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At least 271 records · Page 15

The impact of vertical shear on the sensitivity of tropical cyclogenesis to environmental rotation and thermodynamic state

Abstract The impact of vertical wind shear on the sensitivity of tropical cyclogenesis to environmental rotation and thermodynamic state is investigated through idealized cloud‐resolving simulations of the intensification of an incipient vortex. With vertical shear, tropical cyclones intensify faster with a higher Coriolis parameter, f , irrespective of the environmental thermodynamic state. The vertical shear develops a vertically tilted vortex, which undergoes a precession process with the midlevel vortices rotating cyclonically around the surface center. With a higher f , the midlevel vortices are able to rotate continuously against the vertical shear, leading to the realignment of the tilted vortex and rapid intensification. With a lower f , the rotation is too slow such that the midlevel vortices are advected away from the surface center and the intensification is suppressed. The parameter, χ b , measuring the effect from the low‐entropy downdraft air on the boundary layer entropy, is found to be a good indicator of the environmental thermodynamic favorability for tropical cyclogenesis in vertical shear. Without vertical shear, tropical cyclones are found to intensify faster with a lower f by previous studies. We show this dependency on f is sensitive to the environmental thermodynamic state. The thermodynamical favorability for convection can be measured by χ m , which estimates the time it takes for surface fluxes to moisten the midtroposphere. A smaller χ m not only leads to a faster intensification due to a shorter period for moist preconditioning of the inner region but also neutralizes the faster intensification with a lower f due to enhanced peripheral convection.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Migratory Behavior and Physiological Development as Potential Determinants of Life History Diversity in Fall Chinook Salmon in the Clearwater River

We studied the influence of behavior, water velocity, and physiological development on the downstream movement of subyearling fall Chinook Salmon Oncorhynchus tshawytscha in free-flowing and impounded reaches of the Clearwater and Snake rivers as potential mechanisms that might explain life history diversity in this stock. Movement rates and the percentage of radio-tagged fish that moved faster than the average current velocity were highest in the free-flowing Clearwater River compared to impounded reaches. This provided support for our hypothesis that water velocity is a primary determinant of downstream movement regardless of a fish’s physiological development. In contrast, movement rates slowed and detections became fewer in impounded reaches where velocities were much lower. The percentage of fish that moved faster than the average current velocity continued to decline and reached zero in the lower-most reach of Lower Granite Reservoir suggesting that behavioral disposition to move downstream was low. These findings contrast those of a similar, previous study of Snake River subyearlings in spite of hydrodynamic conditions being similar. Physiological differences between Snake and Clearwater river migrants shed light on this disparity. Subyearlings from the Clearwater River were parr-like in their development and never showed an increase in gill Na+/K+-ATPase activity as did smolts from the Snake River. The later emergence timing and cooler rearing temperatures in the Clearwater River may suppress normal physiological development that causes many fish to delay downstream movement and adopt a yearling life history strategy.

Tiffan, Kenneth F.↗

Microstructure and strengthening of Al-6Ce-3Ni-0.7Fe (wt%) alloy manufactured by laser powder-bed fusion

In this study, an Al-6Ce-3Ni-0.7Fe (wt%) alloy was fabricated via laser powder-bed fusion and its microstructure, thermal stability, tensile properties, and creep properties are investigated for two rapid-solidification rates with different eutectic spacings. For both faster- and slower-cooled states, the as-fabricated alloy mostly shows elongated grains with very fine eutectic networks (~40 nm lamellar width) comprising a high-volume fraction (~18 %) of intermetallic phases. Faster-cooled samples, however, display a less continuous eutectic network with finer spacing (~100 nm), leading to higher Orowan strengthening and therefore superior microhardness and yield stress up to ~350 °C. Upon aging (300 - 450 °C), micron-size Al 9 (Ni,Fe) 2 needle-like precipitates form within grains, and the Al 11 Ce 3 eutectic network spheroidizes, while retaining a submicron width and spacing, resulting in 33–37 % drop in microhardness after 144 h aging at 400 °C. Limited tensile ductility (~6 %) and creep ductility (~1-2 %) are measured for both faster- and slower-cooled alloys due to an inhomogeneous microstructure, where cavitation preferentially initiates at melt-pool boundaries, precipitate-free zones, and/or denuded zones, eventually leading to local fracture. Denuded zones, induced by stress, form due to diffusional flow with stress-dependent orientations, and are identified as microstructurally weak regions leading to strain localization. The present alloy does not show a significant difference in 300 °C creep resistance between: (i) tensile and compressive loading, (ii) faster- and slower-cooled samples, and (iii) continuous and spheroidized eutectics. Creep resistance at 300 °C is comparable to that of a Ce-richer Al-10.5Ce-3.1Ni-1.2Mn (wt%) alloy, despite the formation of denuded zones and needle-like Al 9 (Ni,Fe) 2 precipitates.

36 MATERIALS SCIENCE↗

Physics-Informed Machine Learning Models for Predicting the Progress of Reactive-Mixing

This paper presents a physics-informed machine learning (ML) framework to construct reduced-order models (ROMs) for reactive-transport quantities of interest (QoIs) based on high-fidelity numerical simu-lations. QoIs include species decay, product yield, and degree of mixing. The ROMs for QoIs are applied to quantify and understand how the chemical species evolve over time. First, high-resolution datasets for constructing ROMs are generated by solving anisotropic reaction-di?usion equations using a non-negative finite element formulation for di?erent input parameters. The reactive-mixing model input parameters are: time-scale associated with flipping of velocity, spatial-scale controlling small/large vortex structures of velocity, perturbation parameter of the vortex-based velocity, anisotropic dispersion strength/contrast, and molecular diffusion. Second, random forests, F-test, and mutual information criterion are used to evaluate the importance of model inputs/features with respect to QoIs. We observed that anisotropic dispersion strength/contrast is the most important feature and time-scale associated with flipping of velocity is the least important feature. Third, Support Vector Machines (SVM) and Support Vector Regression (SVR) are used to construct ROMs based on the model inputs. The constructed SVR-ROMs are then used to predict scaling of QoIs. We also present estimates and inequalities on the QoIs, which inform that the species decay, mix, and produce in an exponential fashion. These inequalities also inform that a radial basis function is the most suitable kernel for the SVM/SVR models for QoIs. It is observed that R2-score for SVR-ROMs on unseen data is greater than 0.9, implying that the SVR-ROMs are able to predict the reaction-diffusion system state reasonably well. Finally, in terms of the computational cost, the proposed SVM-ROMs are O(107) times faster than running a high-fidelity finite element simulation for evaluating QoIs. This makes the proposed ML-based ROMs attractive for reactive-transport sensing and real-time monitoring applications as they are significantly faster yet reasonably accurate.

Mudunuru, Maruti K.↗

Cluster-to-cluster data transfer with data compression over wide-area networks

The recent emergence of ultra high-speed networks up to 100 Gb/s has posed numerous challenges and has led to many investigations on efficient protocols to saturate 100 Gb/s links. However, end-to-end data transfers involve many components, not only protocols, affecting overall transfer performance. These components include disk I/O subsystem, additional computation associated with data streams, and network adapters. For example, achievable bandwidth by TCP may not be implementable if disk I/O or CPU becomes a bottleneck in end-to-end data transfer. In this paper, we first model all the system components involved in end-to-end data transfer as a graph. We then formulate the problem whose goal is to achieve maximum data transfer throughput using parallel data flows. We also propose a variable data flow GridFFP XIO stack to improve data transfer with data compression. Our contributions lie in how to optimize data transfers considering all the system components involved rather than in accurately modeling all the system components involved. Our proposed formulations and solutions are evaluated through experiments on the ESnet 100G testbed and a wide-area cluster-to-cluster testbed. The experimental results on the ESnet 100G testbed show that our approach is several times faster than Globus Online-8 x faster for datasets with many 10 MB files and 3-4 x faster for other datasets of larger size files. The experimental results on the cluster-to-cluster testbed show that our variable data flow approach is up to 4 x faster than a normal cluster data transfer.

Disk-to-Disk Transfer↗

Remarkable enhancement of photocatalytic performance via constructing a novel Z-scheme KNbO{sub 3}/Bi{sub 2}O{sub 3} hybrid material

Highlights: • A series of KNbO{sub 3}/Bi{sub 2}O{sub 3} composite materials with different percentage of KNbO{sub 3} have been prepared by simple methods using Bismuth oxide, niobium pentoxide and potassium hydroxide as precursors. • The rate constants of the best photocatalyst (30 wt.% KNbO{sub 3}/Bi{sub 2}O{sub 3}) for the RhB and MO degradation are about 3.7 times and 4.1 times faster than those of pure Bi{sub 2}O{sub 3} and approximately 6.9 times and 7.1 times faster than those of pure KNbO{sub 3}, respectively. • The composite photocatalyst exhibits a good physical and chemical stability during the photocatalytic reaction process. • Results demonstrat that the migration of photogenerated carriers adopts a direct Z-scheme mechanism and ·O{sup 2−}, ·OH, and h{sup +} are the main reactive species in the photocatalytic process. - Abstract: KNbO{sub 3}/Bi{sub 2}O{sub 3} composite materials with different percentage of KNbO{sub 3} have been prepared by simple methods The structural and optical properties of the resulting samples are thoroughly characterized by XRD, UV–vis DRS, SEM, TEM, and N{sub 2}-sorption analysis. The photocatalytic activities of the as-prepared materials for the degradation of rhodamine B (RhB) and methyl orange (MO) are evaluated under UV-light irradiation. The results indicate that the optimal loading amount of KNbO{sub 3} is 30 wt.% (i. e., 30 wt.% KNbO{sub 3}/Bi{sub 2}O{sub 3}), The rate constants of which for the RhB and MO degradation are about 3.7 times and 4.1 times faster than those of pure Bi{sub 2}O{sub 3} and approximately 6.9 times and 7.1 times faster than those of pure KNbO{sub 3}, respectively. Based on a series of characterizations, it can be concluded that the migration of photogenerated carriers adopts a direct Z-scheme mechanism and ·O{sup 2−}, ·OH, and h{sup +} are the main reactive species in the photocatalytic reactions.

36 MATERIALS SCIENCE↗

Technetium and iodine aqueous species immobilization and transformations in the presence of strong reductants and calcite-forming solutions: Remedial action implications

At the Hanford Site in southeastern Washington State, radionuclide (Tc-99/I-129) laden liquid wastes have been discharged to ground, resulting in vadose zone contamination, which provides a continuous source of these contaminants to groundwater. The presence of multiple contaminants increases the complexity of finding viable remediation technologies to sequester vadose zone contaminants in situ and protect groundwater. Although previous studies have shown the efficiency of zero valent iron (ZVI) and sulfur modified iron (SMI) in reducing mobile Tc(VII) to immobile Tc(IV) and iodate incorporation into calcite, the coupled effects from simultaneously using these remedial technologies have not been previously studied. In this first-of-a-kind laboratory study, we used two efficient reductants (i.e., ZVI and SMI) and calcite-forming solutions to simultaneously remove aqueous Tc(VII) and iodate via reduction and incorporation, respectively. The results confirmed that Tc(VII) was rapidly removed from the aqueous phase via reduction to Tc(IV). ZVI removed Tc(VII) faster than SMI, although both had removed the same amount by the end of the experiments. Most of the aqueous iodate was rapidly transformed to iodide, and therefore was not incorporated into calcite, but instead remained in the aqueous phase. The iodate reduction to iodide was much faster than iodate incorporation into calcite, suggesting that this remedial pathway is not efficient in removing aqueous iodate when strong reductants are present. Other experiments suggested that iodate removal via calcite precipitation should occur first and then reductants should be added for Tc(VII) removal. Although ZVI can negatively impact microbial populations and thereby inhibit natural attenuation mechanisms, only changes in the makeup of the microbial community were observed. However, these changes in the microbial community may have an impact on remediation efforts in the long term that could not be seen in a short-term study. The results underscore the importance of identifying interactions between natural attenuation pathways and remediation technologies that only target individual contaminants.

Keywords: Tc removal, groundwater remediation, nuc↗

Desmoglein 3 – Influence on oral carcinoma cell migration and invasion

Desmoglein 3 (Dsg3) is an adhesion receptor in desmosomes, but its role in carcinoma cell migration and invasion is mostly unknown. Our aim was to quantitatively analyse the motion of Dsg3-modified carcinoma cells in 2D settings and in 3D within tumour microenvironment mimicking (TMEM) matrices. We tested mutant constructs of C-terminally truncated Dsg3 (∆238 and ∆560), overexpressed full-length (FL) Dsg3, and empty vector control (Ct) of buccal mucosa squamous cell carcinoma (SqCC/Y1) cells. We captured live cell images and analysed migration velocities and accumulated and Euclidean distances. We compared rodent collagen and Matrigel{sup ®} with human Myogel TMEM matrices for these parameters in 3D sandwich, in which we also tested the effects of monoclonal antibody AK23, which targets the EC1 domain of Dsg3. In monolayer culture, FL and both truncated constructs migrated faster and had higher accumulated distances than Ct cells. However, in the 3D assays, only the mutants invaded faster relative to Ct cells. Of the mutants, the shorter form (Δ238) exhibited faster migration and invasion than Δ560 cells. In the Transwell, all of the cells invaded faster through Myogel than Matrigel{sup ®} coated wells. In 3D sandwich, AK23 antibody inhibited only the invasion of FL cells. We conclude that different experimental 2D and 3D settings can markedly influence the movement of oral carcinoma cells with various Dsg3 modifications.

60 APPLIED LIFE SCIENCES↗

Conversion of Coal in a Fluidized Bed Chemical Looping Combustion Reactor with and without Oxygen Uncoupling

Chemical looping combustion (CLC) is a carbon capture technology that involves circulating metal-based oxygen carrier particles between two reactors, where the metal is alternately oxidized by air and then reduced by fuel as the fuel combusts. In the variant of CLC known as chemical looping with oxygen uncoupling (CLOU), the oxygen carrier releases gaseous O 2 in the fuel reactor, allowing for a rapid reaction with solid fuels. This study focuses on improving the understanding of mechanisms responsible for carbon conversion of coal and coal char in a bench-scale fluidized bed reactor using oxygen carriers with and without oxygen uncoupling properties. Effects of coal particle size and temperature on the rate of carbon conversion are evaluated in order to quantify performance and to aid in design and modeling of large-scale fully circulating chemical looping systems. The data confirms that conversion with a copper-based CLOU carrier is faster and results in lower CO and CH 4 concentrations than the natural ore ilmenite, which does not have CLOU properties. Furthermore, with coal as fuel, the increase in the rate of char carbon conversion with CLOU is lower than that previously reported because of competition for oxygen by volatiles. Conversion is also faster with smaller particles but results in higher CO concentrations as small particles gasify and release volatiles more quickly.

01 COAL, LIGNITE, AND PEAT↗

Mechanisms of material removal and mass transport in focused ion beam nanopore formation

Despite the widespread use of focused ion beam (FIB) processing as a material removal method for applications ranging from electron microscope sample preparation to nanopore processing for DNA sequencing, the basic material removal mechanisms of FIB processing are not well understood. We present the first complete atomistic simulation of high-flux FIB using large-scale parallel molecular dynamics (MD) simulations of nanopore fabrication in freestanding thin films. We focus on the root mechanisms of material removal and rearrangement and describe the role of explosive boiling in forming nanopores. FIB nanopore fabrication is typically understood to occur via sputter erosion. This can be shown to be the case in low flux systems, where individual ion impacts are sufficiently separated in time that they may be considered as independent events. But our detailed MD simulations show that in high flux FIB processing, above a threshold level at which thermal effects become significant, the primary mechanism of material removal changes to a significantly accelerated, thermally dominated process. Under these conditions, the target is heated by the ion beam faster than heat is conducted away by the material, leading quickly to melting, and then continued heating to nearly the material critical temperature. This leads to explosive boiling of the target material with spontaneous bubble formation and coalescence. Mass is rapidly rearranged at the atomistic scale, and material removal occurs orders of magnitude faster than would occur by simple sputtering. While the phenomenology is demonstrated computationally in silicon, it can be expected to occur at lower beam fluxes in other cases where thermal conduction is suppressed due to material properties, geometry, or ambient thermal conditions.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

SOLAR MERIDIONAL FLOW IN THE SHALLOW INTERIOR DURING THE RISING PHASE OF CYCLE 24

Solar subsurface zonal- and meridional-flow profiles during the rising phase of solar cycle 24 are studied using the time-distance helioseismology technique. The faster zonal bands in the torsional-oscillation pattern show strong hemispheric asymmetries and temporal variations in both width and speed. The faster band in the northern hemisphere is located closer to the equator than the band in the southern hemisphere and migrates past the equator when the magnetic activity in the southern hemisphere is reaching maximum. The meridional-flow speed decreases substantially with the increase of magnetic activity, and the flow profile shows two zonal structures in each hemisphere. The residual meridional flow, after subtracting a mean meridional-flow profile, converges toward the activity belts and shows faster and slower bands like the torsional-oscillation pattern. More interestingly, the meridional-flow speed above latitude 30° shows an anti-correlation with the poleward-transporting magnetic flux, slower when the following-polarity flux is transported and faster when the leading-polarity flux is transported. It is expected that this phenomenon slows the process of magnetic cancellation and polarity reversal in high-latitude areas.

79 ASTRONOMY AND ASTROPHYSICS↗

Regression-Based Analytics for Response Dynamics of SDN Solutions and Components

We consider Software-Defined Network (SDN) solutions that dynamically setup and teardown connections, and also their response dynamics of connectivity and TCP throughput. There is a wide variety of choices for controllers, switches, andsoftware modules, and objective analytics of measurements are needed to compare the response dynamics of solutions based on their combinations. Throughput and ping measurements during connection changes contain significant statistical variations due to the complexities of controllers, northbound scripts, and network devices. We propose analytical methods to estimate response regression functions, which provide a rigorous and objective comparison of different SDN solutions and their components, namely, controllers, switches, and OpenFlow versions. We apply this approach in two scenarios: (a) switching of long-haul connections emulated in hardware by ANUE devices over a testbed consisting of HP and Cisco switches, and (b) multi-site science infrastructure emulated using VMs and Mininet. The results provide useful practical insights including: (i) the dpctl method responds seconds faster than the OpenDayLight (ODL) method on average under OpenFlow 1.0, but performs similar to ODL under OpenFlow 1.3, and (ii) the ping response of dpctl is about 0.6 sec faster than ODL for the second scenario.

97 MATHEMATICS AND COMPUTING↗

Physiological and proteomic analyses of Fe(III)-reducing co-cultures of Desulfotomaculum reducens MI-1 and Geobacter sulfurreducens PCA

We established Fe(III)-reducing co-cultures of two species of metal-reducing bacteria, the Gram-positive Desulfotomaculum reducens MI-1 and the Gram-negative Geobacter sulfurreducens PCA. Co-cultures were given pyruvate, a substrate that D. reducens can ferment and use as electron donor for Fe(III) reduction. G. sulfurreducens, which does not utilize pyruvate, relied upon products of pyruvate oxidation by D. reducens (acetate, H2) for use as electron donor in the co-culture. Fe(III) was reduced more quickly in co-cultures relative to pure cultures, and powder X-ray diffraction evidence suggests that both organisms contribute to Fe(III) reduction. Global comparative proteomic analysis was performed in order to observe differential protein abundance during co-culture versus pure culture growth. Proteins previously associated with Fe(III) reduction in G. sulfurreducens, namely c-type cytochromes and type IV pili proteins, were significantly increased in abundance in co-cultures relative to pure cultures. Dreducens ribosomal proteins were significantly increased in co-cultures, likely a reflection of faster growth rates observed for D. reducens cells while in co-culture. Furthermore, we developed multiple reaction monitoring (MRM) assays to quantitate specific biomarker peptides. The assays were validated in pure and co-cultures, and protein abundance ratios from targeted MRM and global proteomic analysis correlate strongly.

Otwell, Annie E.↗

Using Mobile Agents and Overlay Networks to Secure Electrical Netoworks

ABSTRACT The use of wandering, mobile agents can provide a robust approach for managing, monitoring, and securing electrical distribution networks. However, the topological structure of electrical networks can affect system performance. For example, if the multi-agent system relies on a regular inspection rate (on average, points of interest are inspected with equal frequency), then locations that are not well connected will on average be inspected less frequently. This paper discusses creation and use of overlay networks that create a virtual grid graph can provide faster coverage and a more uniform average agent sampling rate. Using overlays agents wander a virtual neighborhood consisting of only points of interest that are interconnected in a regular fashion (each point has the same number of neighbors). Experimental results will show that an overlay can often provide better network coverage and a more uniform inspection rate, which can improve cyber security by providing a faster detection of threats

Dawes, Neal A.↗

Evaluating the Performance of Integer Sum Reduction in SYCL on GPUs

SYCL is a promising programming model for heterogeneous computing—allowing a single-source code to target devices from multiple vendors. One significant task performed on these accelerators is a primitive operation for integer sum reduction. This paper presents several SYCL implementations of integer sum reduction—using atomic functions, shared local memory, vectorized memory accesses and parameterized workload sizes—to compare the performance and maturity of SYCL against open-source vendor-specific implementations of the same reduction. For a sufficiently large number of integers, tuning the parameters of our SYCL implementations achieves 1.4X speedup over the open-source implementations on an Intel UHD630 integrated GPU. The SYCL reduction is 3% faster than the templated reduction in Thrust, and 0.3% faster than the device reduction in CUB on an Nvidia P100 GPU. The SYCL reduction is 1.9% faster than the templated reduction in Thrust, and 0.4% faster than the device reduction in CUB on an Nvidia V100 GPU.

Jin, Zheming↗

An optimized FM-index library for nucleotide and amino acid search

Abstract Background Pattern matching is a key step in a variety of biological sequence analysis pipelines. The FM-index is a compressed data structure for pattern matching, with search run time that is independent of the length of the database text. Implementation of the FM-index is reasonably complicated, so that increased adoption will be aided by the availability of a fast and flexible FM-index library. Results We present AvxWindowedFMindex (AWFM-index), a lightweight, open-source, thread-parallel FM-index library written in C that is optimized for indexing nucleotide and amino acid sequences. AWFM-index introduces a new approach to storing FM-index data in a strided bit-vector format that enables extremely efficient computation of the FM-index occurrence function via AVX2 bitwise instructions, and combines this with optional on-disk storage of the index’s suffix array and a cache-efficient lookup table for partial k-mer searches. The AWFM-index performs exact match count and locate queries faster than SeqAn3’s FM-index implementation across a range of comparable memory footprints. When optimized for speed, AWFM-index is $$\sim $$ ∼ 2–4x faster than SeqAn3 for nucleotide search, and $$\sim $$ ∼ 2–6x faster for amino acid search; it is also $$\sim $$ ∼ 4x faster with similar memory footprint when storing the suffix array in on-disk SSD storage. Conclusions AWFM-index is easy to incorporate into bioinformatics software, offers run-time performance parameterization, and provides clients with FM-index functionality at both a high-level (count or locate all instances of a query string) and low-level (step-wise control of the FM-index backward-search process). The open-source library is available for download at https://github.com/TravisWheelerLab/AvxWindowFmIndex.

59 BASIC BIOLOGICAL SCIENCES↗

Homomorphic data compression for real time photon correlation analysis

The construction of highly coherent X-ray sources, combined with next-generation detectors that are larger and faster, has enabled new research opportunities across the scientific landscape. Among the techniques that benefit most from these advancements is X-ray photon correlation spectroscopy (XPCS), where faster acquisition unlocks the ability to study faster dynamics within samples. However, faster acquisition on larger detectors also introduces unprecedented challenges for online data processing and offline data storage. Such challenges are particularly prominent for XPCS, where real time analyses require simultaneous calculation of all the previously acquired data in the time series. We present a homomorphic compression scheme to effectively reduce the computational time and memory space required for XPCS analysis. Leveraging similarities in the mathematical expression between a matrix-based compression algorithm and the correlation calculation, our approach allows direct operation on the compressed data without their decompression. The offline compression scheme extends storage capacity by a factor of 40 while preserving key features in the lossy compressed data. Meanwhile, the online compression scheme reduces the computational time to below 1 ms, enabling real time calculation of the correlation functions at kHz framerate. Our demonstration of a homomorphic compression of scientific data provides an effective solution to the big data challenge at coherent light sources. Beyond the example shown in this work, the framework can be extended to facilitate real-time operations directly on a compressed data stream for other techniques.

36 MATERIALS SCIENCE↗