National Library of Energy BETA

Sample records for institute jgi fes

  1. 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...

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

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

    The JGI makes high-quality genome sequencing data freely available to the greater scientific community through its web portal. Having played a significant role in the federally funded Human Genome Project -- generating the complete sequences of Chromosomes 5, 16, and 19--the JGI has now moved on to contributing in other critical areas of genomics research. While NIH-funded genome sequencing activities continue to emphasize human biomedical targets and applications, the JGI has since shifted its focus to the non-human components of the biosphere, particularly those relevant to the science mission of the Department of Energy. With efficiencies of scale established at the PGF, and capacity now exceeding three billion bases generated on a monthly basis, the JGI has tackled scores of additional genomes. These include more than 60 microbial genomes and many important multicellular organisms and communities of microbes. In partnership with other federal institutions and universities, the JGI is in the process of sequencing a frog (Xenopus tropicalis), a green alga (Chlamydomonas reinhardtii), a diatom (Thalassiosira pseudonana) , the cottonwood tree (Populus trichocarpa), and a host of agriculturally important plants and plant pathogens. Microorganisms, for example those that thrive under extreme conditions such as high acidity, radiation, and metal contamination, are of particular interest to the DOE and JGI. Investigations by JGI and its partners are shedding light on the cellular machinery of microbes and how they can be harnessed to clean up contaminated soil or water, capture carbon from the atmosphere, and produce potentially important sources of energy such as hydrogen and methane. [Excerpt from the JGI page "Who We Are" at http://www.jgi.doe.gov/whoweare/whoweare.html] From the JGI webportal users can view a photo grid of organisims, check assemblies for status, access the Integrated Microbial Genomes (IMG) system to do comparative analysis of publicly available

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

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

    The JGI makes high-quality genome sequencing data freely available to the greater scientific community through its web portal. Having played a significant role in the federally funded Human Genome Project -- generating the complete sequences of Chromosomes 5, 16, and 19--the JGI has now moved on to contributing in other critical areas of genomics research. While NIH-funded genome sequencing activities continue to emphasize human biomedical targets and applications, the JGI has since shifted its focus to the non-human components of the biosphere, particularly those relevant to the science mission of the Department of Energy. With efficiencies of scale established at the PGF, and capacity now exceeding three billion bases generated on a monthly basis, the JGI has tackled scores of additional genomes. These include more than 60 microbial genomes and many important multicellular organisms and communities of microbes. In partnership with other federal institutions and universities, the JGI is in the process of sequencing a frog (Xenopus tropicalis), a green alga (Chlamydomonas reinhardtii), a diatom (Thalassiosira pseudonana) , the cottonwood tree (Populus trichocarpa), and a host of agriculturally important plants and plant pathogens. Microorganisms, for example those that thrive under extreme conditions such as high acidity, radiation, and metal contamination, are of particular interest to the DOE and JGI. Investigations by JGI and its partners are shedding light on the cellular machinery of microbes and how they can be harnessed to clean up contaminated soil or water, capture carbon from the atmosphere, and produce potentially important sources of energy such as hydrogen and methane. [Excerpt from the JGI page "Who We Are" at http://www.jgi.doe.gov/whoweare/whoweare.html] 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

  4. 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

  5. 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.

  6. 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.

  7. 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.

  8. Opening Remarks from the Joint Genome Institute and Argonne Lab High Performance Computing Workshop (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Rubin, Eddy

    2011-06-03

    DOE JGI Director Eddy Rubin gives opening remarks at the JGI/Argonne High Performance Computing (HPC) Workshop on January 25, 2010.

  9. Opening Remarks from the Joint Genome Institute and Argonne Lab High Performance Computing Workshop (2010 JGI/ANL HPC Workshop)

    SciTech Connect (OSTI)

    Rubin, Eddy

    2010-01-25

    DOE JGI Director Eddy Rubin gives opening remarks at the JGI/Argonne High Performance Computing (HPC) Workshop on January 25, 2010.

  10. JGI Fungal Genomics Program

    SciTech Connect (OSTI)

    Grigoriev, Igor V.

    2011-03-14

    Genomes of energy and environment fungi are in focus of the Fungal Genomic Program at the US Department of Energy Joint Genome Institute (JGI). Its key project, the Genomics Encyclopedia of Fungi, targets fungi related to plant health (symbionts, pathogens, and biocontrol agents) and biorefinery processes (cellulose degradation, sugar fermentation, industrial hosts), and explores fungal diversity by means of genome sequencing and analysis. Over 50 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 leads 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

  11. JGI Digital Scavenger Hunt

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

    JGI Digital Scavenger Hunt JGI Digital Scavenger Hunt The NERSC webpages are a great resource for New and Old users, so this is the first stop on the JGI Digital Scavenger Hunt....

  12. Kjiersten Fagnan Appointed NERSC/JGI Engagement Lead

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

    Kjiersten Fagnan Named NERSC/JGI Engagement Lead Kjiersten Fagnan Appointed NERSC/JGI Engagement Lead September 1, 2014 fagnan.jpg Kjiersten Fagnan has been named the NERSC/JGI Engagement Lead for Joint Genome Institute (JGI) computational and data analysis efforts carried out at the Department of Energy's (DOE) National Energy Research Scientific Computing Center (NERSC). Fagnan, who holds a Ph.D. in Applied Mathematics from the University of Washington, started at NERSC as a petascale postdoc

  13. 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).

  14. 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).

  15. 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).

  16. 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.

  17. Visualizing Assembling Everything (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Jaffe, David; Gnerre, Sante

    2011-06-08

    David Jaffe and Sante Gnerre of the Broad Institute give a presentation on "Visualizing assembling everything" at the JGI/Argonne HPC Workshop on January 25, 2010.

  18. New Metadata Organizer and Archive Streamlines JGI Data Management

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

    New Metadata Organizer Streamlines JGI Data Management New Metadata Organizer and Archive Streamlines JGI Data Management JAMO poster to be presented December 11 at the Bay Area Scientific Computing Day December 5, 2013 Contact: Kathy Kincade, +1 510 495 2124, kkincade@lbl.gov A new centralized data management system now up and running at the Department of Energy's National Energy Research Scientific Computing (NERSC) facility is helping researchers at the Joint Genome Institute (JGI) deal more

  19. JGI Digital Scavenger Hunt

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

    JGI Digital Scavenger Hunt JGI Digital Scavenger Hunt The NERSC webpages are a great resource for New and Old users, so this is the first stop on the JGI Digital Scavenger Hunt. Here is your first clue: 1) Log on to Genepool (ssh -Y genepool.nersc.gov) 2) Load the JAMO (dev) module (module load jamo/dev) 3) Run the following sequence of commands and answer the questions: genpool10: ~ $ jamo What is the third letter of the sixth jamo command in the help menu? genepool10: ~ $ jamo info What is the

  20. Synthetic Biology for Advanced Fuels (Opening Keynote Address - 2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Keasling, Jay

    2011-04-28

    Jay Keasling, CEO of the Joint BioEnergy Institute, delivers the opening keynote on March 24, 2010 at the 5th Annual DOE JGI User Meeting

  1. The JGI Metagenome Program (2009 JGI User Meeting)

    SciTech Connect (OSTI)

    Tringe, Susannah Green

    2009-03-25

    Susannah Tringe discussed the DOE JGI Metagenomic Program on March 25, 2009 at the 4th Annual User Meeting.

  2. The JGI Metagenome Program (2009 JGI User Meeting)

    ScienceCinema (OSTI)

    Tringe, Susannah Green

    2011-04-25

    Susannah Tringe discussed the DOE JGI Metagenomic Program on March 25, 2009 at the 4th Annual User Meeting.

  3. 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

  4. 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

  5. The JGI Mission and Programs (2009 JGI User Meeting)

    ScienceCinema (OSTI)

    Bristow, Jim

    2011-04-25

    Deputy Director of Programs Jim Bristow spoke about the DOE JGI's mission and programs at the 4th Annual User Meeting on March 25, 2009

  6. OSCARS Extends JGI Network Capacity

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

    OSCARS & JGI Science DMZ Case Studies Multi-facility Workflow Case Study News & Publications ESnet News Publications and Presentations Galleries ESnet Awards and Honors Blog ESnet Live Home » Science Engagement » Case Studies » OSCARS Case Studies » OSCARS & JGI Science Engagement Move your data Programs & Workshops Science Requirements Reviews Case Studies OSCARS Case Studies OSCARS & JGI Science DMZ Case Studies Multi-facility Workflow Case Study Contact Us Technical

  7. OSCARS Extends JGI Network Capacity

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

    OSCARS & JGI Science DMZ Case Studies Multi-facility Workflow Case Study News & Publications ESnet News Publications and Presentations Galleries ESnet Awards and Honors Blog ESnet...

  8. Rob Egan JGI

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

    Parallelized coding (and profiling) on genepool Rob Egan JGI Types of parallelism ● Fine grained ○ Lots of communication / syncs ■ "Game of Life" ■ Climate modelling ● Coarse grained ○ Moderate communication / few syncs ■ 'Map' phase of Map-Reduce ● Embarrassingly parallel ○ Zero communication / 0 syncs ○ Deterministic partitioning ■ Read mapping to a reference ■ Mandelbrot Types of parallelism ● Process multi-tasking, pipelining ○ "for f in *.gz ; do

  9. JGI Genomics and Bioinformatics for Undergraduate Educators Workshop

    Broader source: Energy.gov [DOE]

    The JGI will be holding the JGI Genomics and Bioinformatics for Undergraduate Educators Workshop in conjunction with the JGI User Meeting. The workshop will take place March 23-26, 2013 at the JGI.

  10. Soybean (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Stacey, Gary

    2011-04-26

    Gary Stacey, associate director of the National Center for Soybean Biotechnology at the University of Missouri, gives a talk simply titled "Soybean" on March 24, 2010 at the 5th Annual DOE JGI User Meeting

  11. 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

  12. An Inside Look at the JGIs Sequencing Operation

    SciTech Connect (OSTI)

    Daum, Chris

    2010-06-02

    Chris Daum of the DOE Joint Genome Institute discusses how the DOE JGI's Production Sequencing group optimizes the sequencer pipelines and assesses quality on the Production line on June 2, 2010 at the "Sequencing, Finishing, Analysis in the Future" meeting in Santa Fe, NM

  13. 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

  14. FES Requirements Review 2014

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

    FES Requirements Review 2014 Science Engagement Move your data Programs & Workshops Science Requirements Reviews Network Requirements Reviews Documents and Background Materials FAQ for Case Study Authors BER Requirements Review 2015 ASCR Requirements Review 2015 Previous Reviews HEP/NP Requirements Review 2013 FES Requirements Review 2014 FES Attendees 2014 BES Requirements Review 2014 Requirements Review Reports Case Studies Contact Us Technical Assistance: 1 800-33-ESnet (Inside US) 1

  15. Genomic Sequencing of Single Bacterial Cells (2010 JGI User Meeting)

    SciTech Connect (OSTI)

    Woyke, Tanje

    2010-03-26

    Tanja Woyke from the DOE JGI on the "Genomic Sequencing of Single Bacterial Cells" on March 26, 2010 at the 5th Annual DOE JGI User Meeting

  16. New Metadata Organizer and Archive Streamlines JGI Data Management

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

    New Metadata Organizer Streamlines JGI Data Management New Metadata Organizer and Archive Streamlines JGI Data Management JAMO poster to be presented December 11 at the Bay Area ...

  17. Next-Generation Genetics in Plants: Evolutionary Trade-off, Immunity and Speciation (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Wiegel, Detlef

    2011-04-25

    Detlef Wiegel from the Max Planck Institute for Developmental Biology on "Next-generation genetics in plants: Evolutionary tradeoffs, immunity and speciation" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  18. Ocean Viral Metagenomics (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Rohwer, Forest

    2011-04-26

    Forest Rohwer from San Diego State University talks about "Ocean Viral Metagenomics" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  19. 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

  20. 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

  1. 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

  2. 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

  3. 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

  4. 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

  5. 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.

  6. 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,

  7. FES Case Study Worksheets

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

    Worksheets FES Case Study Worksheets This workshop is closed, and the worksheets can no longer be edited. If you have questions, please report any problems or suggestions for improvement to Richard Gerber (ragerber@lbl.gov). Please choose your worksheet template: Lee Berry, Paul Bonoli, David Green [Read] Jeff Candy [Read] CS Chang [Read] Stephane Ethier [Read] Alex Friedman [Read] Kai Germaschewski [Read] Martin Greenwald [Read] Stephen Jardin [Read] Charlson Kim [Read] Scott Kruger [Read]

  8. 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

  9. 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

  10. The Promise and Challenge of Producing Biofuel Feedstocks: An Ecological Perspective (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    DeLucia, Evan

    2011-04-26

    Evan DeLucia of the University of Illinois at Urbana-Champaign and the Energy Biosciences Institute talks about "The Promise and Challenge of Producing Biofuel Feedstocks: An Ecological Perspective" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  11. Competitiveness of Second Generation Biofuel Feedstocks: Role of Technology and Policy (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Khanna, Madhu

    2011-04-26

    Madhu Khanna from the University of Illinois at Urbana-Champaign and the Energy Biosciences Institute on "Competitiveness of Second Generation Biofuel Feedstocks: Role of Technology and Policy" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  12. [FIXED] JGI data loss in /projectb/sandbox area [purge

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

    JGI data loss in projectbsandbox area purge FIXED JGI data loss in projectbsandbox area purge August 19, 2013 by Kjiersten Fagnan We have discovered a serious bug in our...

  13. Acceleration Architectures for Bioinformatics (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Gokhale, Maya

    2011-06-08

    Maya Gokhale of the Lawrence Livermore National Laboratory presents at the JGI/Argonne HPC Workshop on January 26, 2010

  14. Computational Challenges for Microbial Genome and Metagenome Analysis (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Mavrommatis, Kostas

    2011-06-08

    Kostas Mavrommatis of the DOE JGI gives a presentation on "Computational Challenges for Microbial Genome & Metagenome Analysis" at the JGI/Argonne HPC Workshop on January 26, 2010.

  15. 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...

  16. 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...

  17. 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...

  18. 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.

  19. 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

  20. 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.

  1. Spatially and Temporally Resolved Studies of the Human Microbiome (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Knight, Rob [University of Colorado

    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. 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

  2. 10-Year Strategic Vision: Forging the Future of the DOE JGI

    SciTech Connect (OSTI)

    2012-09-01

    Dramatic technological advances in genomics continue to transform modern biology. The DOE Joint Genome Institute (DOE JGI) has been at the leading edge of large-scale sequence-based science from its inception. Presently our ability to generate genomic data greatly outpaces our capacity to convert these data into biological insights. Bridging the gap between a sequenced genome and understanding of organism-scale functions is a significant unsolved problem in modern biology. Consequently, as the DOE JGI plans for its future, a major objective is to couple the generation of sequence data with the development of new large-scale experimental and computational capabilities to functionally annotate DNA sequences, thereby narrowing the gap between generation and interpretation of sequence data.

  3. 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

  4. 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.

  5. 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

  6. Introduction to Metagenomics at DOE JGI (Opening Remarks for the Metagenomics Informatics Challenges Workshop: 10K Genomes at a Time)

    ScienceCinema (OSTI)

    Kyrpides, Nikos [DOE JGI

    2013-01-22

    After a quick introduction by DOE JGI Director Eddy Rubin, DOE JGI's Nikos Kyrpides delivers the opening remarks at the Metagenomics Informatics Challenges Workshop held at the DOE JGI on October 12-13, 2011

  7. Friedman-FES-NERSC-pm.ppt

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

    Program and Heavy Ion Fusion Science Virtual National Laboratory Large Scale Computing and Storage Requirements for Fusion Energy Sciences An FES ASCR NERSC Workshop ...

  8. 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.

  9. 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...

  10. Sandia non-fusion R&D supported by FES.

    SciTech Connect (OSTI)

    Nygren, Richard E.

    2015-06-03

    Until 2012, Sandia participated regularly in non-fusion R&D that was supported primarily through our collaborations with companies in the DOE program for Small Business Innovative Research but also in some work-for-others contracts. In this work, funds were recovered from collaborating institutions for the staff time and materials used, but FES had supported the facility itself and in doing so enabled the contributions to the non-fusion R&D below.

  11. Metabolic Noise, Vestigial Metabolites or the Raw Material of Ecological Adaptation? Opportunitistic Enzymes, Catalytic Promiscuity and the Evolution of chemodiversity in Nature (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Noel, Joseph

    2011-04-25

    Joseph Noel from the Salk Institute on "Metabolic Noise, Vestigial Metabolites or the Raw Material of Ecological Adaptation? Enzymes, Catalytic Promiscuity and the Evolution of Chemodiversity in Nature" on March 26, 2010 at the 5th Annual DOE JGI User Meeting

  12. 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.

  13. 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.

  14. Efficient Short-Read Assembly of Eukaryotic Genomes (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Chapman, Jarrod

    2011-06-03

    Jarrod Chapman of the DOE JGI gives a presentation on "Efficient Short-Read Assembly of Eukaryotic Genomes" at the JGI/Argonne HPC Workshop on January 25, 2010.

  15. Metagenome Assembly at the DOE JGI (Metagenomics Informatics Challenges Workshop: 10K Genomes at a Time)

    ScienceCinema (OSTI)

    Chain, Patrick [DOE JGI at LANL

    2013-01-22

    Patrick Chain of DOE JGI at LANL, Co-Chair of the Metagenome-specific Assembly session, on "Metagenome Assembly at the DOE JGI" at the Metagenomics Informatics Challenges Workshop held at the DOE JGI on October 12-13, 2011.

  16. 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

  17. Regulatory Networks Controlling Plant Cold Acclimation or Low Temperature Regulatory Networks Controlling Cold Acclimation in Arabidopsis (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Thomashow, Mike

    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. 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. «

  18. 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

  19. 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

  20. 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

  1. 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

  2. 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.

  3. 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

  4. FES Budget | U.S. DOE Office of Science (SC)

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

    Budget Fusion Energy Sciences (FES) FES Home About Organization Chart .pdf file (113KB) Staff FES Budget FES Committees of Visitors Directions Jobs Fusion and Plasmas Research Facilities Science Highlights Benefits of FES Funding Opportunities Fusion Energy Sciences Advisory Committee (FESAC) Community Resources Contact Information Fusion Energy Sciences U.S. Department of Energy SC-24/Germantown Building 1000 Independence Ave., SW Washington, DC 20585 P: (301) 903-4941 F: (301) 903-8584 E:

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

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

    Presentations Fusion Energy Sciences (FES) FES Home About Research Facilities Science Highlights Benefits of FES Funding Opportunities Fusion Energy Sciences Advisory Committee (FESAC) Community Resources Featured Content Workshop Reports FES Presentations FES Program Documents Contact Information Fusion Energy Sciences U.S. Department of Energy SC-24/Germantown Building 1000 Independence Ave., SW Washington, DC 20585 P: (301) 903-4941 F: (301) 903-8584 E: Email Us More Information » Community

  6. 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...

  7. [FIXED] JGI data loss in /projectb/sandbox area [purge]

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

    JGI data loss in /projectb/sandbox area [purge] [FIXED] JGI data loss in /projectb/sandbox area [purge] August 19, 2013 by Kjiersten Fagnan We have discovered a serious bug in our purge scripts on /global/projectb. The */global/projectb/sandbox* areas are supposed to be immune from the purge (like the project directories); however, there is a bug in the purge script that caused some files to be deleted if they had not been touched for 90+ days (like data in the scratch directories). *The sandbox

  8. High Performance Computational Biology: A Distributed computing Perspective (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Konerding, David [Google, Inc

    2011-06-08

    David Konerding from Google, Inc. gives a presentation on "High Performance Computational Biology: A Distributed Computing Perspective" at the JGI/Argonne HPC Workshop on January 26, 2010.

  9. A Collection of Algal Genomes from the JGI (Conference) | SciTech...

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

    Citation Details In-Document Search Title: A Collection of Algal Genomes from the JGI Algae, defined as photosynthetic eukaryotes other than plants, constitute a major component...

  10. High Performance Computing and Genomics: Overview of the Issues (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Stevens, Rick [ANL

    2011-06-08

    Rick Stevens of Argonne National Laboratory presents an overview of the issues to be covered during the JGI/Argonne HPC Workshop on January 25, 2010.

  11. Genes and Genomics for Improving Energy Crops (Keynote Address - 2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Pennell, Roger

    2011-04-28

    Roger Pennell, Vice President of Trait Development at Ceres, Inc., delivers a keynote address at the 5th Annual DOE JGI User Meeting on March 25, 2010

  12. Patterns of Nitrogen Utilization in Deep-Sea Syntrophic Consortia (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Wiegel, Detlef

    2011-04-26

    Victoria Orphan from Caltech discusses "Patterns of nitrogen utilization in deep-sea syntrophic consortia" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  13. Solving Problems with Sequences (Closing Keynote Address - 2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Colwell, Rita

    2011-04-28

    Rita Colwell, recipient of the 2010 Stockholm Water Prize, delivers the closing keynote at the 5th Annual DOE JGI User Meeting on March 26, 2010

  14. YS-FES-NERSCWorkshopPresenFinal.ppt

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

    FES/NERSC Requirements Gathering Workshop Yukiko Sekine Program Manager, Facilities Division Advanced Scientific Computing Research Office of Science, DOE August 3 and 4, 2010 Advanced Scientific Computing Research Topics for Discussion * Goal and Outcome of this Workshop * Other approaches to NERSC requirements gathering * Benefits of SC/HQ-centric requirements gathering for NERSC resources in the context of Programmatic mission needs * NERSC requirements gathering workshop schedule * Past

  15. 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

  16. Host Genetic Control of the Microbiome in Humans and Maise or Relating Host Genetic Variation to the Microbiome (2011 JGI User Meeting)

    ScienceCinema (OSTI)

    Ley, Ruth [Cornell 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. 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.

  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)

    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

  18. 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.

  19. 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

  20. JGI's Carbon Cycling Studies on Restored Marshes

    SciTech Connect (OSTI)

    Tringe, Susannah; Theroux, Susanna

    2015-06-02

    DOE Joint Genome Institute Metagenome Program Head, Susannah Tringe, and postdoc, Susie Theroux, discuss the lessons to be learned from studying the microbial diversity of marshes that have been converted to other uses, and are now being restored, as well as the potential impacts on the global carbon cycle.

  1. Fusion Institutions | U.S. DOE Office of Science (SC)

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

    Fusion Institutions Fusion Energy Sciences (FES) FES Home About Research Fusion Institutions Fusion Links International Activities Facilities Science Highlights Benefits of FES Funding Opportunities Fusion Energy Sciences Advisory Committee (FESAC) Community Resources Contact Information Fusion Energy Sciences U.S. Department of Energy SC-24/Germantown Building 1000 Independence Ave., SW Washington, DC 20585 P: (301) 903-4941 F: (301) 903-8584 E: Email Us More Information » Research Fusion

  2. 2013 Progress Report -- DOE Joint Genome Institute

    SciTech Connect (OSTI)

    2013-11-01

    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 generation of sequence data, complemented by orthogonal new capabilities to functionally annotate these large sequence data sets. Our Strategic Vision lays out a path to guide our decisions and ensure that the evolving set of experimental and computational capabilities available to DOE JGI users will continue to enable groundbreaking science.

  3. FES Committees of Visitors | U.S. DOE Office of Science (SC)

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

    FES Committees of Visitors Fusion Energy Sciences Advisory Committee (FESAC) FESAC Home Meetings Members Charges/Reports Charter .pdf file (266KB) FES Committees of Visitors Federal Advisory Committees FES Home FES Committees of Visitors Print Text Size: A A A FeedbackShare Page Fusion Energy Sciences Advisory Committee (FESAC) » The links below provide an archive of Fusion Energy Sciences (FES) Committees of Visitors (COV) reports and responses. 2014 FESAC COV Report on FES Program .pdf file

  4. Casting Annotation as an Optimization Problem (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Overbeek, Ross

    2011-06-08

    Ross Overbeek of the Fellowship for Interpretation of Genomes gives a presentation on "Casting Annotation as an Optimization Problem" at the JGI/Argonne HPC Workshop on January 25, 2010.

  5. Parallel Assembly of Large Genomes from Paired Short Reads (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Aluru, Srinivas [Iowa State University

    2011-06-08

    Srinivas Aluru from Iowa State University gives a presentation on "Parallel Assembly of Large Genomes from Paired Short Reads" at the JGI/Argonne HPC Workshop on January 25, 2010.

  6. Casting a Wider Net: Distributed Resources for Metagenomics (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Meyer, Folker [ANL

    2011-06-08

    Folker Meyer from Argonne National Lab gives a presentation on "Casting a Wider Net: Distributed Resources for Metagenomics" at the JGI/Argonne HPC Workshop on January 26, 2010.

  7. Discovery of Genes and Genomes through Deep Metagenomic Sequencing of Cow Rumen (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Rubin, Eddy

    2011-04-25

    Director Eddy Rubin on "Discovery of Genes and Genomes through Deep Metagenomic Sequencing of Cow Rumen" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  8. High Performance Computing for Sequence Analysis (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Oehmen, Chris [PNNL

    2011-06-08

    Chris Oehmen of the Pacific Northwest National Laboratory gives a presentation on "High Performance Computing for Sequence Analysis" at the JGI/Argonne HPC Workshop on January 25, 2010.

  9. Rapid Evolutionary Placement of Short Sequence Reads (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    None, None

    2011-06-08

    Alexis Stamatakis of the Technical University of Munich gives a presentation on "Rapid Evolutionary Placement of Short Sequence Reads" at the JGI/Argonne HPC Workshop on January 26, 2010.

  10. Next-Gen Annotation Based on Transcriptomics (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Cottingham, Bob [ORNL

    2011-06-08

    Bob Cottingham of the Oak Ridge National Laboratory gives a presentation on "Next-Gen Annotation based on Transcriptomics" at the JGI/Argonne HPC Workshop on January 25, 2010.

  11. Casting Annotation as an Optimization Problem (2010 JGI/ANL HPC Workshop)

    SciTech Connect (OSTI)

    Overbeek, Ross

    2010-01-25

    Ross Overbeek of the Fellowship for Interpretation of Genomes gives a presentation on "Casting Annotation as an Optimization Problem" at the JGI/Argonne HPC Workshop on January 25, 2010.

  12. Casting a Wider Net: Distributed Resources for Metagenomics (2010 JGI/ANL HPC Workshop)

    SciTech Connect (OSTI)

    Meyer, Folker [ANL] [ANL

    2010-01-26

    Folker Meyer from Argonne National Lab gives a presentation on "Casting a Wider Net: Distributed Resources for Metagenomics" at the JGI/Argonne HPC Workshop on January 26, 2010.

  13. Annotation of Plant Genomes using RNA-seq Data (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Pellegrinni, Matteo [UCLA

    2011-06-08

    Matteo Pellegrini from University of California, Los Angeles gives a presentation on "Annotation of Plant Genomes using RNA-seq Data" at the JGI/Argonne HPC Workshop on January 25, 2010.

  14. From Fjords to Open Seas: Ecological Genomics of Expanding Oxygen Minimum Zones (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Hallam, Steven

    2011-04-26

    Steven Hallam of the University of British Columbia talks "From Fjords to Open Seas: Ecological Genomics of Expanding Oxygen Minimum Zones" on March 24, 2010 at the 5th Annual DOE JGI User Meeting

  15. 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

  16. 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

  17. High Performance Computing for Sequence Analysis (2010 JGI/ANL HPC Workshop)

    SciTech Connect (OSTI)

    Oehmen, Chris [PNNL] [PNNL

    2010-01-25

    Chris Oehmen of the Pacific Northwest National Laboratory gives a presentation on "High Performance Computing for Sequence Analysis" at the JGI/Argonne HPC Workshop on January 25, 2010.

  18. JGI_Training_FileSystems_Feb2012.ppt

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

    Jason H ick Storage Systems Group Lawrence Berkeley Na:onal Lab 10 February 2012 A N ew 2 PB G PFS fi le s ystem f or the JGI "projectb" The n ew 2 PB " projectb" fi le s ystem i s a vailable o n Phoebe n ow * Some high level specs for users * 2.8 PB * Has a "per project" non--- purged, b acked---up por:on w ith s maller quota ( 1---5 T B) * And a " per u ser" p urged, not b acked---up p or:on with l arger q uota ( 10TB) File s ystems b est p rac:ces *

  19. Benefits of FES | U.S. DOE Office of Science (SC)

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

    Benefits of FES Fusion Energy Sciences (FES) FES Home About Research Facilities Science Highlights Benefits of FES Fusion Education Funding Opportunities Fusion Energy Sciences Advisory Committee (FESAC) Community Resources Contact Information Fusion Energy Sciences U.S. Department of Energy SC-24/Germantown Building 1000 Independence Ave., SW Washington, DC 20585 P: (301) 903-4941 F: (301) 903-8584 E: Email Us More Information » Benefits of FES Print Text Size: A A A FeedbackShare Page The

  20. FES Committees of Visitors | U.S. DOE Office of Science (SC)

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

    Committees of Visitors Fusion Energy Sciences (FES) FES Home About Organization Chart .pdf file (113KB) Staff FES Budget FES Committees of Visitors Directions Jobs Fusion and Plasmas Research Facilities Science Highlights Benefits of FES Funding Opportunities Fusion Energy Sciences Advisory Committee (FESAC) Community Resources Contact Information Fusion Energy Sciences U.S. Department of Energy SC-24/Germantown Building 1000 Independence Ave., SW Washington, DC 20585 P: (301) 903-4941 F: (301)

  1. FES Program Documents | U.S. DOE Office of Science (SC)

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

    Program Documents Fusion Energy Sciences (FES) FES Home About Research Facilities Science Highlights Benefits of FES Funding Opportunities Fusion Energy Sciences Advisory Committee (FESAC) Community Resources Featured Content Workshop Reports FES Presentations FES Program Documents Contact Information Fusion Energy Sciences U.S. Department of Energy SC-24/Germantown Building 1000 Independence Ave., SW Washington, DC 20585 P: (301) 903-4941 F: (301) 903-8584 E: Email Us More Information »

  2. DOE JGI Quality Metrics; Approaches to Scaling and Improving Metagenome Assembly (Metagenomics Informatics Challenges Workshop: 10K Genomes at a Time)

    ScienceCinema (OSTI)

    Copeland, Alex [DOE JGI]; Brown, C Titus [Michigan State University

    2013-01-22

    DOE JGI's Alex Copeland on "DOE JGI Quality Metrics" and Michigan State University's C. Titus Brown on "Approaches to Scaling and Improving Metagenome Assembly" at the Metagenomics Informatics Challenges Workshop held at the DOE JGI on October 12-13, 2011.

  3. A Taste of Algal Genomes from the Joint Genome Institute

    SciTech Connect (OSTI)

    Kuo, Alan; Grigoriev, Igor

    2012-06-17

    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, photosynthesis, and eukaryotic evolution, and are candidate sources for bio-fuels; all of these research areas are part of the mission of DOE's Joint Genome Institute (JGI). To date JGI has sequenced, assembled, annotated, and released to the public the genomes of 18 species and strains of algae, sampling almost all of the major clades of photosynthetic eukaryotes. With more algal genomes currently undergoing analysis, JGI continues its commitment to driving forward basic and applied algal science. Among these ongoing projects are the pan-genome of the dominant coccolithophore Emiliania huxleyi, the interrelationships between the 4 genomes in the nucleomorph-containing Bigelowiella natans and Guillardia theta, and the search for symbiosis genes of lichens.

  4. 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.

  5. Fusion Energy Sciences (FES) Homepage | U.S. DOE Office of Science (SC)

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

    Programs » FES Home Fusion Energy Sciences (FES) FES Home About Research Facilities Science Highlights Benefits of FES Funding Opportunities Fusion Energy Sciences Advisory Committee (FESAC) Community Resources Contact Information Fusion Energy Sciences U.S. Department of Energy SC-24/Germantown Building 1000 Independence Ave., SW Washington, DC 20585 P: (301) 903-4941 F: (301) 903-8584 E: Email Us More Information » Modeled trajectories of energetic particles as they interact with

  6. 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

  7. 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

  8. Genomics on the Half Shell: So, What do Oysters Have to do with Energy? (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Hedgecock, Dennis

    2011-04-26

    Dennis Hedgecock from the University of Southern California answers the question, "Genomics on the Half Shell: So, What Do Oysters Have to Do with Energy?" on March 24, 2010 at the 5th Annual DOE JGI User Meeting

  9. Wood-Producing Sunflower? Mining Genetic Diversity in Desert-Dwelling Wild Species (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Knapp, Steve

    2011-04-26

    Steve Knapp from Monsanto on "Wood-Producing Sunflower? Mining Genetic Diversity in Desert-Dwelling Wild Species" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  10. 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.

  11. 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.

  12. 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

  13. Three Non-Technical Challenges in the Development of Biomass-based Energy (2010 JGI User Meeting)

    ScienceCinema (OSTI)

    Savage, Steve

    2011-04-25

    Steve Savage from Cirrus Partners on "Three Non-Technical Challenges in the Development of Biomass-based Energy" on March 25, 2010 at the 5th Annual DOE JGI User Meeting

  14. Visualizing Distributed Data with BigWig and BigBed at UCSC (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Kent, Jim [UCSC

    2011-06-08

    Jim Kent from University of California, Santa Cruz presents on "Visualizing Distributed Data with BigWig and BigBed at UCSC" at the JGI/Argonne HPC Workshop on January 26, 2010.

  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. 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.

  17. 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.

  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. Low-dimensional hyperthin FeS2 nanostructures for efficient and stable hydrogen evolution electrocatalysis

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

    Jasion, Daniel; Qiao, Qiao; Barforoush, Joseph M.; Zhu, Yimei; Ren, Shenqiang; Leonard, Kevin C.

    2015-10-05

    We report a scalable, solution-processing method for synthesizing low-dimensional hyperthin FeS2 nanostructures, and we show that 2D FeS2 disc nanostructures are an efficient and stable hydrogen evolution electrocatalyst. By changing the Fe:S ratio in the precursor solution, we were able to preferentially synthesize either 1D wire or 2D disc nanostructures. The 2D FeS2 disc structure has the highest electrocatalytic activity for the hydrogen evolution reaction, comparable to platinum in neutral pH conditions. Moreover, the ability of the FeS2 nanostructures to generate hydrogen was confirmed by scanning electrochemical microscopy, and the 2D disc nanostructures were able to generate hydrogen for overmore » 125 h.« less

  20. The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4)

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

    Huntemann, Marcel; Ivanova, Natalia N.; Mavromatis, Konstantinos; Tripp, H. James; Paez-Espino, David; Palaniappan, Krishnaveni; Szeto, Ernest; Pillay, Manoj; Chen, I-Min A.; Pati, Amrita; et al

    2015-10-26

    The DOE-JGI Microbial Genome Annotation Pipeline performs structural and functional annotation of microbial genomes that are further included into the Integrated Microbial Genome comparative analysis system. MGAP is applied to assembled nucleotide sequence datasets that are provided via the IMG submission site. Dataset submission for annotation first requires project and associated metadata description in GOLD. The MGAP sequence data processing consists of feature prediction including identification of protein-coding genes, non-coding RNAs and regulatory RNA features, as well as CRISPR elements. In conclusion, structural annotation is followed by assignment of protein product names and functions.

  1. 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.

  2. 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.

  3. 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.

  4. 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.

  5. 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,

  6. New Challenges of the Computation of Multiple Sequence Alignments in the High-Throughput Era (2010 JGI/ANL HPC Workshop)

    ScienceCinema (OSTI)

    Notredame, Cedric [Centre for Genomic Regulation

    2011-06-08

    Cedric Notredame from the Centre for Genomic Regulation gives a presentation on "New Challenges of the Computation of Multiple Sequence Alignments in the High-Throughput Era" at the JGI/Argonne HPC Workshop on January 26, 2010.

  7. 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.

  8. 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.

  9. 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.

  10. High-pressure viscosity of liquid Fe and FeS revisited by falling...

    Office of Scientific and Technical Information (OSTI)

    High-pressure viscosity of liquid Fe and FeS revisited by falling sphere viscometry using ultrafast X-ray imaging Citation Details In-Document Search This content will become ...

  11. Significantly Shorter Fe-S Bond in Cytochrome P450-I is Consistent...

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

    analyzed at Beam Line 7-3 at SSRL. Extended x-ray absorption fine structure (EXAFS) studies on multiple sets of samples revealed that the Fe-S bond in P450-I was in fact 0.09 ...

  12. FES User Facilities | U.S. DOE Office of Science (SC)

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

    FES User Facilities User Facilities User Facilities Home User Facilities at a Glance All User Facilities ASCR User Facilities BES User Facilities BER User Facilities FES User Facilities HEP User Facilities NP User Facilities User Resources User Statistics Policies and Processes Frequently Asked Questions User Facility Science Highlights User Facility News Contact Information Office of Science U.S. Department of Energy 1000 Independence Ave., SW Washington, DC 20585 P: (202) 586-5430 User

  13. FES Committees of Visitors | U.S. DOE Office of Science (SC)

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

    FES Committees of Visitors Deputy Director for Science Programs Deputy Director Home Mission & Functions Deputy Director Biography Organization Staff Presentations & Testimony Federal Advisory Committees Committees of Visitors ASCR Committees of Visitors BES Committees of Visitors BER Committees of Visitors FES Committees of Visitors HEP Committees of Visitors NP Committees of Visitors WDTS Committees of Visitors Contact Information Deputy Director for Science Programs U.S. Department of

  14. FES NERSC Program Review Mandrekas Mar 20 2013 Final.pptx

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

    FES Mission The mission of the Fusion Energy Sciences (FES) program is to expand the fundamental understanding of matter at very high temperatures and densities and to build the scientific foundations needed to develop a fusion energy source. This is accomplished by studying plasmas under a wide range of temperature and density conditions, developing advanced diagnostics to make detailed measurements of plasma properties, and creating theoretical and computational models to resolve the essential

  15. Assembly and Evolution of Complex Fe-S Clusters as Revealed by X-ray

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

    Crystallography Assembly and Evolution of Complex Fe-S Clusters as Revealed by X-ray Crystallography Complex Fe-S cluster-containing enzymes are ubiquitous in nature where they are involved in a number of fundamental reactions for life including carbon dioxide fixation, nitrogen fixation, and hydrogen metabolism. One of the more complex and unusual biological clusters is found in the [FeFe]-hydrogenase. The active-site H-cluster in these enzymes has a [4Fe-4S] subcluster bridged via a

  16. 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

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

    ScienceCinema (OSTI)

    Glass, N Louise [UC Berkeley

    2013-01-25

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

  18. 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

  19. 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.

  20. 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.

  1. Drosophila Frataxin: An Iron Chaperone During Cellular Fe-S Cluster Bioassembly

    SciTech Connect (OSTI)

    Kondapalli, K.C.; Kok, N.M.; Dancis, A.; Stemmler, T.L.

    2009-05-20

    Frataxin, a mitochondrial protein that is directly involved in regulating cellular iron homeostasis, has been suggested to serve as an iron chaperone during cellular Fe-S cluster biosynthesis. In humans, decreased amounts or impaired function of frataxin causes the autosomal recessive neurodegenerative disorder Friedreich's ataxia. Cellular production of Fe-S clusters is accomplished by the Fe cofactor assembly platform enzymes Isu (eukaryotes) and IscU (prokaryotes). In this report, we have characterized the overall stability and iron binding properties of the Drosophila frataxin homologue (Dfh). Dfh is highly folded with secondary structural elements consistent with the structurally characterized frataxin orthologs. While the melting temperature (T{sub M} {approx} 59 C) and chemical stability ([urea]{sub 50} {approx} 2.4 M) of Drosophila frataxin, measured using circular dichroism (CD) and fluorescence spectroscopy, closely match values determined for the human ortholog, pure Dfh is more stable against autodegradation than both the human and yeast proteins. The ferrous iron binding affinity (K{sub d} {approx} 6.0 {micro}M) and optimal metal to protein stoichiometry (1:1) for Dfh have been measured using isothermal titration calorimetry (ITC). Under anaerobic conditions with salt present, holo-Dfh is a stable iron-loaded protein monomer. Frataxin prevents reactive oxygen species-induced oxidative damage to DNA when presented with both Fe(II) and H{sub 2}O{sub 2}. Ferrous iron bound to Dfh is high-spin and held in a partially symmetric Fe-(O/N){sub 6} coordination environment, as determined by X-ray absorption spectroscopy (XAS). Extended X-ray absorption fine structure (EXAFS) simulations indicate the average Fe-O/N bond length in Dfh is 2.13 {angstrom}, consistent with a ligand geometry constructed by water and carboxylate oxygens most likely supplied in part by surface-exposed conserved acidic residues located on helix 1 and strand 1 in the structurally

  2. Significantly Shorter Fe-S Bond in Cytochrome P450-I is Consistent with

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

    Greater Reactivity Relative to Chloroperoxidase | Stanford Synchrotron Radiation Lightsource Significantly Shorter Fe-S Bond in Cytochrome P450-I is Consistent with Greater Reactivity Relative to Chloroperoxidase Monday, August 31, 2015 C-H bond activation is often considered the "holy grail" of inorganic chemists, as the ability to specifically activate C-H bonds would be one of the most used transformations in all of chemistry. Cytochrome P450s (P450s) are thiolate ligated heme

  3. 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.

  4. The Role of FeS in Initial Activation and Performance Degradation of Na-NiCl2 Batteries

    SciTech Connect (OSTI)

    Li, Guosheng; Lu, Xiaochuan; Kim, Jin Yong; Engelhard, Mark H.; Lemmon, John P.; Sprenkle, Vincent L.

    2014-12-25

    The role of iron sulfide (FeS) in initial cell activation and degradation in the Na-NiCl2 battery was investigated in this work. The research focused on identifying the effects of the FeS level on the electrochemical performance and morphological changes in the cathode. The x-ray photoelectron spectroscopy study along with battery tests revealed that FeS plays a critical role in initial battery activation by removing passivation layers on Ni particles. It was also found that the optimum level of FeS in the cathode resulted in minimum Ni particle growth and improved battery cycling performance. The results of electrochemical characterization indicated that sulfur species generated in situ during initial charging, such as polysulfide and sulfur, are responsible for removing the passivation layer. Consequently, the cells containing elemental sulfur in the cathode exhibited similar electrochemical behavior during initial charging compared to that of the cells containing FeS.

  5. In-field {sup 57}Fe Mössbauer spectroscopy below spin-flop transition in powdered troilite (FeS) mineral

    SciTech Connect (OSTI)

    Cuda, Jan Tucek, Jiri; Filip, Jan; Malina, Ondrej; Krizek, Michal; Zboril, Radek

    2014-10-27

    Powdered troilite (FeS), extracted from the Cape York IIIA octahedrite meteorite, was investigated employing in-field {sup 57}Fe Mössbauer spectroscopy. The study identified a typical behavior of polycrystalline antiferromagnetic material under external magnetic fields. The in-field evolution of the {sup 57}Fe Mössbauer spectra showed that the spin-flop transition in the FeS system occurs at a field higher than 5 T.

  6. FES Science Network Requirements - Report of the Fusion Energy Sciences Network Requirements Workshop Conducted March 13 and 14, 2008

    SciTech Connect (OSTI)

    Tierney, Brian; Dart, Eli; Tierney, Brian

    2008-07-10

    The Energy Sciences Network (ESnet) is the primary provider of network connectivity for the U.S. Department of Energy Office of Science, the single largest supporter of basic research in the physical sciences in the United States of America. In support of the Office of Science programs, ESnet regularly updates and refreshes its understanding of the networking requirements of the instruments, facilities, scientists, and science programs that it serves. This focus has helped ESnet to be a highly successful enabler of scientific discovery for over 20 years. In March 2008, ESnet and the Fusion Energy Sciences (FES) Program Office of the DOE Office of Science organized a workshop to characterize the networking requirements of the science programs funded by the FES Program Office. Most sites that conduct data-intensive activities (the Tokamaks at GA and MIT, the supercomputer centers at NERSC and ORNL) show a need for on the order of 10 Gbps of network bandwidth for FES-related work within 5 years. PPPL reported a need for 8 times that (80 Gbps) in that time frame. Estimates for the 5-10 year time period are up to 160 Mbps for large simulations. Bandwidth requirements for ITER range from 10 to 80 Gbps. In terms of science process and collaboration structure, it is clear that the proposed Fusion Simulation Project (FSP) has the potential to significantly impact the data movement patterns and therefore the network requirements for U.S. fusion science. As the FSP is defined over the next two years, these changes will become clearer. Also, there is a clear and present unmet need for better network connectivity between U.S. FES sites and two Asian fusion experiments--the EAST Tokamak in China and the KSTAR Tokamak in South Korea. In addition to achieving its goal of collecting and characterizing the network requirements of the science endeavors funded by the FES Program Office, the workshop emphasized that there is a need for research into better ways of conducting remote

  7. Magnetic ordering in tetragonal FeS: Evidence for strong itinerant spin fluctuations

    SciTech Connect (OSTI)

    Kwon, K.D.; Refson, K.; Bone, S.; Qiao, R.; Yang, W.; Liu, Z.; Sposito, G.

    2010-11-01

    Mackinawite is a naturally occurring layer-type FeS mineral important in biogeochemical cycles and, more recently, in the development of microbial fuel cells. Conflicting results have been published as to the magnetic properties of this mineral, with Moessbauer spectroscopy indicating no magnetic ordering down to 4.2 K but density functional theory (DFT) predicting an antiferromagnetic ground state, similar to the Fe-based high-temperature superconductors with which it is isostructural and for which it is known that magnetism is suppressed by strong itinerant spin fluctuations. We investigated this latter possibility for mackinawite using photoemission spectroscopy, near-edge x-ray absorption fine structure spectroscopy, and DFT computations. Our Fe 3{sub s} core-level photoemission spectrum of mackinawite showed a clear exchange-energy splitting (2.9 eV) consistent with a 1 {micro}{sub B} magnetic moment on the Fe ions, while the Fe L-edge x-ray absorption spectrum indicated rather delocalized Fe 3{sub d} electrons in mackinawite similar to those in Fe metal. Our DFT computations demonstrated that the ground state of mackinawite is single-stripe antiferromagnetic, with an Fe magnetic moment (2.7 {micro}{sub B}) that is significantly larger than the experimental estimate and has a strong dependence on the S height and lattice parameters. All of these trends signal the existence of strong itinerant spin fluctuations. If spin fluctuations prove to be mediators of electron pairing, we conjecture that mackinawite may be one of the simplest Fe-based superconductors.

  8. 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.

  9. 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,

  10. 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)

  11. 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.

  12. 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...

  13. In situ measurement of interfacial tension of Fe-S and Fe-P liquids under high pressure using X-ray radiography and tomography techniques

    SciTech Connect (OSTI)

    Terasakia, H; Urakawa, S; Funakoshi, K; Nishiyama, N; Wang, Y; Nishida, K; Sakamaki, T; Suzuki, A; Ohtani, E

    2009-09-14

    Interfacial tension is one of the most important properties of the liquid iron alloy that controls the core formation process in the early history of the Earth and planets. In this study, we made high-pressure X-ray radiography and micro-tomography measurements to determine the interfacial tension between liquid iron alloys and silicate melt using the sessile drop method. The measured interfacial tension of liquid Fe-S decreased significantly (802-112 mN/m) with increasing sulphur content (0-40 at%) at 1.5 GPa. In contrast, the phosphorus content of Fe had an almost negligible effect on the interfacial tension of liquid iron. These tendencies in the effects of light elements are consistent with those measured at ambient pressure. Our results suggest that the effect of sulphur content on the interfacial tension of liquid Fe-S (690 mN/m reduction with the addition of 40 at% S) is large compared with the effect of temperature (~273 mN/m reduction with an increase of 200 K). The three-dimensional structure of liquid Fe-S was obtained at ~2 GPa and 1373-1873 K with a high-pressure tomography technique. The Fe-S droplet was quite homogeneous when evaluated in a slice of the three-dimensional image.

  14. Engineering Institute

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

    Education Opportunities » Engineering Institute Engineering Institute Engineering dynamics that include flight, vibration isolation for precision manufacturing, earthquake engineering, blast loading, signal processing, and experimental model analysis. Contact Leader, Los Alamos Charles Farrar Email Leader, UCSD Michael Todd Email Los Alamos Program Administrator Jutta Kayser (505) 663-5649 Email Administrative Assistant Stacy Baker (505) 663-5233 Email Collaboration for conducting

  15. 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.

  16. 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.

  17. Engineering Institute

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

    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 ...

  18. 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

  19. 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

  20. FY2014 FES (Fusion Energy Sciences) Theory & Simulation Performance Target, Final Report

    SciTech Connect (OSTI)

    Fu, Guoyong; Budny, Robert; Gorelenkov, Nikolai; Poli, Francesca; Chen, Yang; McClenaghan, Joseph; Lin, Zhihong; Spong, Don; Bass, Eric; Waltz, Ron

    2014-10-14

    We report here the work done for the FY14 OFES Theory Performance Target as given below: "Understanding alpha particle confinement in ITER, the world's first burning plasma experiment, is a key priority for the fusion program. In FY 2014, determine linear instability trends and thresholds of energetic particle-driven shear Alfven eigenmodes in ITER for a range of parameters and profiles using a set of complementary simulation models (gyrokinetic, hybrid, and gyrofluid). Carry out initial nonlinear simulations to assess the effects of the unstable modes on energetic particle transport". In the past year (FY14), a systematic study of the alpha-driven Alfven modes in ITER has been carried out jointly by researchers from six institutions involving seven codes including the transport simulation code TRANSP (r. Budny and F. Poli, PPPL), three gyrokinetic codes: GEM (Y. Chen, Univ. of Colorado), GTC (J. McClenaghan, Z. Lin, UCI), and GYRO (E. Bass, R. Waltz, UCSD/GA), the hybrid code M3D-K (G.Y. Fu, PPPL), the gyro-fluid code TAEFL (D. Spong, ORNL), and the linear kinetic stability code NOVA-K (N. Gorelenkov, PPPL). A range of ITER parameters and profiles are specified by TRANSP simulation of a hybrid scenario case and a steady state scenario case. Based on the specified ITER equilibria linear stability calculations are done to determine the stability boundary of alpha-driven high-n TAEs using the five initial value codes (GEM, GTC, GYRO, M3D-K, and TAEFL) and the kinetic stability code (NOVA-K). Both the effects of alpha particles and beam ions have been considered. Finally the effects of the unstable modes on energetic particle transport have been explored using GEM and M3D-K.

  1. FES Review 2013 Presentations

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

    Integrated Computation and Analysis of Reconnection and Turbulence (CICART) March 19, 2013 | Author(s): Kai Germaschewski, UNH | Download File: KaiGermaschewski.pdf | pdf | 2.1...

  2. FES Requirements Review 2014

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

    Take right off exit ramp 1st right on Goldenrod Lane Baltimore Washington International Airport( BWI) Head northeast 0.6 mi Continue straight onto I-195 W 4.2 mi Take exit 4B for...

  3. FES Case Study Worksheets

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

    David Green Read Jeff Candy Read CS Chang Read Stephane Ethier Read Alex Friedman Read Kai Germaschewski Read Martin Greenwald Read Stephen Jardin Read...

  4. FES Open Funding Opportunities

    Office of Science (SC) Website

    - and is the principal federal funding agency of - the Nation's research programs in high-energy physics, nuclear physics, and fusion energy sciences. en 8BF3F791-EE84-4768-BCDF-E...

  5. FES Science Highlights

    Office of Science (SC) Website

    dielectric-barrier-discharge generated plasma, various chemical compounds including hydrogen peroxides and nitrites arise in the water that have the ability to kill bacteria....

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

    Office of Science (SC) Website

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

  7. JGI Compute User Training Series

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

    List Need Help? Out-of-hours Status and Password help Call operations: 1-800-66-NERSC, ... Learn how to change your password, set your security questions, change your shell, and ...

  8. Nuclear resonance vibrational spectroscopy reveals the FeS cluster composition and active site vibrational properties of an O2-tolerant NAD+-reducing [NiFe] hydrogenase

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

    Lauterbach, Lars; Wang, Hongxin; Horch, Marius; Gee, Leland B.; Yoda, Yoshitaka; Tanaka, Yoshihito; Zebger, Ingo; Lenz, Oliver; Cramer, Stephen P.

    2014-10-30

    Hydrogenases are complex metalloenzymes that catalyze the reversible splitting of molecular hydrogen into protons and electrons essentially without overpotential. The NAD+-reducing soluble hydrogenase (SH) from Ralstonia eutropha is capable of H2 conversion even in the presence of usually toxic dioxygen. The molecular details of the underlying reactions are largely unknown, mainly because of limited knowledge of the structure and function of the various metal cofactors present in the enzyme. Here, all iron-containing cofactors of the SH were investigated by 57Fe specific nuclear resonance vibrational spectroscopy (NRVS). Our data provide experimental evidence for one [2Fe2S] center and four [4Fe4S] clusters, whichmore » is consistent with the amino acid sequence composition. Only the [2Fe2S] cluster and one of the four [4Fe4S] clusters were reduced upon incubation of the SH with NADH. This finding explains the discrepancy between the large number of FeS clusters and the small amount of FeS cluster-related signals as detected by electron paramagnetic resonance spectroscopic analysis of several NAD+-reducing hydrogenases. For the first time, Fe–CO and Fe–CN modes derived from the [NiFe] active site could be distinguished by NRVS through selective 13C labeling of the CO ligand. This strategy also revealed the molecular coordinates that dominate the individual Fe–CO modes. The present approach explores the complex vibrational signature of the Fe–S clusters and the hydrogenase active site, thereby showing that NRVS represents a powerful tool for the elucidation of complex biocatalysts containing multiple cofactors.« less

  9. Nuclear resonance vibrational spectroscopy reveals the FeS cluster composition and active site vibrational properties of an O2-tolerant NAD+-reducing [NiFe] hydrogenase

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

    Lauterbach, Lars; Wang, Hongxin; Horch, Marius; Gee, Leland B.; Yoda, Yoshitaka; Tanaka, Yoshihito; Zebger, Ingo; Lenz, Oliver; Cramer, Stephen P.

    2014-10-30

    Hydrogenases are complex metalloenzymes that catalyze the reversible splitting of molecular hydrogen into protons and electrons essentially without overpotential. The NAD+-reducing soluble hydrogenase (SH) from Ralstonia eutropha is capable of H2 conversion even in the presence of usually toxic dioxygen. The molecular details of the underlying reactions are largely unknown, mainly because of limited knowledge of the structure and function of the various metal cofactors present in the enzyme. Here, all iron-containing cofactors of the SH were investigated by 57Fe specific nuclear resonance vibrational spectroscopy (NRVS). Our data provide experimental evidence for one [2Fe2S] center and four [4Fe4S] clusters, whichmore »is consistent with the amino acid sequence composition. Only the [2Fe2S] cluster and one of the four [4Fe4S] clusters were reduced upon incubation of the SH with NADH. This finding explains the discrepancy between the large number of FeS clusters and the small amount of FeS cluster-related signals as detected by electron paramagnetic resonance spectroscopic analysis of several NAD+-reducing hydrogenases. For the first time, Fe–CO and Fe–CN modes derived from the [NiFe] active site could be distinguished by NRVS through selective 13C labeling of the CO ligand. This strategy also revealed the molecular coordinates that dominate the individual Fe–CO modes. The present approach explores the complex vibrational signature of the Fe–S clusters and the hydrogenase active site, thereby showing that NRVS represents a powerful tool for the elucidation of complex biocatalysts containing multiple cofactors.« less

  10. 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

  11. 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.

  12. The Genome Portal of the Department of Energy Joint Genome Institute

    SciTech Connect (OSTI)

    Nordberg, Henrik; Cantor, Michael; Dushekyo, Serge; Hua, Susan; Poliakov, Alexander; Smirnova, Tatyana; Dubchak, Inna

    2014-03-14

    The JGI Genome Portal (http://genome.jgi.doe.gov) provides unified access to all JGI genomic databases and analytical tools. 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. Genome Portal in the past 2 years was significantly updated, with a specific emphasis on efficient handling of the rapidly growing amount of diverse genomic data accumulated in JGI. A critical aspect of handling big data in genomics is the development of visualization and analysis tools that allow scientists to derive meaning from what are otherwise terrabases of inert sequence. An interactive visualization tool developed in the group allows us to explore contigs resulting from a single metagenome assembly. Implemented with modern web technologies that take advantage of the power of the computer's graphical processing unit (gpu), the tool allows the user to easily navigate over a 100,000 data points in multiple dimensions, among many biologically meaningful parameters of a dataset such as relative abundance, contig length, and G+C content.

  13. 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 2332 Pammel Drive, 134 Wilhelm Hall, Iowa State University, Ames, IA 50011-1025 The Critical Materials Institute focuses on technologies that make better use of

  14. 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 ...

  15. Advanced Studies Institute

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

    Institute » Advanced Studies Institute Science of Signatures Advanced Studies Institute Developing innovative solution strategies for problems that support the forward deployment theme of the Science of Signatures Pillar, and building skills needed for successful research program development. 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

  16. 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,

  17. 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

  18. INSTITUTE COLLOQUIA AND SEMINARS

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

    Hass, The Weizmann Institute, Rehovot, Israel A New Precision Measurement of the 7 Be ... Yigal Ronen, Ben Gurion University Beer-Sheva, Israel Space Travel: Science or Fiction? ...

  19. INSTITUTE COLLOQUIA AND SEMINARS

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

    Raymond Moreh, Physics Department, Ben-Gurion University of the Negev, Beer-Sheva, Israel and Rensselaer Polytechnic Institute, Troy, New York Neutron Scattering of keV ...

  20. Institute for Advanced Studies

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

    working on joint NMC proposals. Participation in the projects must not negatively impact partner institutions. Funding for joint projects should be through partner...

  1. INSTITUTE COLLOQUIA AND SEMINARS

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

    Jeffrey W. Martin, Kellogg Radiation Laboratory, California Institute of Technology, Pasadena, California Ultracold Neutrons April 20 Professor J. W. Watson, Department of Physics, ...

  2. 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...

  3. 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.

  4. 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...

  5. INSTITUTE COLLOQUIA AND SEMINARS

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

    Shanghai Jiao Tong University, Shanghai, China Probing the Nuclear Symmetry Energy with ... Jiansong Wang, Institute of Modern Physics, Lanzhou, China The Status of Hadronic Physics ...

  6. Information Science & Technology Institute

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

    ISTI Information Science & Technology Institute Providing connection to program management for capability needs, as well as IS&T integration and support for mission-critical...

  7. 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 ...

  8. 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 sophisticated detectors and spectrometers that enhance the Institute's capacity for nuclear research. Follow the above links for more detailed information about our facilities.

  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. 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

  11. 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

  12. Financial Institution Lending Programs

    Broader source: Energy.gov [DOE]

    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...

  13. 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.

  14. New England Fuel Institute

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

    and CEO of the New England Fuel Institute Before the U.S. Department of Energy and the Quadrennial Energy Review Task Force Public Hearing on "New England Regional ...

  15. 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...

  16. Great Lakes Energy Institute

    SciTech Connect (OSTI)

    Alexander, J. Iwan

    2012-11-18

    The vision of the Great Lakes Energy Institute is to enable the transition to advanced, sustainable energy generation, storage, distribution and utilization through coordinated research, development, and education. The Institute will place emphasis on translating leading edge research into next generation energy technology. The Institute’s research thrusts focus on coordinated research in decentralized power generation devices (e.g. fuel cells, wind turbines, solar photovoltaic devices), management of electrical power transmission and distribution, energy storage, and energy efficiency.

  17. 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.

  18. 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.

  19. 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

  20. 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.

  1. Joint Facilities User Forum on Data Intensive Computing Lessons Learned

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

    User Forum on Data Intensive Computing Lessons Learned - NERSC/JGI Partnership Kjiersten Fagnan, NERSC User Services/JGI --- 1 --- June 1 7, 2 013 Outline * Overview o f N ERSC/JGI P artnership - DOE J GI b ackground - Team o verview - Compute r esources * CompuBng S trategic P lan - JGI G oals - NERSC G oals * Lessons Learned --- 2 --- DOE Joint Genome Institute 3 DOE JGI, Serving as a genomic user facility in support of the DOE missions: * Walnut Creek, CA facility opened in 1999 * 250

  2. News - Cyclotron Institute

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

    News August 25th, 2016 12:46 AM "Texas A&M Science - Labors of Lab." REU student Kassie Marble featured in TAMU College of Science Video July 23rd, 2016 12:46 AM The 2015-2016 Cyclotron Institute Annual Report, "Progress in Research", is now available. You may view/download the complete document and you may also browse individual articles. July 7th, 2015 1:01 AM The 2014-2015 Cyclotron Institute Annual Report, "Progress in Research", is now available. You may

  3. 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...

  4. 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.

  5. 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...

  6. 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.

  7. Commitment Institutional Change Principle

    Office of Energy Efficiency and Renewable Energy (EERE)

    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.

  8. 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.

  9. 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.

  10. 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...

  11. TITLE AUTHORS SUBJECT SUBJECT RELATED DESCRIPTION PUBLISHER AVAILABILI...

    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 in...

  12. 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...

  13. Overview:

    Office of Scientific and Technical Information (OSTI)

    Laboratory (BNL), the DOE Joint Genome Institute (JGI), and the Stanford Synchrotron Radiation Light source (SSRL) to: (i) confirm that phosphatase activities of subsurface ...

  14. Assembling Complex Plant Genomes | U.S. DOE Office of Science...

    Office of Science (SC) Website

    Scientists from the Department of Energy's (DOE) Joint Genome Institute (JGI) teamed with other researchers to develop and test the POPSEQ approach on the barley genome. The plant ...

  15. Nuclear Energy Institute

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

    (NEI) Summit Presentation University-Industry- Laboratory Partnerships: Gauging Effectiveness Douglas Kothe, CASL Director Oak Ridge National Laboratory February 26, 2014 CASL-U-2014-0355-000 CASL-U-2014-0355-000 University-Industry-Laboratory Partnerships Gauging Effectiveness CASL: The Consortium for Advanced Simulation of Light Water Reactors A DOE Energy Innovation Hub Douglas B. Kothe Oak Ridge National Laboratory Director, CASL 9 th Nuclear Energy R&D Summit Nuclear Energy Institute

  16. 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: 2016 / 2015 / 2014 / 2013 / 2012 / 2011 / 2010 / 2009 / 2008 / 2007 / 2006 / 2005 / 2004 / 2003 / 2002 / 2001 / 2000 / 1999 Download complete documents: 2016 / 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 /

  17. 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

  18. 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

  19. 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

  20. 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 Luedecke Building / Building #434 Campus Map Google Map Phone Number 979-845-1411 Fax Number 979-845-1899 Directory Graduate Faculty Full Directory For Information about Graduate Studies Contact: Professor Che Ming Ko Email: ko@comp.tamu.edu For Potential Use of Our Facility Contact: Professor Sherry J. Yennello

  1. 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

  2. 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

  3. 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,

  4. 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

  5. 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...

  6. 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...

  7. 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

  8. 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.

  9. 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)

  10. Cyclotron Institute REU Program

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

    "Texas A&M Science - Labors of Lab." REU student Kassie Marble featured in TAMU College of Science Video The Texas A&M Cyclotron Institute, with support from the National Science Foundation, serves as a Research Experiences for Undergraduates site during the summer of each year. Alysssa Dibidad in the K150 control room. This REU site focuses on research in nuclear and particle science. Students will have the opportunity to work closely with internationally renowned scientists