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At least 1,657 records · Page 92

Exact reconstruction of gene regulatory networks using compressive sensing

We consider the problem of reconstructing a gene regulatory network structure from limited time series gene expression data, without any a priori knowledge of connectivity. We assume that the network is sparse, meaning the connectivity among genes is much less than full connectivity. We develop a method for network reconstruction based on compressive sensing, which takes advantage of the network’s sparseness. For the case in which all genes are accessible for measurement, and there is no measurement noise, we show that our method can be used to exactly reconstruct the network. For the more general problem, in which hidden genes exist and all measurements are contaminated by noise, we show that our method leads to reliable reconstruction. In both cases, coherence of the model is used to assess the ability to reconstruct the network and to design new experiments. We demonstrate that it is possible to use the coherence distribution to guide biological experiment design effectively. By collecting a more informative dataset, the proposed method helps reduce the cost of experiments. For each problem, a set of numerical examples is presented. The method provides a guarantee on how well the inferred graph structure represents the underlying system, reveals deficiencies in the data and model, and suggests experimental directions to remedy the deficiencies.

59 BASIC BIOLOGICAL SCIENCES↗

Applying compressive sensing to TEM video: A substantial frame rate increase on any camera

One of the main limitations of imaging at high spatial and temporal resolution during in-situ transmission electron microscopy (TEM) experiments is the frame rate of the camera being used to image the dynamic process. While the recent development of direct detectors has provided the hardware to achieve frame rates approaching 0.1 ms, the cameras are expensive and must replace existing detectors. In this paper, we examine the use of coded aperture compressive sensing (CS) methods to increase the frame rate of any camera with simple, low-cost hardware modifications. The coded aperture approach allows multiple sub-frames to be coded and integrated into a single camera frame during the acquisition process, and then extracted upon readout using statistical CS inversion. Here we describe the background of CS and statistical methods in depth and simulate the frame rates and efficiencies for in-situ TEM experiments. Depending on the resolution and signal/noise of the image, it should be possible to increase the speed of any camera by more than an order of magnitude using this approach.

36 MATERIALS SCIENCE↗

LTE-P-1 GDL Compressibility

Ex-situ measurement of the compressibility of Gas Diffusion Layer (GDL) materials for use as electrode materials in applications such as fuel cells, electrolyzers, and batteries.

08 HYDROGEN↗

The compression pathway of quartz

The structure of quartz over the temperature domain (298 K, 1078 K) and pressure domain (0 GPa, 20.25 GPa) is compared to the following three hypothetical quartz crystals: (1) Ideal {alpha}-quartz with perfectly regular tetrahedra and the same volume and Si-O-Si angle as its observed equivalent (ideal {beta}-quartz has Si-O-Si angle fixed at 155.6{sup o}). (2) Model {alpha}-quartz with the same Si-O-Si angle and cell parameters as its observed equivalent, derived from ideal by altering the axial ratio. (3) BCC quartz with a perfectly body-centered cubic arrangement of oxygen anions and the same volume as its observed equivalent. Comparison of experimental data recorded in the literature for quartz with these hypothetical crystal structures shows that quartz becomes more ideal as temperature increases, more BCC as pressure increases, and that model quartz is a very good representation of observed quartz under all conditions. This is consistent with the hypothesis that quartz compresses through Si-O-Si angle-bending, which is resisted by anion-anion repulsion resulting in increasing distortion of the c/a axial ratio from ideal as temperature decreases and/or pressure increases.

58 GEOSCIENCES↗

Investigation of finite-volume methods to capture shocks and turbulence spectra in compressible flows

The aim of the present paper is to provide a comparison between several finite-volume methods of different numerical accuracy: the second-order Godunov method with PPM interpolation and the high-order finite-volume WENO method. In this work, the results show that while on a smooth problem the high-order method performs better than the second-order one, when the solution contains a shock all the methods collapse to first-order accuracy. In the context of the decay of compressible homogeneous isotropic turbulence with shocklets, the actual overall order of accuracy of the methods reduces to second-order, despite the use of fifth-order reconstruction schemes at cell interfaces. Most important, results in terms of turbulent spectra are similar regardless of the numerical methods employed, except that the PPM method fails to provide an accurate representation in the high-frequency range of the spectra. It is found that this specific issue comes from the slope-limiting procedure and a novel hybrid PPM/WENO method is developed that has the ability to capture the turbulent spectra with the accuracy of a high-order method, but at the cost of the second-order Godunov method. Overall, it is shown that virtually the same physical solution can be obtained much faster by refining a simulation with the second-order method and carefully chosen numerical procedures, rather than running a coarse high-order simulation. Our results demonstrate the importance of evaluating the accuracy of a numerical method in terms of its actual spectral dissipation and dispersion properties on mixed smooth/shock cases, rather than by the theoretical formal order of convergence rate.

97 MATHEMATICS AND COMPUTING↗

Lessons from Iowa: Development of a 270 Megawatt Compressed Air Energy Storage Project in Midwest Independent System Operator

The Iowa Stored Energy Park was an innovative, 270 Megawatt, $400 million compressed air energy storage (CAES) project proposed for in-service near Des Moines, Iowa, in 2015. After eight years in development the project was terminated because of site geological limitations. However, much was learned in the development process regarding what it takes to do a utility-scale, bulk energy storage facility and coordinate it with regional renewable wind energy resources in an Independent System Operator (ISO) marketplace. Lessons include the costs and long-term economics of a CAES facility compared to conventional natural gas-fired generation alternatives; market, legislative, and contract issues related to enabling energy storage in an ISO market; the importance of due diligence in project management; and community relations and marketing for siting of large energy projects. Although many of the lessons relate to CAES applications in particular, most of the lessons learned are independent of site location or geology, or even the particular energy storage technology involved.

25 ENERGY STORAGE↗

Gravity Gradiometry: A Novel Application for Compressed Sensing

During the past decade, compressed sensing (CS) has proven to be extremely useful for sparse signal reconstruction. Here the method of CS is applied to fast mass distribution determination based on cold atom gravity gradiometer measurements. Specifically we consider an array of M gradiometers placed around a 2D target area in order to determine the interior mass distribution in cases where the set of (M) sensor measurements under samples the distribution. This was done by assuming that the system’s sparsity comes from the mass distributions only having K non-zero masses, which led to a non-orthogonal basis dictionary. This lack of orthogonality caused interesting behaviors, including weakened noise performance, and breaking of the typical CS motivated logarithmic scaling of required M values for larger K values. However, for low K values M scaled as expected. Modifications to the gravity sensor model to promote orthogonality and test its impact on signal recovery postponed the onset of anomalous scaling; suggesting that lack of orthogonality is the primary cause. While CS works for this sparse, but intrinsically ill-posed problem, this sensor system displayed increased noise sensitivity and a smaller upper bound on the size of recoverable K sets. However, while these limitations decrease CS performance, significant improvements over traditional sensing approaches are still possible.

74 ATOMIC AND MOLECULAR PHYSICS↗

Costs Associated With Compressed Natural Gas Vehicle Fueling Infrastructure

This document is designed to help fleets understand the cost factors associated with fueling infrastructure for compressed natural gas (CNG) vehicles. It provides estimated cost ranges for various sizes and types of CNG fueling stations and an overview of factors that contribute to the total cost of an installed station. The information presented is based on input from professionals in the natural gas industry who design, sell equipment for, and/or own and operate CNG stations.

03 NATURAL GAS↗

Elastic-Waveform Inversion with Compressive Sensing for Sparse Seismic Data

Accurate velocity models of compressional- and shear-waves are essential for geothermal reservoir characterization and microseismic imaging. Elastic-waveform inversion of multi-component seismic data can provide high-resolution inversion results of subsurface geophysical properties. However, the method requires seismic data acquired using dense source and receiver arrays. In practice, seismic sources and/or geophones are often sparsely distributed on the surface and/or in a borehole, such as 3D vertical seismic profiling (VSP) surveys. We develop a novel elastic-waveform inversion method with compressive sensing for inversion of sparse seismic data. We employ an alternating-minimization algorithm to solve the optimization problem of our new waveform inversion method. We validate our new method using synthetic VSP data for a geophysical model built using geologic features found at the Raft River enhanced-geothermal-system (EGS) field. We apply our method to synthetic VSP data with a sparse source array and compare the results with those obtained with a dense source array. Our numerical results demonstrate that the velocity models produced with our new method using a sparse source array are almost as accurate as those obtained using a dense source array.

58 GEOSCIENCES↗

Building a Business Case for Compressed Natural Gas in Fleet Applications

Natural gas is a clean-burning, abundant, and domestically produced source of energy. Compressed natural gas (CNG) has recently garnered interest as a transportation fuel because of these attributes and because of its cost savings and price stability compared to conventional petroleum fuels. The National Renewable Energy Laboratory (NREL) developed the Vehicle Infrastructure and Cash-Flow Evaluation (VICE) model to help businesses and fleets evaluate the financial soundness of CNG vehicle and CNG fueling infrastructure projects.

03 NATURAL GAS↗

Symmetries of the Euler compressible flow equations for general equation of state

The Euler compressible flow equations exhibit different Lie symmetries depending on the equation of state (EOS) of the medium in which the flow occurs. This means that, in general, different types of similarity solution will be available in different flow media. We present a comprehensive classification of all EOS’s to which the Euler equations apply, based on the Lie symmetries admitted by the corresponding flow equations, restricting to the case of 1-D planar, cylindrical, or spherical geometry. The results are conveniently summarized in tables. This analysis also clarifies past work by Axford and Ovsiannikov on symmetry classification.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Uniaxial Compression of Cellular Materials at a 10 -1 s -1 Strain Rate Simultaneously with Synchrotron X-ray Computed Tomographic Imaging

The topic is presented as a series of slides. Motivation for the work included the following: X-ray tomography is a fantastic technique for characterizing a material’s starting structure as well as for non-destructive, in situ experiments to investigate material response; 3D X-ray tomography is needed to fully characterize the morphology of cellular materials; and synchrotron micro-CT can capture 3D images without pausing experiment. Among the conclusions reached are these: High-rate radiographic and tomographic imaging (0.25 s 3D frame rate) using synchrotron CT can capture full 3D images of hyper-elastic materials at a 10 -2 strain rate; dynamic true in situ uniaxial loading can be accurately captured; the three stages of compression can be imaged: bending, buckling, and breaking; implementation of linear modeling is completed; meshes have been imported into LANL modeling codes--testing and validation is underway and direct comparison and validation between in situ data and modeled mechanical response is possible.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Predictions for the drive capabilities of the RancheroS Flux Compression Generator into various load inductances using the Eulerian AMR Code Roxane

The Ranchero Magnetic Flux Compression Generator (FCG) has been used to create current pulses in the 10-­100 MA range for driving both “static” low inductance (0.5 nH) loads1 for generator demonstration purposes and high inductance (10-­20 nH) imploding liner loads2 for ultimate use in physics experiments at very high energy density. Simulations of the standard Ranchero generator have recently shown that it had a design issue that could lead to flux trapping in the generator, and a non-­ robust predictability in its use in high energy density experiments. A re-­examination of the design concept for the standard Ranchero generator, prompted by the possible appearance of an aneurism at the output glide plane, has led to a new generation of Ranchero generators designated the RancheroS (for swooped). This generator has removed the problematic output glide plane and replaced it with a region of constantly increasing diameter in the output end of the FCG cavity in which the armature is driven outward under the influence of an additional HE load not present in the original Ranchero. The resultant RancheroS generator, to be tested in LA43S-­L13, probably in early FY17, has a significantly increased initial inductance and may be able to drive a somewhat higher load inductance than the standard Ranchero. This report will use the Eulerian AMR code Roxane to study the ability of the new design to drive static loads, with a goal of providing a database corresponding to the load inductances for which the generator might be used and the anticipated peak currents such loads might produce in physics experiments. Such a database, combined with a simple analytic model of an ideal generator, where d(LI)/dt = 0, and supplemented by earlier estimates of losses in actual use of the standard Ranchero, scaled to estimate the increase in losses due to the longer current carrying perimeter in the RancheroS, can then be used to bound the expectations for the current drive one may apply to any load assembly in future experiments.

42 ENGINEERING↗

The search for a 100MA RancheroS magnetic flux compression generator

The Eulerian AMR rad-hydro-MHD code Roxane was used to investigate modifications to existing designs of the new RancheroS class of Magnetic Flux Compression Generators (FCGs) which might allow some members of this FCG family to exceed 100 MA driving a 10 nH static load. This report details the results of that study and proposes a specific generator modification which seems to satisfy both the peak current and desired risetime for the current pulse into the load. The details of the study and necessary modifications are presented. For details of the LA43S RancheroS FCG design and predictions for the first use of the generator refer to the relevant publications.

42 ENGINEERING↗

Well-to-Wheels Analysis of Compressed Natural Gas and Ethanol from Municipal Solid Waste

The amount of municipal solid waste (MSW) generated in the United States was estimated at 254 million wet tons in 2013, and around half of that generated waste was landfilled. There is a huge potential in recovering energy from that waste, since around 60% of landfilled material is biomass-derived waste that has high energy content. In addition, diverting waste for fuel production avoids huge fugitive emissions from landfills, especially uncontrolled CH 4 emissions, which are the third largest anthropogenic CH 4 source in the United States. Lifecycle analysis (LCA) is typically used to evaluate the environmental impact of alternative fuel production pathways. LCA of transportation fuels is called well-to-wheels (WTW) and covers all stages of the fuel production pathways, from feedstock recovery (well) to vehicle operation (wheels). In this study, the Greenhouse Gases, Regulated Emissions, and Energy Use in Transportation (GREET ® ) model developed by Argonne National Laboratory is used to evaluate WTW greenhouse gas (GHG) emissions and fossil fuel consumption of waste-derived fuels. Two waste-to-energy (WTE) pathways have been evaluated – one for compressed natural gas (CNG) production using food waste via anaerobic digestion, and the other for ethanol production from yard trimmings via fermentation processes. Because the fuel production pathways displace current waste management practices (i.e., landfilling waste), we use a marginal approach that considers only the differences in emissions between the counterfactual case and the alternative fuel production case.

03 NATURAL GAS↗

Compressed Natural Gas Vehicle Maintenance Facility Modification Handbook

To ensure the safety of personnel and facilities, vehicle maintenance facilities are required by law and by guidelines of the National Fire Protection Association (NFPA) and the International Fire Code (IFC) to exhibit certain design features. They are also required to be fitted with certain fire protection equipment and devices because of the potential for fire or explosion in the event of fuel leakage or spills. All fuels have an explosion or fire potential if specific conditions are present. The hazard presented by liquid fuels, such as gasoline and diesel, results from the spillage of these liquids and subsequent ignition of vapors, causing a fire or explosion. Facilities that maintain liquid-fueled vehicles and implement appropriate safety measures are protected with ventilation systems designed to capture liquid fuel vapors at or near floor level. To minimize the potential for ignition in the event of a spill, receptacles, electrical fixtures, and hot-work operations, such as welding, are located outside of these areas. Compressed natural gas (CNG) is composed of methane with slight amounts of heavier simple hydrocarbons. Maintenance facilities that maintain CNG vehicles indoors must be protected against fire and explosion. However, the means of ensuring safety are different from those employed for liquid fuels because of the gaseous nature of methane and the fact that it is lighter than air. Because CNG is lighter than air, a release will rise to the ceiling of the maintenance facility and quickly dissipate rather than remaining at or near floor level like liquid fuel vapors. Although some of the means of protection for CNG vehicle maintenance facilities are similar to those used for liquid-fueled vehicles (ventilation and elimination of ignition sources), the types and placement of the protection equipment are different because of the behavior of the different fuels. The nature of gaseous methane may also require additional safeguards, such as combustible gas detectors and control systems, or specialized space heating, which are not needed in facilities servicing liquid-fuel vehicles. This handbook covers maintenance facilities that service CNG-fueled vehicles. Although similar requirements are mandated for liquefied natural gas (LNG) or liquefied petroleum gas (LPG) fueled vehicles, LNG and LPG are not covered in this handbook.

30 DIRECT ENERGY CONVERSION↗

Toxicology and Biodegradability of Blendstocks for Mixing Controlled Compression Ignition Combustion: Literature Review of Available Data

The goal of the U.S. Department of Energy’s Co-Optima project is to develop an understanding of potential biomass-derived blendstocks for use in the transportation sector. This report documents the estimated environmental and toxicological impact of potential bioblendstocks for mixing controlled compression ignition (MCCI) engines. The candidate molecules were: 2-nonanol; n-undecane; 2,6,10-trimethyldodecane; 5-ethyl-4-propylnonane; hexylhexanoate; methyldecanoate; dibutoxymethane; 4-butoxyheptane; dipentylether; renewable diesel; and soy biodiesel. To provide a robust comparison, diesel surrogate molecules were also considered: α-methylnaphthalene; decahydronaphthalene; 2,2,4,4,6,8,8-heptamethylnonane; n-butylcyclohexane; n-hexadecane; tetralin; and n-dodecylbenzene. The intent of this work was not to provide absolute answers and remove any molecules from consideration, but to provide more robust data for each molecule that can be used in subsequent evaluations. Little literature data was available for many of the molecules, both potential blendstocks and diesel surrogates, so a quantitative structural activity relationship (QSAR) approach was used to provide input into the relevant models. This assessment included an evaluation of compartment partitioning in the event of an accidental chemical spill, fate and transport indicators, estimated biodegradability, and human and environmental toxicology. The higher molecular weight and longer hydrocarbon chain lengths of these MCCI molecules reduce water solubility and mobility. Generally, the oxygenated molecules improved biodegradability metrics. The hydrocarbons farnesane and 5-Et-4-PrNonane are not predicted to be biodegradable. Human acute toxicity was found to be slightly to non-toxic for the MCCI blendstocks and the diesel surrogates. 2-Nonanol, undecane, MeDecanoate, dibutoxymethane, and dipentylether were likely developmental toxicants. Although poorly water soluble, all the compounds, whether Co-Optima blendstocks or diesel surrogates, showed significant toxicity to D. magna. The oxygenated blendstocks were less likely to bioaccumulate than the non-oxygenated blendstocks, which behaved similar to the diesel surrogates. Overall, this predicted analysis showed that the MCCI blendstocks are very similar to their diesel counterparts. No significant showstoppers were found that would indicate concern moving forward with additional research into these potential fuels. The results presented were based solely on predictive models and serve to provide information going forward for continued evaluation of these molecules.

09 BIOMASS FUELS↗