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At least 379 records · Page 21

Turbulent Compressible Convection with Rotation: Flow Structure and Evolution - Part 1

The effects of Coriolis forces on compressible convection are studied using three-dimensional numerical simulations carried out within a local modified f-plane model. The physics is simplified by considering a perfect gas occupying a rectilinear domain placed tangentially to a rotating sphere at various latitudes, through which a destabilizing heat flux is driven. The resulting convection is considered for a range of Rayleigh, Taylor, and Prandtl (and thus Rossby) numbers, evaluating conditions where the influence of rotation is both weak and strong. Given the computational demands of these high-resolution simulations, the parameter space is explored sparsely to ascertain the differences between laminar and turbulent rotating convection. The first paper in this series examines the effects of rotation on the flow structure within the convection, its evolution, and some consequences for mixing. Subsequent papers consider the large-scale mean shear flows that are generated by the convection, and the effects of rotation on the convective energetics and transport properties. It is found here that the structure of rotating turbulent convection is similar to earlier nonrotating studies, with a laminar, cellular surface network disguising a fully turbulent interior punctuated by vertically coherent structures. However, the temporal signature of the surface flows is modified by inertial motions to yield new cellular evolution patterns and an overall increase in the mobility of the network. The turbulent convection contains vortex tubes of many scales, including large-scale coherent structures spanning the full vertical extent of the domain involving multiple density scale heights. Remarkably, such structures align with the rotation vector via the influence of Coriolis forces on turbulent motions, in contrast with the zonal tilting of streamlines found in laminar flows. Such novel turbulent mechanisms alter the correlations which drive mean shearing flows and affect the convective transport properties. In contrast to this large-scale anisotropy, small-scale vortex tubes at greater depths are randomly orientated by the rotational mixing of momentum, leading to an increased degree of isotropy on the medium to small scales of motion there. Rotation also influences the thermodynamic mixing properties of the convection. In particular, interaction of the larger coherent vortices causes a loss of correlation between the vertical velocity and the temperature leaving a mean stratification which is not isentropic.

Brummell, Nicholas H.↗

Combining genome-wide association studies and expression quantitative trait nucleotide mapping with molecular and genetic validations to identify transcriptional networks regulating drought tolerance in Populus

Objectives: (i). To deploy a large-scale experimental drought trial for up to 1000 unique genotypes of Populus equipping the sites with controlled irrigation and drought treatments that are fully automated and monitored. FULLY COMPLETED (ii) To test the hypothesis that a suite of traits identified for drought tolerance in P. nigra can be measured in drought and control treatments in the wide germplasm collection of P. trichocarpa. FULLY COMPLETED (iii) To use established and novel GWAS model approaches to identify gene loci linked to drought tolerance traits on interest in P. trichocarpa. FULLY COMPLETED (iv) To undertake comparative analysis of GWAS results for drought tolerance traits in P. nigra and P. trichocarpa. PARTIALLY COMPLETED – remains active (v) Using RNAseq in P. trichocarpa, in droughted and control treatments to identify cis- and trans-regulated eQTN. FULLY COMPLETED (vi) Validate up to 50 cis-QTNs, from network hubs using transient protoplast assays. FULLY COMPLETED (vii) To establish Agrobacterium-based gene editing protocols in Populus. FULLY COMPLETED (viii) To utilize early leads from previous research to investigate at least 6 candidate genes for drought tolerance in Populus. FULLY COMPLETED (ix) To validate up to 20 candidate genes for drought tolerance in P. trichocarpa refined from the long-list tested in the transient assays for cis-acting hub gene targets. PARTIALLY COMPLETED- remains active.

60 APPLIED LIFE SCIENCES↗

Advanced Metering Infrastructure for Distribution Planning and Operation: Closing the Loop on Grid-Edge Visibility

In the recent history of electric utilities, the potential to have visibility of the grid edge is gaining significance for the reliable planning and operation of a clean energy smart grid. Before the recent large-scale customer adoption of distributed energy resources (DERs), distribution networks were planned with a simpler fit-and-forget philosophy. The importance of customer-sited DERs to achieve climate change goals marks a major shift for utility operations. Changes to traditional fit-and-forget planning paradigms require better availability of grid-edge data. Smart metering is an enterprise-wide tool that is enabling visibility when and where it has been most needed. As of 2020, the rollout of smart metering, or advanced metering infrastructure (AMI), had reached more than 100 million meters in the United States, and nearly half of all electricity customers are now equipped with a smart meter (Figure 1). Smart meters are quickly becoming a ubiquitous data capture feature of smart grids. AMI enables utilities to record and measure electricity usage and power-flow metrics at a minimum of hourly intervals and at least once a day. At a minimum, AMI enables interval metering, automatic meter reading enabling accurate and time-interval billing, and the ability to provide feedback on customer energy consumption.

advanced metering infrastructure↗

DLIO: A DATA-CENTRIC BENCHMARK FOR DEEP LEARNING APPLICATIONS

SF-22-136 Deep learning has been shown as a successful method for various tasks, and its popularity results in numerous open-source deep learning software tools. Deep learning has been applied to a broad spectrum of scientific domains such as cosmology, particle physics, computer vision, fusion, and astrophysics. Scientists have performed a great deal of work to optimize the computational performance of deep learning frameworks. However, the same cannot be said for I/O performance. As deep learning algorithms rely on big-data volume and variety to effectively train neural networks accurately, I/O is a significant bottleneck on large-scale distributed deep learning training. DLIO, is a novel representative benchmark suite built based on the I/O profiling of the selected workloads. DLIO can be utilized to accurately emulate the I/O behavior of modern deep learning applications. Using DLIO, application developers and system software solution architects can identify potential I/O bottlenecks in their applications and guide optimizations to boost the I/O performance leading to lower training times. The storage vendor can also use DLIO as a guide for designing and optimize the storage and filesystem targeting at deep learning application.

ZHENG, HUIHUO↗

The Impact of Withholding Observations from TOMS or SBUV Instruments on the GEOS Ozone Data Assimilation System

In a data assimilation system (DAS), model forecast atmospheric fields, observations and their respective statistics are combined in an attempt to produce the best estimate of these fields. Ozone observations from two instruments are assimilated in the Goddard Earth Observing System (GEOS) ozone DAS: the Total Ozone Mapping Spectrometer (TOMS) and the Solar Backscatter Ultraviolet (SBUV) instrument. The assimilated observations are complementary; TOMS provides a global daily coverage of total column ozone, without profile information, while SBUV measures ozone profiles and total column ozone at nadir only. The purpose of this paper is to examine the performance of the ozone assimilation system in the absence of observations from one of the instruments as it can happen in the event of a failure of an instrument or when there are problems with an instrument for a limited time. Our primary concern is for the performance of the GEOS ozone DAS when it is used in the operational mode to provide near real time analyzed ozone fields in support of instruments on the Terra satellite. In addition, we are planning to produce a longer term ozone record by assimilating historical data. We want to quantify the differences in the assimilated ozone fields that are caused by the changes in the TOMS or SBUV observing network. Our primary interest is in long term and large scale features visible in global statistics of analysis fields, such as differences in the zonal mean of assimilated ozone fields or comparisons with independent observations, While some drifts in assimilated fields occur immediately, after assimilating just one day of different observations, the others develop slowly over several months. Thus, we are also interested in the length of time, which is determined from time series, that is needed for significant changes to take place.

Stajner, Ovanka↗

Information Power Grid Posters

This document is a summary of the accomplishments of the Information Power Grid (IPG). Grids are an emerging technology that provide seamless and uniform access to the geographically dispersed, computational, data storage, networking, instruments, and software resources needed for solving large-scale scientific and engineering problems. The goal of the NASA IPG is to use NASA's remotely located computing and data system resources to build distributed systems that can address problems that are too large or complex for a single site. The accomplishments outlined in this poster presentation are: access to distributed data, IPG heterogeneous computing, integration of large-scale computing node into distributed environment, remote access to high data rate instruments,and exploratory grid environment.

Vaziri, Arsi↗

Anomalous snow accumulation over the southeast region of the Greenland ice sheet during 2002-2003 snow season

Our objective is to determine seasonal snow accumulation in the percolation zone of the Greenland ice sheet on the daily-weekly basis over the large scale. Our approach utilizes data from the Greenland Climate Network (GC-Net) and from the SeaWinds Scatterometer on the QuikSCAT satellite (QSCAT) to measure snow accumulation (SA) in the percolation zone of the Greenland ice sheet. GC-Net measurements provide crucial in-situ data to facilitate the interpretation of QSCAT backscatter signature for the development of an algorithm to map SA.

Greenland↗

TriC: Distributed-memory Triangle Counting by Exploiting the Graph Structure

Graph analytics has emerged as an important tool in the analysis of large scale data from diverse application domains such as social networks, cyber security and bioinformatics. Counting the number of triangles in a graph is a fundamental kernel with several applications such as detecting the community structure of a graph or in identifying important vertices in a graph. The ubiquity of massive datasets is driving the need to scale graph analytics on parallel systems. However, numerous challenges exist in efficiently parallelizing graph algorithms, especially on distributed-memory systems. Irregular memory accesses and communication patterns, low computation to communication ratios, and the need for frequent synchronization are some of the leading challenges. In this paper, we present TriC, our distributed-memory implementation of triangle counting in graphs using the Message Passing Interface (MPI), as a submission to the 2020 GraphChallenge competition. Using a set of synthetic and real-world inputs from the challenge, we demonstrate a speedup of up to 90x relative to previous work on 32 processor-cores of a NERSC Cori node. We also provide details from distributed runs with up to8192 processes along with strong scaling results. The observations presented in this work provide an understanding of the system-level bottlenecks at scale that specifically impact sparse-irregular workloads and will therefore benefit other efforts to parallelize graph algorithms.

Halappanavar, Mahantesh↗

Large Scale Deformation of the Western US Cordillera

Destructive earthquakes occur throughout the western US Cordillera (WUSC), not just within the San Andreas fault zone. But because we do not understand the present-day large-scale deformations of the crust throughout the WUSC, our ability to assess the potential for seismic hazards in this region remains severely limited. To address this problem, we are using a large collection of Global Positioning System (GPS) networks which spans the WUSC to precisely quantify present-day large-scale crustal deformations in a single uniform reference frame. Our work can roughly be divided into an analysis of the GPS observations to infer the deformation field across and within the entire plate boundary zone and an investigation of the implications of this deformation field regarding plate boundary dynamics.

Bennett, Richard A.↗

Neural Network Molecular Dynamics at Scale

Neural network molecular dynamics (NNMD) simulations could revolutionize atomistic modeling of materials with quantum-mechanical accuracy at a fraction of computational cost. However, popular NNMD frameworks are generally implemented for a single computing node, and conventional energy-based NN models still suffer from large time-to-solution (T2S), prohibiting the application of NNMD to challenging materials simulations encompassing large spatiotemporal scales. Consequently, no leadership-scale NNMD simulation has thus far been reported. Here, we present a scalable parallel NNMD software (RXMD-NN) based on our scalable reactive molecular dynamics simulation engine named RXMD. RXMD-NN has achieved high scalability up to 786,432 IBM BlueGene/Q cores involving 1.7 billion atoms. Furthermore, we have achieved 4.6-fold reduction of T2S by using a novel network that directly predicts atomic forces from feature vectors. Reduced T2S has for the first time allowed the study of large-scale off-stoichiometry effect in a widely used phase change material, Ge 2 Se 2 Te 5 , thereby resolving its "firstsharp diffraction peak mystery".

fist sharp diffraction peak↗

Engineering regulatory networks for complex phenotypes in E. coli

Regulatory networks describe the hierarchical relationship between transcription factors, associated proteins, and their target genes. Regulatory networks respond to environmental and genetic perturbations by reprogramming cellular metabolism. Here we design, construct, and map a comprehensive regulatory network library containing 110,120 specific mutations in 82 regulators expected to perturb metabolism. We screen the library for different targeted phenotypes, and identify mutants that confer strong resistance to various inhibitors, and/or enhanced production of target compounds. These improvements are identified in a single round of selection, showing that the regulatory network library is universally applicable and is convenient and effective for engineering targeted phenotypes. The facile construction and mapping of the regulatory network library provides a path for developing a more detailed understanding of global regulation in E. coli , with potential for adaptation and use in less-understood organisms, expanding toolkits for future strain engineering, synthetic biology, and broader efforts.

59 BASIC BIOLOGICAL SCIENCES↗

Large Scale Deformation of the Western U.S. Cordillera

Over the past couple of years, with support from NASA, we used a large collection of data from GPS, VLBI, SLR, and DORIS networks which span the Western U.S. Cordillera (WUSC) to precisely quantify present-day large-scale crustal deformations in a single uniform reference frame. Our work was roughly divided into an analysis of these space geodetic observations to infer the deformation field across and within the entire plate boundary zone, and an investigation of the implications of this deformation field regarding plate boundary dynamics. Following the determination of the first generation WUSC velocity solution, we placed high priority on the dissemination of the velocity estimates. With in-kind support from the Smithsonian Astrophysical Observatory, we constructed a web-site which allows anyone to access the data, and to determine their own velocity reference frame.

Bennett, Richard A.↗

Large Scale Deformation of the Western U.S. Cordillera

Over the past couple of years, with support from NASA, we used a large collection of data from GPS, VLBI, SLR, and DORIS networks which span the Westem U.S. Cordillera (WUSC) to precisely quantify present-day large-scale crustal deformations in a single uniform reference frame. Our work was roughly divided into an analysis of these space geodetic observations to infer the deformation field across and within the entire plate boundary zone, and an investigation of the implications of this deformation field regarding plate boundary dynamics. Following the determination of the first generation WUSC velocity solution, we placed high priority on the dissemination of the velocity estimates. With in-kind support from the Smithsonian Astrophysical Observatory, we constructed a web-site which allows anyone to access the data, and to determine their own velocity reference frame.

Bennett, Richard A.↗

Large-scale integration of artificial atoms in hybrid photonic circuits

A central challenge in developing quantum computers and long-range quantum networks is the distribution of entanglement across many individually controllable qubits. Colour centres in diamond have emerged as leading solid-state ‘artificial atom’ qubits because they enable on-demand remote entanglement, coherent control of over ten ancillae qubits with minute-long coherence times and memory-enhanced quantum communication. A critical next step is to integrate large numbers of artificial atoms with photonic architectures to enable large-scale quantum information processing systems. So far, these efforts have been stymied by qubit inhomogeneities, low device yield and complex device requirements. Here we introduce a process for the high-yield heterogeneous integration of ‘quantum microchiplets’—diamond waveguide arrays containing highly coherent colour centres—on a photonic integrated circuit (PIC). We use this process to realize a 128-channel, defect-free array of germanium-vacancy and silicon-vacancy colour centres in an aluminium nitride PIC. Photoluminescence spectroscopy reveals long-term, stable and narrow average optical linewidths of 54 megahertz (146 megahertz) for germanium-vacancy (silicon-vacancy) emitters, close to the lifetime-limited linewidth of 32 megahertz (93 megahertz). We show that inhomogeneities of individual colour centre optical transitions can be compensated in situ by integrated tuning over 50 gigahertz without linewidth degradation. The ability to assemble large numbers of nearly indistinguishable and tunable artificial atoms into phase-stable PICs marks a key step towards multiplexed quantum repeaters and general-purpose quantum processors

36 MATERIALS SCIENCE↗

Deep Cellular Recurrent Network for Efficient Analysis of Time-Series Data With Spatial Information

Efficient processing of large-scale time series data is an intricate problem in machine learning. Conventional sensor signal processing pipelines with hand engineered feature extraction often involve huge computational cost with high dimensional data. Deep recurrent neural networks have shown promise in automated feature learning for improved time-series processing. However, generic deep recurrent models grow in scale and depth with increased complexity of the data. This is particularly challenging in presence of high dimensional data with temporal and spatial characteristics. Consequently, this work proposes a novel deep cellular recurrent neural network (DCRNN) architecture to efficiently process complex multi-dimensional time series data with spatial information. Here, the cellular recurrent architecture in the proposed model allows for location-aware synchronous processing of time series data from spatially distributed sensor signal sources. Extensive trainable parameter sharing due to cellularity in the proposed architecture ensures efficiency in the use of recurrent processing units with high-dimensional inputs. This study also investigates the versatility of the proposed DCRNN model for classification of multi-class time series data from different application domains. Consequently, the proposed DCRNN architecture is evaluated using two time-series datasets: a multichannel scalp EEG dataset for seizure detection, and a machine fault detection dataset obtained in-house. The results suggest that the proposed architecture achieves state-of-the-art performance while utilizing substantially less trainable parameters when compared to comparable methods in the literature.

60 APPLIED LIFE SCIENCES↗

BioADAPT-MRC: adversarial learning-based domain adaptation improves biomedical machine reading comprehension task

ABSTRACT Motivation Biomedical machine reading comprehension (biomedical-MRC) aims to comprehend complex biomedical narratives and assist healthcare professionals in retrieving information from them. The high performance of modern neural network-based MRC systems depends on high-quality, large-scale, human-annotated training datasets. In the biomedical domain, a crucial challenge in creating such datasets is the requirement for domain knowledge, inducing the scarcity of labeled data and the need for transfer learning from the labeled general-purpose (source) domain to the biomedical (target) domain. However, there is a discrepancy in marginal distributions between the general-purpose and biomedical domains due to the variances in topics. Therefore, direct-transferring of learned representations from a model trained on a general-purpose domain to the biomedical domain can hurt the model’s performance. Results We present an adversarial learning-based domain adaptation framework for the biomedical machine reading comprehension task (BioADAPT-MRC), a neural network-based method to address the discrepancies in the marginal distributions between the general and biomedical domain datasets. BioADAPT-MRC relaxes the need for generating pseudo labels for training a well-performing biomedical-MRC model. We extensively evaluate the performance of BioADAPT-MRC by comparing it with the best existing methods on three widely used benchmark biomedical-MRC datasets—BioASQ-7b, BioASQ-8b and BioASQ-9b. Our results suggest that without using any synthetic or human-annotated data from the biomedical domain, BioADAPT-MRC can achieve state-of-the-art performance on these datasets. Availability and implementation BioADAPT-MRC is freely available as an open-source project at https://github.com/mmahbub/BioADAPT-MRC. Supplementary information Supplementary data are available at Bioinformatics online.

60 APPLIED LIFE SCIENCES↗

Engineering large-scale agent-based systems with consensus

The paper presents the consensus method for the development of large-scale agent-based systems. Systems can be developed as networks of knowledge based agents (KBA) which engage in a collaborative problem solving effort. The method provides a comprehensive and integrated approach to the development of this type of system. This includes a systematic analysis of user requirements as well as a structured approach to generating a system design which exhibits the desired functionality. There is a direct correspondence between system requirements and design components. The benefits of this approach are that requirements are traceable into design components and code thus facilitating verification. The use of the consensus method with two major test applications showed it to be successful and also provided valuable insight into problems typically associated with the development of large systems.

Bokma, A.↗

Quantifying Spatial Drought Propagation Potential in North America Using Complex Network Theory

Droughts have a dominant three-dimensional (3-D) spatiotemporal structure typically spanning hundreds of kilometers and often lasting for months to years. Here, we introduced a novel framework to explore the 3-D structure of the evolution of droughts based on network theory concepts. The proposed framework is applied to identify critical source regions responsible for large-scale drought onsets during 1901–2014 for the North American continent using the Standardized Precipitation Evaporation Index (SPEI). We built a spatial network connecting the drought onset timings for the North American continent. Using a spatially weighted network partitioning algorithm, the whole continent is then classified into regional spatial drought networks (RSN), where droughts are more likely to propagate within these regional systems. Finally, a customized network metric was applied to identify locations (source regions) where the drought onsets further propagate to other areas within the regional spatial network. Our results indicated that the West coast, Texas coastal region, and Southeastern Arkansas as major source regions through which atmospheric drought propagates to Western, South Central, and Eastern North America. The formation of drought source regions are due to presence of high pressure ridges and anomalous wind patterns. Furthermore, our results indicate that the drought propagation from these source regions may be due to inadequate moisture transport. The proposed framework can help to develop an early warning detection system for droughts and other spatially extensive extreme events such as heatwaves and floods.

Goutam Konapala↗