To gain insight into how genomic information is translated into cellular and developmental programs, the Drosophila model organism Encyclopedia of DNA Elements (modENCODE) project is comprehensively mapping transcripts, histone modifications, chromosomal proteins, transcription factors, replication proteins and intermediates, and nucleosome properties across a developmental time course and in multiple cell lines. We have generated more than 700 data sets and discovered protein-coding, noncoding, RNA regulatory, replication, and chromatin elements, more than tripling the annotated portion of the Drosophila genome. Correlated activity patterns of these elements reveal a functional regulatory network, which predicts putative new functions for genes, reveals stage- and tissue-specific regulators, and enables gene-expression prediction. Our results provide a foundation for directed experimental and computational studies in Drosophila and related species and also a model for systematic data integration toward comprehensive genomic and functional annotation. Several years after the complete genetic sequencing of many species, it is still unclear how to translate genomic information into a functional map of cellular and developmental programs. The Encyclopedia of DNA Elements (ENCODE) (1) and model organism ENCODE (modENCODE) (2) projects use diverse genomic assays to comprehensively annotate the Homo sapiens (human), Drosophila melanogaster (fruit fly), and Caenorhabditis elegans (worm) genomes, through systematic …

Thermochemical processes are being developed to provide global-scale quantities of hydrogen. A variant on sulfur-based thermochemical cycles is the Hybrid Sulfur (HyS) Process, which uses a sulfur dioxide depolarized electrolyzer (SDE) to produce the hydrogen. In the HyS Process, sulfur dioxide is oxidized in the presence of water at the electrolyzer anode to produce sulfuric acid and protons. The protons are transported through a cation-exchange membrane electrolyte to the cathode and are reduced to form hydrogen. In the second stage of the process, the sulfuric acid by-product from the electrolyzer is thermally decomposed at high temperature to produce sulfur dioxide and oxygen. The two gases are separated and the sulfur dioxide recycled to the electrolyzer for oxidation. The Savannah River National Laboratory (SRNL) has been exploring a fuel-cell design concept for the SDE using an anolyte feed comprised of concentrated sulfuric acid saturated with sulfur dioxide. The advantages of this design concept include high electrochemical efficiency and small footprint compared to a parallel-plate electrolyzer design. This paper will provide a summary of recent advances in the development of the SDE for the HyS process.

Nanoparticles of (Mn{sub x}Fe{sub 1-x}){sub 3}O{sub 4} with a concentration ranging from x = 0 to 1 and a crystallite size of 14-15 nm were measured using X-ray absorption spectroscopy and X-ray magnetic circular dichroism to determine the ratio of the orbital moment to the spin moment for Mn and Fe. At low Mn concentrations, the Mn substitutes into the host Fe{sub 3}O{sub 4} spinel structure as Mn{sup 2+} in the tetrahedral A-site. The net Fe moment, as identified by the X-ray dichroism intensity, is found to increase at the lowest Mn concentrations then rapidly decrease until no dichroism is observed at 20% Mn. The average Fe orbit/spin moment ratio is determined to initially be negative and small for pure Fe{sub 3}O{sub 4} nanoparticles and quickly go to 0 by 5%-10% Mn addition. The average Mn moment is anti-aligned to the Fe moment with an orbit/spin moment ratio of 0.12 which gradually decreases with Mn concentration.

The current trend in the steel industry is a gradual decline in conventional steelmaking from taconite pellets in blast furnaces, and an increasing number of alternative processes using metallic scrap iron, pig iron and metallized iron ore products. Currently, iron ores from Minnesota and Michigan are pelletized and shipped to the lower Great Lakes ports as blast furnace feed. The existing transportation system and infrastructure is geared to handling these bulk materials. In order to expand the opportunities for the existing iron ore mines beyond their blast furnace customer base, a new material is needed to satisfy the needs of the emerging steel industry while utilizing the existing infrastructure and materials handling. A recent commercial installation employing Kobe Steel’s ITmk3 process, was installed in Northeastern Minnesota. The basic process uses a moving hearth furnace to directly reduce iron oxides to metallic iron from a mixture of iron ore, coals and additives. The resulting products can be shipped using the existing infrastructure for use in various steelmaking processes. The technology reportedly saves energy by 30% over the current integrated steelmaking process and reduces emissions by more than 40%. A similar large-scale pilot plant campaign is also currently in progress using JFE …

A set of computational tools was developed to help estimate and minimize potential radiation exposure to workers from material activation in the National Ignition Facility (NIF). AAMI (Automated ALARA-MCNP Interface) provides an efficient, automated mechanism to perform the series of calculations required to create dose rate maps for the entire facility with minimal manual user input. NEET (NIF Exposure Estimation Tool) is a web application that combines the information computed by AAMI with a given shot schedule to compute and display the dose rate maps as a function of time. AAMI and NEET are currently used as work planning tools to determine stay-out times for workers following a given shot or set of shots, and to help in estimating integrated doses associated with performing various maintenance activities inside the target bay. Dose rate maps of the target bay were generated following a low-yield 10{sup 16} D-T shot and will be presented in this paper.

Broad Funding Opportunity Announcement Project: FloDesign Wind Turbine’s innovative wind turbine, inspired by the design of jet engines, could deliver 300% more power than existing wind turbines of the same rotor diameter by extracting more energy over a larger area. FloDesign Wind Turbine’s unique shrouded design expands the wind capture area, and the mixing vortex downstream allows more energy to flow through the rotor without stalling the turbine. The unique rotor and shrouded design also provide significant opportunity for mass production and simplified assembly, enabling mid-scale turbines (approximately 100 kW) to produce power at a cost that is comparable to larger-scale conventional turbines.

This month's issue has the following articles: (1) World's Most Intense X-Ray Laser Focuses on Livermore Science - Commentary by William H. Goldstein; (2) Groundbreaking Science with the World's Brightest X Rays - Experiments with x rays of unparalleled brightness and extremely short duration aim to reveal new information about atoms and molecules in motion; (3) From Data to Discovery - Ongoing control system enhancements at the National Ignition Facility bolster the understanding of experimental data and keep the system performing at its peak; (4) The Sun in All Its Splendor - Onboard the Solar Dynamics Observatory, Livermore-developed multilayer mirrors are enabling unprecedented full-disk, high-resolution images of the Sun; and (5) Drilling Deep into Plant Veins - A novel combination of imaging techniques is being used to understand the three-dimensional architecture of plant cell walls.

In 2008, NANA Regional Corporation (NRC) assessed geothermal energy potential in the NANA region for both heat and/or electricity production. The Geothermal Assessment Project (GAP) was a systematic process that looked at community resources and the community's capacity and desire to develop these resources. In October 2007, the US Department of Energy's Tribal Energy Program awarded grant DE-FG36-07GO17075 to NRC for the GAP studies. Two moderately remote sites in the NANA region were judged to have the most potential for geothermal development: (1) Granite Mountain, about 40 miles south of Buckland, and (2) the Division Hot Springs area in the Purcell Mountains, about 40 miles south of Shungnak and Kobuk. Data were collected on-site at Granite Mountain Hot Springs in September 2009, and at Division Hot Springs in April 2010. Although both target geothermal areas could be further investigated with a variety of exploration techniques such as a remote sensing study, a soil geochemical study, or ground-based geophysical surveys, it was recommended that on-site or direct heat use development options are more attractive at this time, rather than investigations aimed more at electric power generation.

The new, neutron-deficient, superheavy element isotope {sup 285}114 was produced in {sup 48}Ca irradiations of {sup 242}Pu targets at a center-of-target beam energy of 256 MeV (E* = 50 MeV). The {alpha} decay of {sup 285}114 was followed by the sequential {alpha} decay of four daughter nuclides, {sup 281}Cn, {sup 277}Ds, {sup 273}Hs, and {sup 269}Sg. {sup 265}Rf was observed to decay by spontaneous fission. The measured {alpha}-decay Q values were compared with those from a macroscopic-microscopic nuclear mass model to give insight into superheavy element shell effects. The {sup 242}Pu({sup 48}Ca,5n){sup 285}114 cross section was 0.6{sub -0.5}{sup +0.9} pb.

A novel electromagnetic solver with mesh refinement capability was implemented in Warp. The solver allows for calculations in 2-1/2 and 3 dimensions, includes the standard Yee stencil, and the Cole-Karkkainen stencil for lower numerical dispersion along the principal axes. Warp implementation of the Cole-Karkkainen stencil includes an extension to perfectly matched layers (PML) for absorption of waves, and is preserving the conservation property of charge conserving current deposition schemes, like the Buneman-Villanesor and Esirkepov methods. Warp's mesh refinement framework (originally developed for electrostatic calculations) was augmented to allow for electromagnetic capability, following the methodology presented in [1] extended to an arbitrary number of refinement levels. Other developments include a generalized particle injection method, internal conductors using stair-cased approximation, and subcycling of particle pushing. The solver runs in parallel using MPI message passing, with a choice at runtime of 1D, 2D and 3D domain decomposition, and is shown to scale linearly on a test problem up-to 32,768 CPUs. The novel solver was tested on the modeling of filamentation instability, fast ignition, ion beam induced plasma wake, and laser plasma acceleration.

OpenMP lacks essential features for developing mission-critical software. In particular, it has no support for detecting and handling errors or even a concept of them. In this paper, the OpenMP Error Model Subcommittee reports on solutions under consideration for this major omission. We identify issues with the current OpenMP specification and propose a path to extend OpenMP with error-handling capabilities. We add a construct that cleanly shuts down parallel regions as a first step. We then discuss two orthogonal proposals that extend OpenMP with features to handle system-level and user-defined errors.

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Despite recent advances in named entity extraction technologies, state-of-the-art extraction tools achieve insufficient accuracy rates for practical use in many operational settings. However, they are not generally prone to the same types of error, suggesting that substantial improvements may be achieved via appropriate combinations of existing tools, provided their behavior can be accurately characterized and quantified. In this paper, we present an inference methodology for the aggregation of named entity extraction technologies that is founded upon a black-box analysis of their respective error processes. This method has been shown to produce statistically significant improvements in extraction relative to standard performance metrics and to mitigate the weak performance of entity extractors operating under suboptimal conditions. Moreover, this approach provides a framework for quantifying uncertainty and has demonstrated the ability to reconstruct the truth when majority voting fails.

The influence of the active gain medium on the spectral amplitude and phase of amplified pulses in a CPA system is studied. Results from a 10-PW example based on Nd-doped mixed glasses are presented. In conclusion, this study shows that, by using spectral shaping and gain saturation in a mixed-glass amplifier, it is possible to produce 124 fs, 1.4 kJ laser pulses. One detrimental effect, the pulse distortion due to resonant amplification medium, has been investigated and its magnitude as well as its compensation calculated.

This article describes the implementation of the Building Controls Virtual Test Bed (BCVTB). The BCVTB is a software environment that allows connecting different simulation programs to exchange data during the time integration, and that allows conducting hardware in the loop simulation. The software architecture is a modular design based on Ptolemy II, a software environment for design and analysis of heterogeneous systems. Ptolemy II provides a graphical model building environment, synchronizes the exchanged data and visualizes the system evolution during run-time. The BCVTB provides additions to Ptolemy II that allow the run-time coupling of different simulation programs for data exchange, including EnergyPlus, MATLAB, Simulink and the Modelica modelling and simulation environment Dymola. The additions also allow executing system commands, such as a script that executes a Radiance simulation. In this article, the software architecture is presented and the mathematical model used to implement the co-simulation is discussed. The simulation program interface that the BCVTB provides is explained. The article concludes by presenting applications in which different state of the art simulation programs are linked for run-time data exchange. This link allows the use of the simulation program that is best suited for the particular problem to model building heat transfer, …

A new aluminium complex bearing a dianionic phenylene-diamine based ligand has been synthesized and shown to catalyze the intramolecular hydroamination of various aminoalkenes.

The {delta}{sup 13}C signature of terrestrial carbon fluxes ({delta}{sub bio}) provides an important constraint for inverse models of CO{sub 2} sources and sinks, insight into vegetation physiology, C{sub 3} and C{sub 4} vegetation productivity, and ecosystem carbon residence times. From 2002-2009, we measured atmospheric CO{sub 2} concentration and {delta}{sup 13}C-CO{sub 2} at four heights (2 to 60 m) in the U.S. Southern Great Plains (SGP) and computed {delta}{sub bio} weekly. This region has a fine-scale mix of crops (primarily C{sub 3} winter wheat) and C{sub 4} pasture grasses. {delta}{sub bio} had a large and consistent seasonal cycle of 6-8{per_thousand}. Ensemble monthly mean {delta}{sub bio} ranged from -25.8 {+-} 0.4{per_thousand} ({+-}SE) in March to -20.1 {+-} 0.4{per_thousand} in July. Thus, C{sub 3} vegetation contributed about 80% of ecosystem fluxes in winter-spring and 50% in summer-fall. In contrast, prairie-soil {delta}{sub 13}C values were about -15{per_thousand}, indicating that historically the region was dominated by C{sub 4} vegetation and had more positive {delta}{sub bio} values. Based on a land-surface model, isofluxes ({delta}{sub bio} x NEE) in this region have large seasonal amplitude because {delta}{sub bio} and net ecosystem exchange (NEE) covary. Interannual variability in isoflux was driven by variability in NEE. The large seasonal …

The objective of this DOE SAI project is to demonstrate the feasibility of electrodeposited and solution-doped transparent conducting oxides (TCOs) such as zinc oxide with resistivity in the mid-10{sup -4} {Omega}-cm range. The target application is an 'on-top' TCO which can be deposited on semiconductors in thin-film and future solar cells including amorphous silicon, copper indium gallium selenide and emerging solar cells. There is no solution-prepared on-top TCO currently used in commercial solar cells. This project, if successful, will fill this gap. Our technical objectives include electrodeposited TCOs with (1) resistivity in the mid-10{sup -4} {Omega}-cm range, (2) post-deposition annealing below 300 C and (3) no-vacuum processing or low-vacuum processing. All the three research objectives listed above have been accomplished in the 14-month period from July 1, 2009 through September 30, 2010. The most noticeable accomplishments of this project are (1) identification of a terawatt-scale dopant for zinc oxide, i.e. yttrium, whose known reserve is enough for 60 peak terawatts of thin-film solar cells; (2) demonstration of a record-low resistivity, 6.3 x 10{sup -5} {Omega}-cm, in solution-deposited zinc oxide with an abundant dopant; and (3) the record-low resistivity was accomplished with a maximum process temperature of 300 C and without …

Lincoln Composites operates a facility for designing, testing, and manufacturing composite pressure vessels. Lincoln Composites also has a U.S. Department of Energy (DOE)-funded project to develop composite tanks for high-pressure hydrogen storage. The initial stage of this project involves testing the permeation of high-pressure hydrogen through polymer liners. The company recently moved and is constructing a dedicated research/testing laboratory at their new location. In the meantime, permeation tests are being performed in a corner of a large manufacturing facility. The safety review team visited the Lincoln Composites site on May 25, 2010. The project team presented an overview of the company and project and took the safety review team on a tour of the facility. The safety review team saw the entire process of winding a carbon fiber/resin tank on a liner, installing the boss and valves, and curing and painting the tank. The review team also saw the new laboratory that is being built for the DOE project and the temporary arrangement for the hydrogen permeation tests.

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