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At least 1,045 records · Page 58

Synthesis, structural characterization and antitumor activity of a Ca(II) coordination polymer based on 4-formyl-1,3-benzenedisulfonate-2-furoic acid hydrazide ligands

A new Ca(II) coordination polymer, ([CaL(H{sub 2}O){sub 4}] · (H{sub 2}O){sub 4}){sub n} (L = 4-formyl-1,3-benzenedisulfonate-2-furoic acid hydrazide) has been prepared by one-pot synthesis method. And it was characterized by elemental analysis, IR and thermal analysis. The result of X-ray single-crystal diffraction analysis shows that the Ca(II) complex molecules form one-dimensional chain structure by the bridging oxygen atoms. The anti-tumor activity of L ligand and the Ca(II) coordination polymer has also been studied.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

A three-dimensional coordination polymer based on 1,2,3-triazole-4,5-dicarboxylic acid (H{sub 3}tda): ([Cd{sub 12}(tda){sub 8}(H{sub 2}O){sub 11}] · (H{sub 2}O)6.25){sub n}

The title coordination polymer ([Cd{sub 12}(tda){sub 8}(H{sub 2}O){sub 11}] · (H{sub 2}O){sub 6.25}){sub n} (H{sub 3}tda = 1,2,3-triazole-4,5-dicarboxylic acid), has been hydrothermally synthesized and structurally characterized by single-crystal X-ray diffraction. Complex crystallizes in orthorhombic sp. gr. Pmn2{sub 1} with Z = 4. The Cd{sub 2} unit doublebridged by one carboxylate oxygen atom and two neighboring nitrogen atoms from the tda{sup 3–} ligands are linked by the tda{sup 3–}ligands to lead to the 2D (4,4) network in the ac plane. The almost coplanar Cd{sub 2}(μ{sub 5}-tda){sub 2} unit comprised of two Cd ions double-bridged by two tda{sup 3–} ligands through the neighboring nitrogen atoms is connected with the other four Cd{sub 2}(μ{sub 5}-tda){sub 2} units form the undulating 2D network in the ac plane. The (4,4) networks and undulating 2D networks are alternatively connected along the b axis by the tda{sup 3–} ligands coordinating to the Cd ions to form the 3D framework.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

A Two-Dimensional Coordination Polymer Based on 1,1':4',1''-Terphenyl-2',4,4'',5'-tetracarboxylate

The coordination polymer, [MnL{sub 0.5}(H{sub 2}O)(phen)]{sub n} (H{sub 4}L = 1,1':4',1''-terphenyl-2',4,4'',5'-tetracarboxylic acid, phen = 1,10-phenanthroline), has been solvothermal synthesized and structurally characterized by single-crystal X-ray diffraction. Complex crystallizes in triclinic sp. gr.P1̄ with Z = 2. Two carboxylate oxygen atoms in the central phenyl rings from two μu{sub 6{sup −}}L{sup 4–} ligands doubly-bridge two Mn(II) ions to form the dinuclear Mn{sub 2}(O{sub COO{sup −}}){sub 2} unit. Each dinuclear Mn{sub 2}(O{sub COO{sup −}}){sub 2} unit links four L{sup 4–} ligands and each L{sup 4–}ligand bridges four dinuclear Mn{sub 2}(O{sub COO{sup −}}){sub 2} units to generate a 2D coordination network, which can be rationalized as a binodal (4,4) topological network by considering the dinuclear Mn{sub 2}(O{sub COO{sup −}}){sub 2} units and L{sup 4–} ligands as 4-connected nodes.

36 MATERIALS SCIENCE↗

Coordinated Platoon Routing in a Metropolitan Network

Platooning vehicles—connected and automated vehicles traveling with small intervehicle distances—use less fuel because of reduced aerodynamic drag. Given a network de- fined by vertex and edge sets and a set of vehicles with origin/destination nodes/times, we model and solve the combinatorial optimization problem of coordinated routing of vehicles in a manner that routes them to their destination on time while using the least amount of fuel. Common approaches decompose the platoon coordination and vehicle routing into separate problems. Our model addresses both problems simultaneously to obtain the best solution. We use modern modeling techniques and constraints implied from analyzing the platoon routing problem to address larger numbers of vehicles and larger networks than previously considered. While the numerical method used is unable to certify optimality for candidate solutions to all networks and parameters considered, we obtain excellent solutions in approximately one minute for much larger networks and vehicle sets than previously considered in the literature.

Larson, Jeffrey↗

Avoiding Communication in Primal and Dual Block Coordinate Descent Methods

Primal and dual block coordinate descent methods are iterative methods for solving regularized and unregularized optimization problems. Distributed-memory parallel implementations of these methods have become popular in analyzing large machine learning datasets. However, existing implementations communicate at every iteration, which, on modern data center and supercomputing architectures, often dominates the cost of floating-point computation. Recent results on communication-avoiding Krylov subspace methods suggest that large speedups are possible by re-organizing iterative algorithms to avoid communication. We show how applying similar algorithmic transformations can lead to primal and dual block coordinate descent methods that only communicate every $s$ iterations---where $s$ is a tuning parameter---instead of every iteration for the regularized least-squares problem. We show that the communication-avoiding variants reduce the number of synchronizations by a factor of $s$ on distributed-memory parallel machines without altering the convergence rate and attain strong scaling speedups of up to $6.1\times$ over the “standard algorithm" on a Cray XC30 supercomputer.

97 MATHEMATICS AND COMPUTING↗

Gaussian null coordinates, near-horizon geometry and conserved charges on the horizon of extremal nondilatonic black p-branes

In this paper, we examine the emergence of conserved charges on the horizon of a particular class of extremal nondilatonic black [Formula: see text]-branes (which reduce to extremal dilatonic black holes in [Formula: see text] dimensions upon toroidal compactification) in the presence of a probe massless scalar field in the bulk. This result is achieved by writing the black [Formula: see text]-brane geometry in a Gaussian null coordinate system which allows us to get a nonsingular near-horizon geometry description. We find that the near-horizon geometry is [Formula: see text] and that the [Formula: see text] section has an internal structure which can be seen as a warped product of [Formula: see text] in Gaussian null coordinates. We show that the bulk scalar field satisfying the field equations is expanded in terms of nonnormalizable and normalizable modes, which for certain suitable quantization conditions are well-behaved at the boundary of [Formula: see text] space. Furthermore, we show that picking the normalizable modes results in the existence of conserved quantities on the horizon. We discuss the impact of these conserved quantities in the late-time regime.

Astronomy & Astrophysics↗

Acoustic Codes in 2D Spherical Coordinate

Finite-difference methods are widely used to simulate infrasound propagation in the atmosphere. Flexibility of finite-difference scheme allows implementation of highly heterogeneous media for sound propagation as well as complex source models for sound generation. While full 3-D finite-difference methods have been utilized for local infrasound propagation with pronounced topography, 2-D modeling approach has been preferred for regional and global propagation as full 3-D methods generally require enormous computational resources. Infrasound propagation is often simulated with a second-order finite difference scheme. This lowest-order finite-difference scheme is robust and straightforward to implement complex boundary conditions, but the solution includes large error with numerical dispersion and dissipation. This large numerical error may make the second-order finite-difference not optimal for long range infrasound propagation modeling as the numerical dispersion degrades the accuracy of the solution unacceptably. Here, we developed a high-order finite-difference solver for long-range infrasound simulation. The high-order scheme is particularly popular for linear wave modeling in aeroacoustics owing to its low-dispersive and low-dissipative behavior. We develop and evaluate a high-order finite difference scheme in 2-D axisymmetric coordinates. The axisymmetry allows to approximate 3-D spherical sound propagation and amplitude attenuation by a 2-D method. AC2Dr is developed to simulate infrasound propagation in realistic atmosphere, but can be used for linear acoustic waves in general materials with background flow. AC2Dr in an axisymmetric coordinates allows for spherical radiation of acoustic waves from compact sources.

Sjogreen, Bjorn↗

The Earth System Prediction Suite: Toward a Coordinated U.S. Modeling Capability

The Earth System Prediction Suite (ESPS) is a collection of flagship U.S. weather and climate models and model components that are being instrumented to conform to interoperability conventions, documented to follow metadata standards, and made available either under open-source terms or to credentialed users. Furthermore, the ESPS represents a culmination of efforts to create a common Earth system model architecture, and the advent of increasingly coordinated model development activities in the United States. ESPS component interfaces are based on the Earth System Modeling Framework (ESMF), community-developed software for building and coupling models, and the National Unified Operational Prediction Capability (NUOPC) Layer, a set of ESMF-based component templates and interoperability conventions. Our shared infrastructure simplifies the process of model coupling by guaranteeing that components conform to a set of technical and semantic behaviors. The ESPS encourages distributed, multiagency development of coupled modeling systems; controlled experimentation and testing; and exploration of novel model configurations, such as those motivated by research involving managed and interactive ensembles. ESPS codes include the Navy Global Environmental Model (NAVGEM), the Hybrid Coordinate Ocean Model (HYCOM), and the Coupled Ocean–Atmosphere Mesoscale Prediction System (COAMPS); the NOAA Environmental Modeling System (NEMS) and the Modular Ocean Model (MOM); the Community Earth System Model (CESM); and the NASA ModelE climate model and the Goddard Earth Observing System Model, version 5 (GEOS-5), atmospheric general circulation model.

54 ENVIRONMENTAL SCIENCES↗

An affinity-structure database of helix-turn-helix: DNA complexes with a universal coordinate system

Molecular interactions between proteins and DNA molecules underlie many cellular processes, including transcriptional regulation, chromosome replication, and nucleosome positioning. Computational analyses of protein-DNA interactions rely on experimental data characterizing known protein-DNA interactions structurally and biochemically. While many databases exist that contain either structural or biochemical data, few integrate these two data sources in a unified fashion. Such integration is becoming increasingly critical with the rapid growth of structural and biochemical data, and the emergence of algorithms that rely on the synthesis of multiple data types to derive computational models of molecular interactions. We have developed an integrated affinity-structure database in which the experimental and quantitative DNA binding affinities of helix-turn-helix proteins are mapped onto the crystal structures of the corresponding protein-DNA complexes. This database provides access to: (i) protein-DNA structures, (ii) quantitative summaries of protein-DNA binding affinities using position weight matrices, and (iii) raw experimental data of protein-DNA binding instances. Critically, this database establishes a correspondence between experimental structural data and quantitative binding affinity data at the single basepair level. Furthermore, we present a novel alignment algorithm that structurally aligns the protein-DNA complexes in the database and creates a unified residue-level coordinate system for comparing the physico-chemical environments at the interface between complexes. Using this unified coordinate system, we compute the statistics of atomic interactions at the protein-DNA interface of helix-turn-helix proteins. We provide an interactive website for visualization, querying, and analyzing this database, and a downloadable version to facilitate programmatic analysis. Lastly, this database will facilitate the analysis of protein-DNA interactions and the development of programmatic computational methods that capitalize on integration of structural and biochemical datasets. The database can be accessed at http://ProteinDNA.hms.harvard.edu.

59 BASIC BIOLOGICAL SCIENCES↗

Brg1 coordinates multiple processes during retinogenesis and is a tumor suppressor in retinoblastoma

Retinal development requires precise temporal and spatial coordination of cell cycle exit, cell fate specification, cell migration and differentiation. When this process is disrupted, retinoblastoma, a developmental tumor of the retina, can form. Epigenetic modulators are central to precisely coordinating developmental events, and many epigenetic processes have been implicated in cancer. Studying epigenetic mechanisms in development is challenging because they often regulate multiple cellular processes; therefore, elucidating the primary molecular mechanisms involved can be difficult. Here we explore the role of Brg1 (Smarca4) in retinal development and retinoblastoma in mice using molecular and cellular approaches. Brg1 was found to regulate retinal size by controlling cell cycle length, cell cycle exit and cell survival during development. Brg1 was not required for cell fate specification but was required for photoreceptor differentiation and cell adhesion/polarity programs that contribute to proper retinal lamination during development. The combination of defective cell differentiation and lamination led to retinal degeneration in Brg1-deficient retinae. Despite the hypocellularity, premature cell cycle exit, increased cell death and extended cell cycle length, retinal progenitor cells persisted in Brg1-deficient retinae, making them more susceptible to retinoblastoma. In conclusion, ChIP-Seq analysis suggests that Brg1 might regulate gene expression through multiple mechanisms.

59 BASIC BIOLOGICAL SCIENCES↗

Utah FORGE: Updated Phase 2C Well Location Coordinates

Utah FORGE has been established to develop, test, and improve the technologies and techniques required to develop EGS-type geothermal resources. Drilling of the first of two deep deviated wells, 16A(78)-32, will begin in the second half of 2020. This well will serve as the injection well for the injection-production well pair that will form the heart of the laboratory. This submission contains an archive of well location data within the Roosevelt Hot Springs geothermal area. An Excel spreadsheet is included containing updated GPS data for Utah FORGE wells drilled during Phase 2C (56-32, 68-32, 78-32). This data was collected over time by the Utah Geological Survey and contains all coordinates collected and the final averaged XY coordinates in both Longitude and Latitude and UTM Zone 12, NAD83. Elevation is also included. GIS shapefiles with well points are provided in the archive.

15 GEOTHERMAL ENERGY↗

A first principles study of energetics and electronic structural responses of uranium-based coordination polymers to Np incorporation

Abstract Recently developed coordination polymers (CPs) and metal organic frameworks (MOFs) may find applications in areas such as catalysis, hydrogen storage, and heavy metal immobilization. Research on the potential application of actinide-based CPs (An-CP/MOFs) is not as advanced as transition metal-based MOFs. In order to modify their structures necessary for optimizing thermodynamic and electronic properties, here, we described how a specific topology of a particular actinide-based CP or MOF responds to the incorporation of other actinides considering their diverse coordination chemistry associated with the multiple valence states and charge-balancing mechanisms. In this study, we apply a recently developed DFT-based method to determine the relative stability of transuranium incorporated CPs in comparison to their uranium counterpart considering both solid and aqueous state sources and sinks to understand the mechanism and energetics of charge-balanced Np 5+ incorporation into three uranium-based CPs. The calculated Np 5+ +H + incorporation energies for these CPs range from 0.33 to 0.52 eV, depending on the organic linker, when using the solid oxide Np source Np 2 O 5 and U sink UO 3 . Incorporation energies of these CPs using aqueous sources and sinks increase to 2.85–3.14 eV. The thermodynamic and structural analysis in this study aides in determining, why certain MOF topologies and ligands are selective for some actinides and not for others. This means that once this method is extended across a variety of CPs with their respective linker molecules and different actinides, it can be used to identify certain CPs with certain organic ligands being specific for certain actinides. This information can be used to construct CPs for actinide separation. This is the first determination of the electronic structure (band structure, density of states) of these uranium- and transuranium-based CPs which may eventually lead to design CPs with certain optical or catalytic properties. While the reduction of the DFT-determined-bandgap goes from 3.1 eV to 2.4 eV when going from CP1 to CP3, showing the influence of the linker, Np 6+ incorporation reduces the bandgap for CP1 and CP3, while increasing it for CP2. The coupled substitution of U 6+ →Np 5+ +H + reduces the bandgap significantly, but only for CP3.

Chemistry↗

Synthesis and structural characterization of a series of uranyl-betaine coordination complexes

Abstract Trimethylglycine and betainium class ionic liquids were employed in synthesizing six uranyl-betaine coordination complexes: [(μ 2 -(CH 3 )N 2 C 3 H 3 (CH 2 COO)) 2 (UO 2 (Cl)((CH 3 )N 2 C 3 H 3 (CH 2 COO))) 2 ] 2[N(SO 2 CF 3 ) 2 ] ( 1 ), [K][UO 2 (Cl) 3 ((CH 3 ) 3 NCH 2 COO)] ( 2 ), [(CH 3 ) 3 NCH 2 COOH][UO 2 (Cl) 3 ((CH 3 ) 3 NCH 2 COO)]·H 2 O ( 3 ), [LiUO 2 (μ 2 -(CH 3 ) 3 NCH 2 COO) 4 ] 3[N(SO 2 CF 3 ) 2 ] ( 4 ) {(μ 2 -(CH 3 ) 3 NCH 2 COO)UO 2 (NO 3 ) 2 ((CH 3 ) 3 NCH 2 COO)} 2 UO 2 (NO 3 ) 2 , UO 2 (NO 3 ) 2 (H 2 O) 2 ·H 2 O ( 5 ), and UO 2 (Cl) 2 (H 2 O)(μ 2 -(CH 3 ) 3 NCH 2 COO) ( 6 ). These complexes expound upon the variability of mono carboxyl-functionalized uranyl coordination complexes, providing an enhanced framework for investigations into the structural chemistry of analogous actinyl systems.

Crystallography↗

Incorporation of the HYbrid Coordinate Ocean Model (HYCOM) into the Community Climate System Model (CCSM): Evaluation and Climate Applications (Final Report for DOE Grant DE-FG02-07ER64470)

The primary goal of the project entitled “Incorporation of the HYbrid Coordinate Ocean Model (HYCOM) into the Community Climate System Model (CCSM): Evaluation and Climate Applications” was to systematically investigate the performance of the HYbrid Coordinate Ocean Model (HYCOM) as an alternative oceanic component of the NCAR’s Community Climate System Model (CCSM). We have configured two versions of the fully coupled CCSM3/HYCOM: one with a medium resolution (T42) Community Atmospheric Model (CAM) and the other with higher resolution (T85). We have performed a comprehensive analysis of the 400-year fully coupled CCSM3/HYCOM simulations and compared the results with those from CCSM3/POP and with climatological observations, and also we have performed tuning of critical model parameters, including Smagorinsky viscosity, isopycnal diffusivity, and background vertical diffusivity. The analysis shows that most oceanic features are well represented in the CCSM3/HYCOM. The coupled CCSM3/HYCOM (T42) has been integrated for 400 years, and the results have been archived and transferred to the High Performance Computer in the Florida State Univesity. In the last year, we have made comprehensive diagnostics of the long-term simulations by the comparison with the original CCSM3/POP simulation and with the observations. To gain some understanding of the model biases, the mean climate and modes of climate variability of the two models are compared with observations. The examination includes the Northern and Southern Annular Modes (NAM and SAM), the Pacific-North-American (PNA) pattern, the Atlantic Multidecadal Oscillation (AMO), and the main Southern Ocean SST mode. We also compared the performance of ENSO simulation in the coupled models. This report summarizes the main findings from the comparison of long-term CCSM3/HYCOM and CCSM3/POP simulations.

54 ENVIRONMENTAL SCIENCES↗

Hot Coordinate Measuring Machine Technical Specifications and Requirements (U)

The goal of this document is to outline the technical specifications and requirements for a new Hot Coordinate Measuring Machine at TA-55. This document should be used in conjunction with the information provided from TA-55 Hot CMM Location Study and TA-55 Hot CMM Technology Assessment. All three documents will guide the user to the optimal coordinate measuring machine selection.

42 ENGINEERING↗

Hot Coordinate Measuring Machine Technology Assessment (U)

The goal of this report is to document a technology assessment performed following the guidance created by LA-UR-13-22870, “Hot Coordinate Measuring Machine Technical Specifications and Requirements (U)”. The intent was to capture specific values for technical specifications and requirements listed by the guide and assign a weight factors based on TA-55 importance. After the information was obtained, an optimal coordinate measuring machine for TA-55 was revealed – Hexagon’s Leitz Reference Xi 15.9.7. An internal look at on-site technology revealed that the current Hot CMM (Xcel 765) has the worst performance specification or accuracy statement of all CMMs currently at LANL. A look at Quindos license file options revealed that while most machines appear to have a standard set of options, some machines appear to be missing options and may contain unneeded ones. Controller firmware versions also appear to not be standardized at this time.

42 ENGINEERING↗

Award ER25750: Coordinated Infrastructure for Fault Tolerance Systems Indiana University Final Report

The main purpose of the Coordinated Infrastructure for Fault Tolerance in Systems initiative has been to conduct research with a goal of providing end-to-end fault tolerance on a systemwide basis for applications and other system software. While fault tolerance has been an integral part of most high-performance computing (HPC) system software developed over the past decade, it has been treated mostly as a collection of isolated stovepipes. Visibility and response to faults has typically been limited to the particular hardware and software subsystems in which they are initially observed. Little fault information is shared across subsystems, allowing little flexibility or control on a system-wide basis, making it practically impossible to provide cohesive end-to-end fault tolerance in support of scientific applications. As an example, consider faults such as communication link failures that can be seen by a network library but are not directly visible to the job scheduler, or consider faults related to node failures that can be detected by system monitoring software but are not inherently visible to the resource manager. If information about such faults could be shared by the network libraries or monitoring software, then other system software, such as a resource manager or job scheduler, could ensure that failed nodes or failed network links were excluded from further job allocations and that further diagnosis could be performed. As a founding member and one of the lead developers of the Open MPI project, our efforts over the course of this project have been focused on making Open MPI more robust to failures by supporting various fault tolerance techniques, and using fault information exchange and coordination between MPI and the HPC system software stack from the application, numeric libraries, and programming language runtime to other common system components such as jobs schedulers, resource managers, and monitoring tools.

97 MATHEMATICS AND COMPUTING↗

Transactive Control and Coordination of Distributed Assets for Ancillary Services

The need to diversify energy supplies, the need to mitigate energy-related environmental impact, and the entry of electric vehicles in large numbers present challenges and opportunities to power system professionals. Wind and solar power provide many benefits, and to reap the benefits the resulting increased variability—forecasted as well as unforecasted—should be addressed. A majority of states and the District of Columbia, representing over half of the total load, have passed renewable portfolio standards. California’s plans call for 33% renewable energy by 2020. For grid balancing and for meeting reliability standards, ancillary services are needed. The needs for these services are poised to increase significantly. Demand resources are receiving increasing attention as one means of providing the ancillary services. Control and coordination of a large number (~millions) of distributed smart grid assets requires innovative approaches. One such approach is transactive control and coordination (TC2)—a distributed, hierarchical, agent-based incentive and control system. The TC2 paradigm is to create a market-like control system in which participation is voluntary and the participant sets the price for participation. For transactions that are frequent, automation of bids and responses is necessary. Such an approach has been developed and demonstrated at the Pacific Northwest National Laboratory. The devices, typically thermostatically controlled heating, ventilating, and air conditioning (HVAC) loads, send their bids—the quantity of energy they need and, based on the consumer preferences encoded in a simple user interface, the price they are willing to pay. The typical bid period is 5 minutes. By aggregating all the bids, a demand curve is generated by the aggregating entity, and matched with a supply curve or supply constraint. The aggregator transmits the clearing price to the devices. The winning devices proceed to consume the energy they bid for and won. It is the purpose of this project to develop a similar approach for ancillary services. In this report, the following ancillary services are considered: spinning reserve, ramping, and regulation. These services are to be provided by the following devices: refrigerators, water heaters, clothes dryers, variable speed drives. We will assume that the variable speed drives operate an air handling fan in a commercial building.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗