    Applications from Universities and Other Research Institutions Basic Energy Sciences (BES) BES ... Construction Review EPSCoR DOE Office of Science Graduate Fellowship (DOE ...

  7. Measure and Evaluate Institutional Change for Sustainability

    Broader source: Energy.gov [DOE]

    The measure and evaluation step is crucial to ensure that institutional change efforts produce successful results in meeting sustainability goals. To measure success, an evaluation is needed.

  8. Renewable Energy Institutional Arrangements for Implementation...

    Open Energy Info (EERE)

    Terms of Reference Jump to: navigation, search Tool Summary LAUNCH TOOL Name: Renewable Energy Institutional Arrangements for Implementation Terms of Reference Agency...

  9. Institutional Research & Development News | National Nuclear...

    National Nuclear Security Administration (NNSA)

    Institutional Research & Development News Above Images: On the left, the "Sandia Cooler" - also known as the "Air Bearing Heat Exchanger" will significantly reduce the energy ...

  10. Information Science and Technology Institute (ISTI)

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

    UC, Santa CruzLANL Institute for Scalable Scientific Data Management (ISSDM) OPEN SOURCE SOFTWARE AND DATA RELEASES Open Source Software (FSIO) Super Computer Operational...

  11. Air Conditioning Heating and Refrigeration Institute Comment...

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

    PDF icon DOE Reg Burden RFI 7-18-14 More Documents & Publications Regulatory Burden RFI from AHRI Regulatory Burden RFI Air-Conditioning, Heating, and Refrigeration Institute ...

  12. Stanford - Woods Institute for the Environment | Open Energy...

    Open Energy Info (EERE)

    Stanford - Woods Institute for the Environment Jump to: navigation, search Logo: Stanford- Woods Institute for the Environment Name: Stanford- Woods Institute for the Environment...

  13. Mexico National Institute of Ecology and Climate Change (INECC...

    Open Energy Info (EERE)

    Institute of Ecology and Climate Change (INECC) Jump to: navigation, search Logo: Mexico National Institute of Ecology Name: Mexico National Institute of Ecology Address:...

  14. Engaging Financial Institution Partners Transcript.doc | Department...

    Office of Environmental Management (EM)

    Engaging Financial Institution Partners Transcript.doc Engaging Financial Institution Partners Transcript.doc Engaging Financial Institution Partners Transcript.doc Microsoft ...

  15. Utah School and Institutional Trust Lands Administration | Open...

    Open Energy Info (EERE)

    School and Institutional Trust Lands Administration Jump to: navigation, search Logo: Utah School and Institutional Trust Lands Administration Name: Utah School and Institutional...

  16. Green Technology Institute at UCLA | Open Energy Information

    Open Energy Info (EERE)

    Technology Institute at UCLA Jump to: navigation, search Name: Green Technology Institute at UCLA Place: Los Angeles, California Product: California-based institute to reduce...

  17. Hydraulic Institute Mission and Vision | Department of Energy

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

    HydraulicInstitute.pdf More Documents & Publications Hydraulic Institute Member Benefits Brochure HI Standards Subscription Options Brochure Hydraulic Institute Standards Overview...

  18. Small Modular Reactors: Institutional Assessment

    SciTech Connect (OSTI)

    Joseph Perkowski, Ph.D.

    2012-06-01

    ? Objectives include, among others, a description of the basic development status of “small modular reactors” (SMRs) focused primarily on domestic activity; investigation of the domestic market appeal of modular reactors from the viewpoints of both key energy sector customers and also key stakeholders in the financial community; and consideration of how to proceed further with a pro-active "core group" of stakeholders substantially interested in modular nuclear deployment in order to provide the basis to expedite design/construction activity and regulatory approval. ? Information gathering was via available resources, both published and personal communications with key individual stakeholders; published information is limited to that already in public domain (no confidentiality); viewpoints from interviews are incorporated within. Discussions at both government-hosted and private-hosted SMR meetings are reflected herein. INL itself maintains a neutral view on all issues described. Note: as per prior discussion between INL and CAP, individual and highly knowledgeable senior-level stakeholders provided the bulk of insights herein, and the results of those interviews are the main source of the observations of this report. ? Attachment A is the list of individual stakeholders consulted to date, including some who provided significant earlier assessments of SMR institutional feasibility. ? Attachments B, C, and D are included to provide substantial context on the international status of SMR development; they are not intended to be comprehensive and are individualized due to the separate nature of the source materials. Attachment E is a summary of the DOE requirements for winning teams regarding the current SMR solicitation. Attachment F deserves separate consideration due to the relative maturity of the SMART SMR program underway in Korea. Attachment G provides illustrative SMR design features and is intended for background. Attachment H is included for overview purposes and is a sampling of advanced SMR concepts, which will be considered as part of the current DOE SMR program but whose estimated deployment time is beyond CAP’s current investment time horizon. Attachment I is the public DOE statement describing the present approach of their SMR Program.

  19. The ecoresponsive genome of Daphnia pulex

    SciTech Connect (OSTI)

    Colbourne, John K.; Pfrender, Michael E.; Gilbert, Donald; Thomas, W. Kelley; Tucker, Abraham; Oakley, Todd H.; Tokishita, Shinichi; Aerts, Andrea; Arnold, Georg J.; Basu, Malay Kumar; Bauer, Darren J.; Caceres, Carla E.; Carmel, Liran; Casola, Claudio; Choi, Jeong-Hyeon; Detter, John C.; Dong, Qunfeng; Dusheyko, Serge; Eads, Brian D.; Frohlich, Thomas; Geiler-Samerotte, Kerry A.; Gerlach, Daniel; Hatcher, Phil; Jogdeo, Sanjuro; Krijgsveld, Jeroen; Kriventseva, Evgenia V; Kltz, Dietmar; Laforsch, Christian; Lindquist, Erika; Lopez, Jacqueline; Manak, Robert; Muller, Jean; Pangilinan, Jasmyn; Patwardhan, Rupali P.; Pitluck, Samuel; Pritham, Ellen J.; Rechtsteiner, Andreas; Rho, Mina; Rogozin, Igor B.; Sakarya, Onur; Salamov, Asaf; Schaack, Sarah; Shapiro, Harris; Shiga, Yasuhiro; Skalitzky, Courtney; Smith, Zachary; Souvorov, Alexander; Sung, Way; Tang, Zuojian; Tsuchiya, Dai; Tu, Hank; Vos, Harmjan; Wang, Mei; Wolf, Yuri I.; Yamagata, Hideo; Yamada, Takuji; Ye, Yuzhen; Shaw, Joseph R.; Andrews, Justen; Crease, Teresa J.; Tang, Haixu; Lucas, Susan M.; Robertson, Hugh M.; Bork, Peer; Koonin, Eugene V.; Zdobnov, Evgeny M.; Grigoriev, Igor V.; Lynch, Michael; Boore, Jeffrey L.

    2011-02-04

    This document provides supporting material related to the sequencing of the ecoresponsive genome of Daphnia pulex. This material includes information on materials and methods and supporting text, as well as supplemental figures, tables, and references. The coverage of materials and methods addresses genome sequence, assembly, and mapping to chromosomes, gene inventory, attributes of a compact genome, the origin and preservation of Daphnia pulex genes, implications of Daphnia's genome structure, evolutionary diversification of duplicated genes, functional significance of expanded gene families, and ecoresponsive genes. Supporting text covers chromosome studies, gene homology among Daphnia genomes, micro-RNA and transposable elements and the 46 Daphnia pulex opsins. 36 figures, 50 tables, 183 references.

  20. MIENS Minimum Information about an ENvironmental Sequence and The GSC's Not-for-Profit (GSC8 Meeting)

    ScienceCinema (OSTI)

    Yilmaz, Pelin [Max Planck Institute - Bremen]; Kolker, Eugene [Seattle Childrens Hospital

    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 held at the DOE Joint Genome Institute with organizational support provided by the JGI and by the University of California - San Diego. Pelin Yilmaz of the Max Planck Institute-Bremen talks about the MIENS specification and Eugene Kolker of Seattle Children's Hospital discusses the GSC's non-for-profit at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009

  1. Integrated Genome-Based Studies of Shewanella Echophysiology

    SciTech Connect (OSTI)

    Margrethe H. Serres

    2012-06-29

    Shewanella oneidensis MR-1 is a motile, facultative {gamma}-Proteobacterium with remarkable respiratory versatility; it can utilize a range of organic and inorganic compounds as terminal electronacceptors for anaerobic metabolism. The ability to effectively reduce nitrate, S0, polyvalent metals andradionuclides has established MR-1 as an important model dissimilatory metal-reducing microorganism for genome-based investigations of biogeochemical transformation of metals and radionuclides that are of concern to the U.S. Department of Energy (DOE) sites nationwide. Metal-reducing bacteria such as Shewanella also have a highly developed capacity for extracellular transfer of respiratory electrons to solid phase Fe and Mn oxides as well as directly to anode surfaces in microbial fuel cells. More broadly, Shewanellae are recognized free-living microorganisms and members of microbial communities involved in the decomposition of organic matter and the cycling of elements in aquatic and sedimentary systems. To function and compete in environments that are subject to spatial and temporal environmental change, Shewanella must be able to sense and respond to such changes and therefore require relatively robust sensing and regulation systems. The overall goal of this project is to apply the tools of genomics, leveraging the availability of genome sequence for 18 additional strains of Shewanella, to better understand the ecophysiology and speciation of respiratory-versatile members of this important genus. To understand these systems we propose to use genome-based approaches to investigate Shewanella as a system of integrated networks; first describing key cellular subsystems - those involved in signal transduction, regulation, and metabolism - then building towards understanding the function of whole cells and, eventually, cells within populations. As a general approach, this project will employ complimentary "top-down" - bioinformatics-based genome functional predictions, high-throughput expression analyses, and functional genomics approaches to uncover key genes as well as metabolic and regulatory networks. The "bottom-up" component employs more traditional approaches including genetics, physiology and biochemistry to test or verify predictions. This information will ultimately be linked to analyses of signal transduction and transcriptional regulatory systems and used to develop a linked model that will contribute to understanding the ecophysiology of Shewanella in redox stratified environments. A central component of this effort is the development of a data and knowledge integration environment that will allow investigators to query across the individual research domains, link to analysis applications, visualize data in a cell systems context, and produce new knowledge, while minimizing the effort, time and complexity to participating institutions.

  2. Insights from Human/Mouse genome comparisons

    SciTech Connect (OSTI)

    Pennacchio, Len A.

    2003-03-30

    Large-scale public genomic sequencing efforts have provided a wealth of vertebrate sequence data poised to provide insights into mammalian biology. These include deep genomic sequence coverage of human, mouse, rat, zebrafish, and two pufferfish (Fugu rubripes and Tetraodon nigroviridis) (Aparicio et al. 2002; Lander et al. 2001; Venter et al. 2001; Waterston et al. 2002). In addition, a high-priority has been placed on determining the genomic sequence of chimpanzee, dog, cow, frog, and chicken (Boguski 2002). While only recently available, whole genome sequence data have provided the unique opportunity to globally compare complete genome contents. Furthermore, the shared evolutionary ancestry of vertebrate species has allowed the development of comparative genomic approaches to identify ancient conserved sequences with functionality. Accordingly, this review focuses on the initial comparison of available mammalian genomes and describes various insights derived from such analysis.

  3. Saint Joseph's University Institute for Environmental Stewardship

    SciTech Connect (OSTI)

    McCann, Michael P; Springer, Clint

    2013-10-15

    Task A: Examination of the physiological, morphological, and reproductive responses of Panicum virgatum (switchgrass) cultivars identified as potential biofuel producing cultivars as well as naturally-occurring varieties of switchgrass to projected changes in climate for the central portion of the United States. This project was a multi-year project set in a field site located at the Konza Prairie Biological Station near Manhattan, KS USA. At the field site we planted switchgrass collected from regions in Kansas, Oklahoma, and Texas. After a year of establishment we implemented a set of two-year water treatments that examined the responses in physiology, growth and development of switchgrass to predicted changes in precipitation amount for the central United States. After this experiment was completed we performed a second set of experiments that examined the responses of switchgrass physiology, growth, and development to changes in precipitation frequency. We also included in this analysis how genome size of individuals influenced their responses to precipitation frequency changes. Generally, we found switchgrass to be unresponsive to realistic predictions of precipitation changes for the Central Plains of the United States. These studies have provided significant insight into how this important grassland species will respond to future climate change from both an ecological and applied biological perspective. Finally, we provided insight into the mechanism through which this species changes in the face of altered water availability by not supporting the hypothesis that the control of switchgrass responses to changes in precipitation is altered by genome size. Task B: Installation of an extensive green roof system on the Science Center at Saint Joseph's University for research, research-training and educational outreach activities. An experimental green roof system was designed and installed by an outside contractor (Roofmeadows) on the roof of the Science Center at Saint Joseph's University. The roof system includes four test plots, each with a different drainage system, instrumentation to monitor storm water retention, roof deck temperature, heat flux into and out of the building, rain fall, wind speed and direction, relative humidity and heat emission from the roof system. The vegetative roof was planted with 26 species of plants, distributed throughout the roof area, to assess species/variety growth and coverage characteristics, both in terms of the different drain layer systems, and in terms of the different exposures along the north to south axis of the building. Analysis of the drain layer performance, in terms of storm water retention, shows that the aggregate (stone) drainage layer system performed the best, with the moisture management mat system second, and the geotextile drain layer and reservoir sheet layer systems coming in last. Plant growth performance analysis is ongoing, but significant differences have been observed in the third growing season ('13) along the north to south axis, with most species doing better towards the northern end of the roof (in terms of percent ground coverage and plant spread and reproduction). Interestingly, plant growth in all four of the test plots was reduced relative to the lower areas of the roof (the lower area was ca. 2 inches lower than the test plots, due to the space needed for sensors under the plots. The lower roof area uses an aggregate drain layer comparable to that in the third test plot), even when accounting for the north to south differences. The reasons for these differences are not clear and studies are underway to examine the impact of wind scour, drainage rates, temperature, and other factors. Task C: Education and community outreach efforts by the IES involving conferences at SJU, presentations by faculty and students off campus, and educational signage. The Institute for Environmental Stewardship hosted three storm water management workshops on the SJU campus in Philadelphia, in collaboration with the Lower Merion Conservancy, a not-for-profit organization located in Montgomery County, PA. These workshops were free and open to the public. The three workshops (held each year in March) drew more than 200 participants total. The presenters included local and state government agencies, not for profit organizations involved in storm water and open space preservation, designers, engineers, planners and others. Feedback was uniformly positive and we plan to continue the workshops for the foreseeable future. Educational signage has been installed at four locations on campus to explain campus infrastructure related to storm water (rain gardens, vegetative roof and green facades), as well as detailed signage installed on the Science Center roof for the vegetative roof system. More than 100 people (from in and outside of SJU) have thus far participated in tours of the roof system. A digital signage system has been installed in the adjacent library and this system provides information about the vegetative roof project and other efforts. A web camera system for the roof has also been installed and the video will be simulcast to the digital signage and with web site (www.sju.edu/ies) in the near future.

  4. One Bacterial Cell, One Complete Genome

    SciTech Connect (OSTI)

    Woyke, Tanja; Tighe, Damon; Mavrommatis, Konstantinos; Clum, Alicia; Copeland, Alex; Schackwitz, Wendy; Lapidus, Alla; Wu, Dongying; McCutcheon, John P.; McDonald, Bradon R.; Moran, Nancy A.; Bristow, James; Cheng, Jan-Fang

    2010-04-26

    While the bulk of the finished microbial genomes sequenced to date are derived from cultured bacterial and archaeal representatives, the vast majority of microorganisms elude current culturing attempts, severely limiting the ability to recover complete or even partial genomes from these environmental species. Single cell genomics is a novel culture-independent approach, which enables access to the genetic material of an individual cell. No single cell genome has to our knowledge been closed and finished to date. Here we report the completed genome from an uncultured single cell of Candidatus Sulcia muelleri DMIN. Digital PCR on single symbiont cells isolated from the bacteriome of the green sharpshooter Draeculacephala minerva bacteriome allowed us to assess that this bacteria is polyploid with genome copies ranging from approximately 200?900 per cell, making it a most suitable target for single cell finishing efforts. For single cell shotgun sequencing, an individual Sulcia cell was isolated and whole genome amplified by multiple displacement amplification (MDA). Sanger-based finishing methods allowed us to close the genome. To verify the correctness of our single cell genome and exclude MDA-derived artifacts, we independently shotgun sequenced and assembled the Sulcia genome from pooled bacteriomes using a metagenomic approach, yielding a nearly identical genome. Four variations we detected appear to be genuine biological differences between the two samples. Comparison of the single cell genome with bacteriome metagenomic sequence data detected two single nucleotide polymorphisms (SNPs), indicating extremely low genetic diversity within a Sulcia population. This study demonstrates the power of single cell genomics to generate a complete, high quality, non-composite reference genome within an environmental sample, which can be used for population genetic analyzes.

  5. Step 1: Determine Goals for Institutional Change

    Office of Energy Efficiency and Renewable Energy (EERE)

    The first step in the institutional change process is defining your federal agency's sustainability goals. That is, decide what outcomes are desired (or required) over what period of time. Behavioral, organizational, and institutional changes typically are means to achieve desired energy, resource, or greenhouse gas emission outcomes. They are not ends in and of themselves.

  6. QER- Comment of Institute for Energy Research

    Broader source: Energy.gov [DOE]

    The Institute for Energy Research would like to submit a comment for the DOE's Quadrennial Energy Review. You will find the comment attached, and we would like to be listed as: Institute for Energy Research 1155 15th St Nw, Suite 1900 Washington, D.C. 20005 Thank you for the opportunity to comment!

  7. Structural Genomics of Protein Phosphatases

    SciTech Connect (OSTI)

    Almo,S.; Bonanno, J.; Sauder, J.; Emtage, S.; Dilorenzo, T.; Malashkevich, V.; Wasserman, S.; Swaminathan, S.; Eswaramoorthy, S.; et al

    2007-01-01

    The New York SGX Research Center for Structural Genomics (NYSGXRC) of the NIGMS Protein Structure Initiative (PSI) has applied its high-throughput X-ray crystallographic structure determination platform to systematic studies of all human protein phosphatases and protein phosphatases from biomedically-relevant pathogens. To date, the NYSGXRC has determined structures of 21 distinct protein phosphatases: 14 from human, 2 from mouse, 2 from the pathogen Toxoplasma gondii, 1 from Trypanosoma brucei, the parasite responsible for African sleeping sickness, and 2 from the principal mosquito vector of malaria in Africa, Anopheles gambiae. These structures provide insights into both normal and pathophysiologic processes, including transcriptional regulation, regulation of major signaling pathways, neural development, and type 1 diabetes. In conjunction with the contributions of other international structural genomics consortia, these efforts promise to provide an unprecedented database and materials repository for structure-guided experimental and computational discovery of inhibitors for all classes of protein phosphatases.

  8. Small genomes: New initiatives in mapping and sequencing. Workshop summary report

    SciTech Connect (OSTI)

    McKenney, K.; Robb, F.

    1993-12-31

    The workshop was held 5--7 July 1993 at the Center for Advanced Research in Biotechnology (CARB) and hosted by the University of Maryland Biotechnology Institute (UMBI) and the National Institute of Standards and Technology (NIST). The objective of this workshop was to bring together individuals interested in DNA technologies and to determine the impact of these current and potential improvements of the speed and cost-effectiveness of mapping and sequencing on the planning of future small genome projects. A major goal of the workshop was to spur the collaboration of more diverse groups of scientists working on this topic, and to minimize competitiveness as an inhibitory factor to progress.

  9. Institute of Development Studies Feed | Open Energy Information

    Open Energy Info (EERE)

    International Institute for Sustainable Development (IISD) International Renewable Energy Agency (IRENA) Joint Implementation Network (JIN) Kumasi Institute of Technology and...

  10. Genome Improvement at JGI-HAGSC

    SciTech Connect (OSTI)

    Grimwood, Jane: Schmutz, Jeremy, J.: Myers, Richard, M.

    2012-03-03

    Since the completion of the sequencing of the human genome, the JGI has rapidly expanded its scientific goals in several DOE mission-relevant areas. At the JGI-HAGSC, we have kept pace with this rapid expansion of projects with our focus on assessing, assembling, improving and finishing eukaryotic whole genome shotgun (WGS) projects for which the shotgun sequence is generated at the Production Genomic Facility (JGI-PGF). We follow this by combining the draft WGS with genomic resources generated at JGI-HAGSC or in collaborator laboratories (including BAC end sequences, genetic maps and FLcDNA sequences) to produce an improved draft sequence. For eukaryotic genomes important to the DOE mission, we then add further information from directed experiments to produce reference genomic sequences that are publicly available for any scientific researcher. Also, we have continued our program for producing BAC-based finished sequence, both for adding information to JGI genome projects and for small BAC-based sequencing projects proposed through any of the JGI sequencing programs. We have now built our computational expertise in WGS assembly and analysis and have moved eukaryotic genome assembly from the JGI-PGF to JGI-HAGSC. We have concentrated our assembly development work on large plant genomes and complex fungal and algal genomes.

  11. Fueling the Future with Fungal Genomes

    SciTech Connect (OSTI)

    Grigoriev, Igor V.

    2014-10-27

    Genomes of fungi relevant to energy and environment are in focus of the JGI Fungal Genomic Program. One of its projects, the Genomics Encyclopedia of Fungi, targets fungi related to plant health (symbionts and pathogens) and biorefinery processes (cellulose degradation and sugar fermentation) by means of genome sequencing and analysis. New chapters of the Encyclopedia can be opened with user proposals to the JGI Community Science Program (CSP). Another JGI project, the 1000 fungal genomes, explores fungal diversity on genome level at scale and is open for users to nominate new species for sequencing. Over 400 fungal genomes have been sequenced by JGI to date and released through MycoCosm (www.jgi.doe.gov/fungi), a fungal web-portal, which integrates sequence and functional data with genome analysis tools for user community. Sequence analysis supported by functional genomics will lead to developing parts list for complex systems ranging from ecosystems of biofuel crops to biorefineries. Recent examples of such ‘parts’ suggested by comparative genomics and functional analysis in these areas are presented here.

  12. Institutional plan. Fiscal year, 1997--2002

    SciTech Connect (OSTI)

    1996-10-01

    The Institutional Plan is the culmination of Argonne`s annual planning cycle. The document outlines what Argonne National Laboratory (ANL) regards as the optimal development of programs and resources in the context of national research and development needs, the missions of the Department of Energy and Argonne National Laboratory, and pertinent resource constraints. It is the product of ANL`s internal planning process and extensive discussions with DOE managers. Strategic planning is important for all of Argonne`s programs, and coordination of planning for the entire institution is crucial. This Institutional Plan will increasingly reflect the planning initiatives that have recently been implemented.

  13. Webinar: Materials Genome Initative | Department of Energy

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

    Materials Genome Initative Webinar: Materials Genome Initative Below is the text version of the webinar titled "Materials Genome Initiative," originally presented on December 2, 2014. In addition to this text version of the audio, you can access the presentation slides. Alli Aman: -today's webinar. I am going to go through a few housekeeping items before I turn it over to today's presenters. First of all, thank you so much for joining today. Today's webinar is being recorded, so a

  14. Genome Engineering with TAL Effector Nucleases

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

    Genome Engineering with TAL Effector Nucleases Genome Engineering with TAL Effector Nucleases Print Tuesday, 24 April 2012 09:48 Genome engineering (GE), an emerging discipline in which a DNA sequence is altered at a single position, has a wide variety of potential uses, such as the correction of gene sequences in patients suffering from genetic diseases, the modification or insertion of genes in plants, and the generation of unique cell lines for treatment of diseases such as cancer. GE

  15. Human-mouse comparative genomics: successes and failures to reveal functional regions of the human genome

    SciTech Connect (OSTI)

    Pennacchio, Len A.; Baroukh, Nadine; Rubin, Edward M.

    2003-05-15

    Deciphering the genetic code embedded within the human genome remains a significant challenge despite the human genome consortium's recent success at defining its linear sequence (Lander et al. 2001; Venter et al. 2001). While useful strategies exist to identify a large percentage of protein encoding regions, efforts to accurately define functional sequences in the remaining {approx}97 percent of the genome lag. Our primary interest has been to utilize the evolutionary relationship and the universal nature of genomic sequence information in vertebrates to reveal functional elements in the human genome. This has been achieved through the combined use of vertebrate comparative genomics to pinpoint highly conserved sequences as candidates for biological activity and transgenic mouse studies to address the functionality of defined human DNA fragments. Accordingly, we describe strategies and insights into functional sequences in the human genome through the use of comparative genomics coupled wit h functional studies in the mouse.

  16. Ocean Energy Institute | Open Energy Information

    Open Energy Info (EERE)

    think tank established to accelerate offshore wind technology development that hopes to build a 5GW wind project off the coast of Maine. References: Ocean Energy Institute1 This...

  17. New Institute for Advanced Composites Manufacturing Innovation...

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

    The Institute will focus on lowering the cost of advanced fiber-reinforced polymer composite materials by 50 percent, reducing the energy used to make composites by 75 percent, and ...

  18. Global Energy Network Institute | Open Energy Information

    Open Energy Info (EERE)

    inlineLabel":"","visitedicon":"" Hide Map References: Global Energy Network Institute Web Site1 This article is a stub. You can help OpenEI by expanding it. Global Energy...

  19. Institutional Change Principles for Fostering Sustainability

    Broader source: Energy.gov [DOE]

    The following eight principles serve as the foundational building blocks for developing strategies to achieve institutional change—but they are not the strategies themselves. They are derived from...

  20. Critical Materials Institute UPDATE | The Ames Laboratory

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

    Critical Materials Institute UPDATE An error occurred. Try watching this video on www.youtube.com, or enable JavaScript if it is disabled in your browser. The Critical Materials...

  1. Cyclotron Institute - Texas A&M

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

    Research", is now available. May 14, 2015 Texas A&M Physics Undergrad Finds Home in ... May 24th, 3:45 PM Professor Klaus Blaum >full listing< Cyclotron Institute Texas A&M ...

  2. Minority Educational Institution Student Partnership Program (MEISPP)

    Broader source: Energy.gov [DOE]

    This program is designed specifically to recruit students from Minority Serving Institutions to intern for 10 weeks during the summer months at DOE Headquarters and field sites.  This is the only...

  3. Final Report. Institute for Ultralscale Visualization (Technical...

    Office of Scientific and Technical Information (OSTI)

    The scientific findings and experience of the Institute team helped plan the SciDAC3 program. Authors: Ma, Kwan-Liu 1 ; Galli, Giulia 1 ; Gygi, Francois 1 ; Max, Nelson 1 ; ...

  4. Metagenomics, metatranscriptomics and single cell genomics reveal...

    Office of Scientific and Technical Information (OSTI)

    and single cell genomics reveal functional response of active Oceanospirillales to Gulf oil spill Citation Details In-Document Search Title: Metagenomics, metatranscriptomics and...

  5. Astronomy Particle Physics Light Sources Genomics

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

    1 - 2 Astronomy Particle Physics Light Sources Genomics Climate * Big Data Software - Broad ecosystem of capabilities and technologies - Research and evaluate - Customize and...

  6. Diatom Genomics (2009 JGI User Meeting)

    SciTech Connect (OSTI)

    Ambrust, Ginger

    2009-03-26

    Ginger Armbrust from the University of Washington spoke about diatom genomics on March 26, 2009 at the DOE JGI User Meeting

  7. Comparative Genomics Analysis and Phenotypic Characterization...

    Office of Scientific and Technical Information (OSTI)

    Technical Report: Comparative Genomics Analysis and Phenotypic Characterization of ... (Myers and Nealson, 1988) and similar bacteria have also been isolated from other ...

  8. Diatom Genomics (2009 JGI User Meeting)

    ScienceCinema (OSTI)

    Ambrust, Ginger

    2011-04-25

    Ginger Armbrust from the University of Washington spoke about diatom genomics on March 26, 2009 at the DOE JGI User Meeting

  9. Synthetic Genomics Inc | Open Energy Information

    Open Energy Info (EERE)

    search Name: Synthetic Genomics Inc. Place: La Jolla, California Sector: Hydro, Hydrogen, Renewable Energy Product: California-based company planning to create new types of...

  10. Effects of Sample Treatments on Genome Recovery via Single-Cell Genomics

    SciTech Connect (OSTI)

    Woyke, Tanja; Clingenpeel, Scott; Schwientek, Patrick; Hugenholtz, Philip

    2014-04-30

    Single-cell genomics is a powerful tool for accessing genetic information from uncultivated microorganisms. Methods of handling samples before single-cell genomic amplification may affect the quality of the genomes obtained. Using three bacterial strains we show that compared to cryopreservation, lower quality single-cell genomes are recovered when the sample is preserved in ethanol or if the sample undergoes fluorescence in situ hybridization, while sample preservation in paraformaldehyde renders it completely unsuitable for sequencing

  11. Leadership Institutional Change Principle | Department of Energy

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

    Leadership Institutional Change Principle Leadership Institutional Change Principle For changing behavior among employees, leaders in federal agencies should visibly communicate their own commitments to sustainability in the workplace. Such visible leadership will help achieve sustainability goals in the short term and continue to provide motivation for long-term benefits. Methods Leaders should have a deep understanding of the politics of the organization and the ability to inspire and

  12. Manufacturing Innovation Institute for Smart Manufacturing: Advanced

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

    Sensors, Controls, Platforms, and Modeling for Manufacturing | Department of Energy Manufacturing Innovation Institute for Smart Manufacturing: Advanced Sensors, Controls, Platforms, and Modeling for Manufacturing Manufacturing Innovation Institute for Smart Manufacturing: Advanced Sensors, Controls, Platforms, and Modeling for Manufacturing September 23, 2015 - 2:38pm Addthis Posted Date: Sep 15, 2015 Original Closing Date for Applications: Jan 29, 2016 A mandatory Concept Paper is due

  13. Minority Educational Institution Student Partnership Program (MEISPP) |

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

    Department of Energy Minority Educational Institution Student Partnership Program (MEISPP) Minority Educational Institution Student Partnership Program (MEISPP) MEISPP Interns at the Department of Energy Headquarters MEISPP Interns at the Department of Energy Headquarters Come Work for Us! Paid Summer Internships for College Students Cultivating workplace diversity is a valued aspect of our work at the Department. Opportunities for undergraduate and graduate students pursuing degrees in a

  14. Southface Energy Institute: Advanced Commercial Buildings Initiative

    Broader source: Energy.gov [DOE]

    Lead Performer: Southface Energy Institute – Atlanta, GA Partners: - City of Atlanta – Atlanta, GA - Georgia Institute of Technology – Atlanta, GA - Kendeda Fund – Atlanta, GA - Oak Ridge National Laboratory – Oak Ridge, TN - Acuity Brands Lighting – Atlanta, GA - Vermont Energy Investment Corp – Burlington, VT - Georgia Power– Atlanta, GA - Southeast Energy Efficiency Alliance – Atlanta, GA - JPB Foundation – New York, NY - Central Atlanta Progress – Atlanta, GA

  15. Summer 2010 Cyclotron Institute REU Program

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

    Cyclotron Institute REU Program 2010 REU Lecture Notes Poster Guidelines 2010 Career Day Recap 2010 CEU 2010 Projects Summer 2010 Program The Texas A&M Cyclotron Institute, in conjunction with the National Science Foundation, is serving as a Research Experiences for Undergraduates site during the summer of 2010. This REU site focuses on research in nuclear physics and nuclear chemistry. Students will have the opportunity to work closely with internationally renowned scientists at a major

  16. NREL: Energy Executive Leadership Academy - Leadership Institute

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

    Institute Participants in NREL's Executive Energy Leadership Institute learn about renewable energy and energy efficiency from the experts through this accelerated training program typically conducted over a three-day period. Course content includes briefings by technology experts on renewable energy and energy efficiency technologies, market assessments, and analytical and financial tools, as well as associated technology tours. Tours of NREL research facilities are a key component of the

  17. National Institute for Global Environmental Change

    SciTech Connect (OSTI)

    Werth, G.C.

    1992-04-01

    This document is the Semi-Annual Report of the National Institute for Global Environmental Change for the reporting period July 1 to December 31, 1991. The report is in two parts. Part I presents the mission of the Institute, examples of progress toward that mission, a brief description of the revised management plan, and the financial report. Part II presents the statements of the Regional Center Directors along with progress reports of the projects written by the researchers themselves.

  18. Microsoft Word - InstituteFlyer2016.doc

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

    subsidiary of Lockheed Martin Corporation, for the U.S. Department of Energy's National Nuclear Security Administration under contract DE-AC04-94AL85000. Call for Applications for the 2016 Sandia National Laboratories Nonlinear Mechanics and Dynamics (NOMAD) Research Institute The 2016 Sandia National Laboratories Nonlinear Mechanics and Dynamics (NOMAD) Research Institute, hosted at the University of New Mexico, is open to graduate students and early career researchers from the US and

  19. National Institute of Economic and Industry Research

    Energy Savers [EERE]

    scale export of East Coast Australia natural gas: Unintended consequences National Institute of Economic and Industry Research 1 This note summarizes the major conclusions of the NIEIR study referenced here. Many major projects to export Liquefied Natural Gas from Eastern Australia have been approved and will start to operate over the next several years. This will significantly impact the domestic supply of natural gas. The National Institute of Economic and Industry Research (NIEIR) has done an

  20. Alternative institutional vehicles for geothermal district heating

    SciTech Connect (OSTI)

    Bressler, S.; Gardner, T.C.; King, D.; Nimmons, J.T.

    1980-06-01

    The attributes of various institutional entities which might participate in various phases of geothermal heating applications are described. Public entities considered include cities, counties, and special districts. Private entities discussed include cooperative organizations and non-member-owned private enterprises. The powers, authority and manner of operation of each of the institutional entities are reviewed. Some of the public utility regulatory implications which may affect choices among available alternatives are considered. (MHR)

  1. VI-13 INSTITUTE COLLOQUIA AND SEMINARS

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

    3-March 31, 2014 2013 September 25 Prof. Wilton Catford, Department of Physics, University of Surrey, Guildford, United Kingdom TIARA Detector September 25 Prof. K. A. Gridnev, St. Petersburg State University, St. Petersburg, Russia Extreme Neutron Rich Sector of the Nuclear Chart: New Horizon September 26 Dr. Jiansong Wang, Institute of Modern Physics, Chinese Academy of Sciences, Lanzhou, China Elastic Scattering Studies at RIBLL September 26 Dr. Zhiqiang Chen, Institute of Modern Physics,

  2. Institutional Research & Development | National Nuclear Security

    National Nuclear Security Administration (NNSA)

    Administration Institutional Research & Development Functions The Office of Advanced Simulation and Computing and Institutional R&D, a program office part of the NNSA Office of Defense Programs, advocates for and manages NNSA's Laboratory Directed Research and Development (LDRD) and Site Directed Research and Development (SDRD) Programs, with SDRD work performed at the Nevada National Security Site (NNSS). This includes providing strategic R&D guidance and support, working

  3. Microsoft Word - Kimelman_manuscript_revised.docx

    Office of Scientific and Technical Information (OSTI)

    A vast collection of microbial genes that are toxic to bacteria Aya Kimelman1^, Asaf Levy1^, Hila Sberro1^ Shahar Kidron1, Azita Leavitt1, Gil Amitai1, Deborah R. Yoder-Himes2 3 4 , Omri Wurtzel1, Yiwen Zhu3,4, Edward M Rubin3,4, Rotem Sorek^* 1Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel 2 Department of Microbiology and Immunobiology, Harvard Medical School, 200 Longwood Ave, Boston MA, 02115 3 DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut

  4. Microsoft Word - Validation of two ribosomal RNA removal methods for microbial metatranscriptomics.doc

    Office of Scientific and Technical Information (OSTI)

    1- Validation of two ribosomal RNA removal methods for microbial metatranscriptomics Shaomei He 1,2,5 , Omri Wurtzel 3,5 , Kanwar Singh 1 , Jeff L Froula 1 , Suzan Yilmaz 1 , Susannah G Tringe 1 , Zhong Wang 1 , Feng Chen 1 , Erika A Lindquist 1 , Rotem Sorek 3 & Philip Hugenholtz 1,2,4 1 Department of Energy Joint Genome Institute, Walnut Creek, California, USA. 2 Energy Biosciences Institute, University of California-Berkeley, Berkeley, California, USA. 3 Department of Molecular Genetics,

  5. Functional Insights from Structural Genomics

    SciTech Connect (OSTI)

    Forouhar,F.; Kuzin, A.; Seetharaman, J.; Lee, I.; Zhou, W.; Abashidze, M.; Chen, Y.; Montelione, G.; Tong, L.; et al

    2007-01-01

    Structural genomics efforts have produced structural information, either directly or by modeling, for thousands of proteins over the past few years. While many of these proteins have known functions, a large percentage of them have not been characterized at the functional level. The structural information has provided valuable functional insights on some of these proteins, through careful structural analyses, serendipity, and structure-guided functional screening. Some of the success stories based on structures solved at the Northeast Structural Genomics Consortium (NESG) are reported here. These include a novel methyl salicylate esterase with important role in plant innate immunity, a novel RNA methyltransferase (H. influenzae yggJ (HI0303)), a novel spermidine/spermine N-acetyltransferase (B. subtilis PaiA), a novel methyltransferase or AdoMet binding protein (A. fulgidus AF{_}0241), an ATP:cob(I)alamin adenosyltransferase (B. subtilis YvqK), a novel carboxysome pore (E. coli EutN), a proline racemase homolog with a disrupted active site (B. melitensis BME11586), an FMN-dependent enzyme (S. pneumoniae SP{_}1951), and a 12-stranded {beta}-barrel with a novel fold (V. parahaemolyticus VPA1032).

  6. Genome Structure Gallery from the Mycobacterium Tuberculosis Structual Genomics Consortium

    DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

    The TB Structural Genomics Consortium works with the structures of proteins from M. tuberculosis, analyzing these structures in the context of functional information that currently exists and that the Consortium generates. The database of linked structural and functional information constructed from this project will form a lasting basis for understanding M. tuberculosis pathogenesis and for structure-based drug design. The Consortium's structural and functional information is publicly available. The Structures Gallery makes more than 650 total structures available by PDB identifier. Some of these are not consortium targets, but all are viewable in 3D color and can be manipulated in various ways by Jmol, an open-source Java viewer for chemical structures in 3D from http://www.jmol.org/

  7. Fungal biology: compiling genomes and exploiting them

    SciTech Connect (OSTI)

    Labbe, Jessy L; Uehling, Jessie K; Payen, Thibaut; Plett, Jonathan

    2014-01-01

    The last 10 years have seen the cost of sequencing complete genomes decrease at an incredible speed. This has led to an increase in the number of genomes sequenced in all the fungal tree of life as well as a wide variety of plant genomes. The increase in sequencing has permitted us to study the evolution of organisms on a genomic scale. A number of talks during the conference discussed the importance of transposable elements (TEs) that are present in almost all species of fungi. These TEs represent an especially large percentage of genomic space in fungi that interact with plants. Thierry Rouxel (INRA, Nancy, France) showed the link between speciation in the Leptosphaeria complex and the expansion of TE families. For example in the Leptosphaeria complex, one species associated with oilseed rape has experienced a recent and massive burst of movement by a few TE families. The alterations caused by these TEs took place in discrete regions of the genome leading to shuffling of the genomic landscape and the appearance of genes specific to the species, such as effectors useful for the interactions with a particular plant (Rouxel et al., 2011). Other presentations showed the importance of TEs in affecting genome organization. For example, in Amanita different species appear to have been invaded by different TE families (Veneault-Fourrey & Martin, 2011).

  8. Uses of antimicrobial genes from microbial genome

    DOE Patents [OSTI]

    Sorek, Rotem; Rubin, Edward M.

    2013-08-20

    We describe a method for mining microbial genomes to discover antimicrobial genes and proteins having broad spectrum of activity. Also described are antimicrobial genes and their expression products from various microbial genomes that were found using this method. The products of such genes can be used as antimicrobial agents or as tools for molecular biology.

  9. Quality Scores for 32,000 Genomes

    SciTech Connect (OSTI)

    Land, Miriam L; Hyatt, Philip Douglas; Jun, Se Ran; Kora, Guruprasad H; Hauser, Loren John; Ussery, David W

    2014-01-01

    More than 80% of the microbial genomes in GenBank are of draft quality (12,553 draft vs. 2,679 finished, as of October, 2013). We examined the microbial DNA sequences available for complete, draft, and Sequence Read Archive genomes in GenBank as well as three other major public databases and assigned quality scores for more than 30,000 prokaryotic genome sequences. Scores were assigned using four categories: the completeness of the assembly, the presence of full-length rRNA genes, tRNA composition and the presence of a set of 120 conserved genes in prokaryotes. Most (~87.6%) of the genomes had quality scores of 0.8 or better and can be safely used for standard comparative genomics analysis, although only 6.1% of the genomes had a perfect quality score. We find that about 2.9% of the genomes had a score below 0.6 and probably have too low a quality to yield reliable analysis. This score corresponds to more than 1000 contigs. Comparison of the codon usage across 15,000 quality genomes found that anti-codons beginning with an A (codons ending with a U ) are almost non-existent, with the exception of one arginine codon (CGU).

  10. Quality Scores for 32,000 Genomes

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

    Land, Miriam L; Hyatt, Philip Douglas; Jun, Se Ran; Kora, Guruprasad H; Hauser, Loren John; Ussery, David W

    2014-01-01

    More than 80% of the microbial genomes in GenBank are of draft quality (12,553 draft vs. 2,679 finished, as of October, 2013). We examined the microbial DNA sequences available for complete, draft, and Sequence Read Archive genomes in GenBank as well as three other major public databases and assigned quality scores for more than 30,000 prokaryotic genome sequences. Scores were assigned using four categories: the completeness of the assembly, the presence of full-length rRNA genes, tRNA composition and the presence of a set of 120 conserved genes in prokaryotes. Most (~87.6%) of the genomes had quality scores of 0.8 ormore » better and can be safely used for standard comparative genomics analysis, although only 6.1% of the genomes had a perfect quality score. We find that about 2.9% of the genomes had a score below 0.6 and probably have too low a quality to yield reliable analysis. This score corresponds to more than 1000 contigs. Comparison of the codon usage across 15,000 quality genomes found that anti-codons beginning with an A (codons ending with a U ) are almost non-existent, with the exception of one arginine codon (CGU).« less

  11. Implications of structural genomics target selection strategies: Pfam5000,

    Office of Scientific and Technical Information (OSTI)

    whole genome, and random approaches (Journal Article) | SciTech Connect Implications of structural genomics target selection strategies: Pfam5000, whole genome, and random approaches Citation Details In-Document Search Title: Implications of structural genomics target selection strategies: Pfam5000, whole genome, and random approaches The structural genomics project is an international effort to determine the three-dimensional shapes of all important biological macromolecules, with a primary

  12. The Arabidopsis lyrata genome sequence and the basis of rapid genome size change

    SciTech Connect (OSTI)

    Hu, Tina T.; Pattyn, Pedro; Bakker, Erica G.; Cao, Jun; Cheng, Jan-Fang; Clark, Richard M.; Fahlgren, Noah; Fawcett, Jeffrey A.; Grimwood, Jane; Gundlach, Heidrun; Haberer, Georg; Hollister, Jesse D.; Ossowski, Stephan; Ottilar, Robert P.; Salamov, Asaf A.; Schneeberger, Korbinian; Spannagl, Manuel; Wang, Xi; Yang, Liang; Nasrallah, Mikhail E.; Bergelson, Joy; Carrington, James C.; Gaut, Brandon S.; Schmutz, Jeremy; Mayer, Klaus F. X.; Van de Peer, Yves; Grigoriev, Igor V.; Nordborg, Magnus; Weigel, Detlef; Guo, Ya-Long

    2011-04-29

    In our manuscript, we present a high-quality genome sequence of the Arabidopsis thaliana relative, Arabidopsis lyrata, produced by dideoxy sequencing. We have performed the usual types of genome analysis (gene annotation, dN/dS studies etc. etc.), but this is relegated to the Supporting Information. Instead, we focus on what was a major motivation for sequencing this genome, namely to understand how A. thaliana lost half its genome in a few million years and lived to tell the tale. The rather surprising conclusion is that there is not a single genomic feature that accounts for the reduced genome, but that every aspect centromeres, intergenic regions, transposable elements, gene family number is affected through hundreds of thousands of cuts. This strongly suggests that overall genome size in itself is what has been under selection, a suggestion that is strongly supported by our demonstration (using population genetics data from A. thaliana) that new deletions seem to be driven to fixation.

  13. Genomic definition of species. Revision 2

    SciTech Connect (OSTI)

    Crkvenjakov, R.; Drmanac, R.

    1993-03-01

    A genome is the sum total of the DNA sequences in the cells of an individual organism. The common usage that species possess genomes comes naturally to biochemists, who have shown that all protein and nucleic acid molecules are at the same time species- and individual-specific, with minor individual variations being superimposed on a consensus sequence that is constant for a species. By extension, this property is attributed to the common features of DNA in the chromosomes of members of a given species and is called species genome. Our proposal for the definition of a biological species is as follows: A species comprises a group of actual and potential biological organisms built according to a unique genome program that is recorded, and at least in part expressed, in the structures of their genomic nucleic acid molecule(s), having intragroup sequence differences which can be fully interconverted in the process of organismal reproduction.

  14. Localized Plasticity in the Streamlined Genomes of Vinyl Chloride...

    Office of Scientific and Technical Information (OSTI)

    Journal Article: Localized Plasticity in the Streamlined Genomes of Vinyl Chloride Respiring Dehalococcoides Citation ... Here we report the first, to our knowledge, complete genome ...

  15. Research Update: The materials genome initiative: Data sharing...

    Office of Scientific and Technical Information (OSTI)

    materials genome initiative: Data sharing and the impact of collaborative ab initio databases Citation Details In-Document Search Title: Research Update: The materials genome ...

  16. To bioethanol through genomics of microbial synergies (Technical...

    Office of Scientific and Technical Information (OSTI)

    To bioethanol through genomics of microbial synergies Citation Details In-Document Search Title: To bioethanol through genomics of microbial synergies The strategic goal of this ...

  17. Using Genomics to Dissect Seed Development (JGI Seventh Annual...

    Office of Scientific and Technical Information (OSTI)

    Using Genomics to Dissect Seed Development (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment Meeting) Citation Details In-Document Search Title: Using...

  18. Achievements of structural genomics (Journal Article) | SciTech...

    Office of Scientific and Technical Information (OSTI)

    Journal Article: Achievements of structural genomics Citation Details In-Document Search Title: Achievements of structural genomics You are accessing a document from the...

  19. Using Genomics to Dissect Seed Development (JGI Seventh Annual...

    Office of Scientific and Technical Information (OSTI)

    Seed Development (JGI Seventh Annual User Meeting 2012: Genomics of Energy and Environment Meeting) Citation Details In-Document Search Title: Using Genomics to Dissect Seed...

  20. Integrated Genome-Based Studies of Shewanella Ecophysiology ...

    Office of Scientific and Technical Information (OSTI)

    Integrated Genome-Based Studies of Shewanella Ecophysiology Citation Details In-Document Search Title: Integrated Genome-Based Studies of Shewanella Ecophysiology As a part of the ...

  1. Next Generation Sequencing at the University of Chicago Genomics...

    Office of Scientific and Technical Information (OSTI)

    University of Chicago Genomics Core Citation Details In-Document Search Title: Next Generation Sequencing at the University of Chicago Genomics Core You are accessing a ...

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

    Office of Scientific and Technical Information (OSTI)

    Genome Portal & Tree of Life Virtual Library on Genetics Biological and Environmental Research Abstracts Database Research Summary Genomic Science Program, February 2014 Research ...

  3. Genome-wide experimental determination of barriers to horizontal...

    Office of Scientific and Technical Information (OSTI)

    Sponsoring Org: Genomics Division Country of Publication: United States Language: English Subject: 60; GENES; GENETICS; ORIGIN; PROMOTERS; TOXICITY; TREES Genome gene transfer DNA

  4. The Turn-on of LCLS: the X-Ray Free Electron Laser at SLAC ( Keynote - 2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Drell, Persis [SLAC Director

    2011-06-08

    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. SLAC National Laboratory Director Persis Drell gives a keynote talk on "The Turn-on of LCLS: the X-Ray Free-Electron Laser at SLAC" at the 6th Genomics of Energy & Environment Meeting on March 22, 2011

  5. 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

  6. Comparative Metagenomics of Gut and Ocean: Identification of Microbial Marker Genes for Complex Environmental Properties(2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Bork, Peer

    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. Peer Bork of the European Molecular Biology Laboratory on "Comparative Metagenomics of Gut and Ocean: Identification of Microbial Marker Genes for Complex Environmental Properties" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  7. Building Communities: The Community Sequencing Program at JGI (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Bristow, Jim [DOE JGI Deputy Director

    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. DOE JGI Deputy Director Jim Bristow gives a presentation on the Community Sequencing Program at the 6th annual Genomics of Energy and Environment Meeting on March 23, 2011

  8. The Human Microbiome Project (HMP) and the Data Analysis and Coordination Center (DAAC) portal to the HMP (GSC8 Meeting)

    ScienceCinema (OSTI)

    Weinstock, George [Washington University School of Medicine]; Wortman, Jennifer [University of Maryland School of Medicine

    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. George Weinstock from Washington University School of Medicine talks about the Human Microbiome Project (HMP) followed briefly by Jennifer Wortman from the University of Maryland School of Medicine on the Data Analysis and Coordination Center (DACC) portal to the HMP at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009.

  9. Host Genetic Control of the Microbiome in Humans and Maise or Relating Host Genetic Variation to the Microbiome (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Ley, Ruth [Cornell University] [Cornell 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. Ruth Ley of Cornell University gives a presentation on "Relating Host Genetic Variation to the Microbiome" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011.

  10. Building Communities: The Community Sequencing Program at JGI (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Bristow, Jim [DOE JGI Deputy Director] [DOE JGI Deputy Director

    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. DOE JGI Deputy Director Jim Bristow gives a presentation on the Community Sequencing Program at the 6th annual Genomics of Energy and Environment Meeting on March 23, 2011

  11. Comparative Metagenomics of Gut and Ocean: Identification of Microbial Marker Genes for Complex Environmental Properties(2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Bork, Peer

    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. Peer Bork of the European Molecular Biology Laboratory on "Comparative Metagenomics of Gut and Ocean: Identification of Microbial Marker Genes for Complex Environmental Properties" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  12. 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

  13. Regulatory Networks Controlling Plant Cold Acclimation or Low Temperature Regulatory Networks Controlling Cold Acclimation in Arabidopsis (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Thomashow, Mike

    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. Mike Thomashow of Michigan State University gives a presentation on on "Low Temperature Regulatory Networks Controlling Cold Acclimation in Arabidopsis" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011.

  14. The Gulf Oil Spill: Ecogenomics and Ecoresilience (Keynote - 2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Hazen, Terry [LBNL] [LBNL

    2011-03-22

    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. Berkeley Lab microbial ecologist Terry Hazen delivers a keynote on "The Gulf Oil Spill: Ecogenomics and Ecoresilience" at the 6th Genomics of Energy & Environment Meeting on March 22, 2011.

  15. The Turn-on of LCLS: the X-Ray Free Electron Laser at SLAC ( Keynote - 2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Drell, Persis [SLAC Director] [SLAC Director

    2011-03-22

    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. SLAC National Laboratory Director Persis Drell gives a keynote talk on "The Turn-on of LCLS: the X-Ray Free-Electron Laser at SLAC" at the 6th Genomics of Energy & Environment Meeting on March 22, 2011

  16. Spatially and Temporally Resolved Studies of the Human Microbiome (2011 JGI User Meeting)

    SciTech Connect (OSTI)

    Knight, Rob [University of Colorado] [University of Colorado

    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. Rob Knight of the University of Colorado gives a presentation on "Spatially and Temporally Resolved Studies of the Human Microbiome" at the 6th annual Genomics of Energy & Environment Meeting on March 23, 2011

  17. The Human Microbiome Project (HMP) and the Data Analysis and Coordination Center (DAAC) portal to the HMP (GSC8 Meeting)

    SciTech Connect (OSTI)

    Weinstock, George; Wortman, Jennifer

    2009-09-09

    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. George Weinstock from Washington University School of Medicine talks about the Human Microbiome Project (HMP) followed briefly by Jennifer Wortman from the University of Maryland School of Medicine on the Data Analysis and Coordination Center (DACC) portal to the HMP at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 9, 2009.

  18. 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.

  19. The Gulf Oil Spill: Ecogenomics and Ecoresilience (Keynote - 2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Hazen, Terry [LBNL

    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. Berkeley Lab microbial ecologist Terry Hazen delivers a keynote on "The Gulf Oil Spill: Ecogenomics and Ecoresilience" at the 6th Genomics of Energy & Environment Meeting on March 22, 2011.

  20. 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.