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At least 253 records · Page 14

A Posteriori Ontology Engineering for Data-Driven Science

Science—and biology in particular—has a rich tradition in categorical knowledge management. This continues today in the generation and use of formal ontologies. Unfortunately, the link between hard data and ontological content is predominately qualitative, not quantitative. The usual approach is to construct ontologies of qualitative concepts, and then annotate the data to the ontologies. This process has seen great value, yet it is laborious, and the success to which ontologies are managing and organizing the full information content of the data is uncertain. An alternative approach is the converse: use the data itself to quantitatively drive ontology creation. Under this model, one generates ontologies at the time they are needed, allowing them to change as more data influences both their topology and their concept space. We outline a combined approach to achieve this, taking advantage of two technologies, the mathematical approach of Formal Concept Analysis (FCA) and the semantic web technologies of the Web Ontology Language (OWL).

Gessler, Damian Dg↗

Explainability and extrapolation of machine learning models for predicting the glass transition temperature of polymers

Abstract Machine learning (ML) offers promising tools to develop surrogate models for polymers' structure–property relations. Surrogate models can be built upon existing polymer data and are useful for rapidly predicting the properties of unknown polymers. The accuracy of such ML models appears to depend on the feature space representation of polymers, the range of training data, and learning algorithms. Here, we establish connections between these factors for predicting the glass transition temperature (T g ) of polymers. Our analysis suggests linear models with fewer fitting parameters are as accurate as nonlinear models with many hidden and unexplainable parameters. Also, the performance of a monomer topology‐based ML model is found to be qualitatively identical to that of a physicochemical descriptor‐based ML model. We find that the ML models's performance in the extrapolative region is enhanced as the property range of the training data increases. Moreover, we establish newT g – polymer chemistry correlations via ML. Our work illustrates how ML can advance the fundamental understanding of polymer structure–property correlations and its efficacy for extrapolation problems.

Polymer Science↗

Measurement of the 136 Xe two-neutrino double-β-decay half-life via direct background subtraction in NEXT

Here, we report a measurement of the half-life of the 136 Xe two-neutrino double-β decay performed with a novel direct-background-subtraction technique. The analysis relies on the data collected with the NEXT-White detector operated with 136 Xe-enriched and 136 Xe-depleted xenon, as well as on the topology of double-electron tracks. With a fiducial mass of only 3.5 kg of Xe, a half-life of 2.34$_{-0.46}^{+0.80}$(stat)$_{-0.17}^{+0.30}$(sys)×10 21 yr is derived from the background-subtracted energy spectrum. The presented technique demonstrates the feasibility of unique background-model-independent neutrinoless double-β-decay searches.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Multibody Based Digital Astronaut Dynamics Simulation

BACKGROUND: This study provides the Software, Robotics, & Simulation Division at the NASA Johnson Space Center with a verification tool for multibody dynamics simulation requiring human motion. The motivation stems from current studies of several Vibration Isolation & Stabilization(VIS)system designs that attenuate the moments and forces which would be transmitted to a spacecraft during an exercise. A multibody dynamics model for a proposed VIS was available previously[1], therefore modeling of the VIS was not needed for this work. The interest here is in creating the multibody dynamics model of an astronaut in motion which may be utilized independently or while attached to a mechanism. An existing simulation [2] that utilizes OpenSim [3,4] and an in-house multibody dynamics package (MBDyn) [5] is used in order to verify the astronaut model. The main advantage this model will have over the existing simulation is that everything will be processed in one tool. METHODS AND RESULTS: Creating the simulation required; estimation of Body Segment Inertial Parameters (BSIP),a multibody model of the human-VIS system, joint acceleration profiles, and input files for MBDyn, which is used for this analysis. The scaling factors provided by Dumas et al. [6] are utilized in estimating the BSIP. Anthropometric data are used for estimating these parameters, the Anthropometric Survey of US Army Personnel (ANSUR II) [7] was the source. The astronaut model consists of 15 bodies, 14 joints and 32 degrees of freedom, with the dynamics topology generated using the center of mass locations and anthropometric data. MBDyn has an option for prescribed joint motion (PJM), which requires joint acceleration data as input. The joint angle data is first obtained from a motion capture system and then processed through code that has been created to generate approximate joint acceleration profiles. The topology tree for the astronaut model begins at the right foot up to the pelvis where there is one branch for going down the left leg and another for the torso. The torso branch leads to branches for the arms and a leaf body for the head/neck segment. For attachment to the VIS, the heel of the right foot is connected to the VIS platform through a fixed joint, resembling a foot restraint. The left foot does not attach to the platform in order to prevent a system with a closed loop. Topology and symmetry of the astronaut model were verified through kinematic analysis. Further verification of the forces and moments transmitted to the VIS were verified against the existing simulation. There was a satisfactory level of agreement when testing a simple motion, for example, rocking back and forth. Full exercise motions are to be tested soon. The main outcome has been a novel application of MBDyn for biomechanics modeling that is now available for dynamic simulations involving human motion. The estimation of BSIP was another useful result of this study, requiring only 15 inputs for generating mass properties of a theoretical astronaut model. Expansion on this work is possible by going through an alternative route in obtaining the joint motion data. Instead of high-tech and often expensive motion capture systems, an individual may watch videos with high focus and at a slow motion for each individual segment in order to determine the initial and final time and angle for that specific degree of freedom. Synthetic trajectories may also be created if there is no video reference available.

F N Matari↗

Conforming Morse-Smale Complexes

Morse-Smale (MS) complexes have been gaining popularity as a tool for feature-driven data analysis and visualization. However, the quality of their geometric embedding and the sole dependence on the input scalar field data can limit their applicability when expressing application-dependent features. In this paper we introduce a new combinatorial technique to compute an MS complex that conforms to both an input scalar field and an additional, prior segmentation of the domain. The segmentation constrains the MS complex computation guaranteeing that boundaries in the segmentation are captured as separatrices of the MS complex. We demonstrate the utility and versatility of our approach with two applications. First, we use streamline integration to determine numerically computed basins/mountains and use the resulting segmentation as an input to our algorithm. This strategy enables the incorporation of prior flow path knowledge, effectively resulting in an MS complex that is as geometrically accurate as the employed numerical integration. Our second use case is motivated by the observation that often the data itself does not explicitly contain features known to be present by a domain expert. We introduce edit operations for MS complexes so that a user can directly modify their features while maintaining all the advantages of a robust topology-based representation.

97 MATHEMATICS AND COMPUTING↗

Modern chemical graph theory

Abstract Graph theory has a long history in chemistry. Yet as the breadth and variety of chemical data is rapidly changing, so too do graph encoding methods and analyses that yield qualitative and quantitative insights. Using illustrative cases within a basic mathematical framework, we showcase modern chemical graph theory's utility in Chemists' analysis and model development toolkit. The encoding of both experimental and simulation data is discussed at various levels of granularity of information. This is followed by a discussion of the two major classes of graph theoretical analyses: identifying connectivity patterns and partitioning methods. Measures, metrics, descriptors, and topological indices are then introduced with an emphasis upon enhancing interpretability and incorporation into physical models. Challenging data cases are described that include strategies for studying time dependence. Throughout, we incorporate recent advancements in computer science and applied mathematics that are propelling chemical graph theory into new domains of chemical study. This article is categorized under: Molecular and Statistical Mechanics > Molecular Dynamics and Monte‐Carlo Methods Structure and Mechanism > Computational Materials Science Structure and Mechanism > Molecular Structures

Leite, Leonardo S. G.↗

Scaling deep learning workloads: NVIDIA DGX-1/Pascal and Intel Knights Landing

Deep Learning (DL) algorithms have become ubiquitous in data analytics. As a result, major computing vendors --- including NVIDIA, Intel, AMD, and IBM --- have architectural road-maps influenced by DL workloads. Furthermore, several vendors have recently advertised new computing products as accelerating large DL workloads. Unfortunately, it is difficult for data scientists to quantify the potential of these different products. This paper provides a performance and power analysis of important DL workloads on two major parallel architectures: NVIDIA DGX-1 (eight Pascal P100 GPUs interconnected with NVLink) and Intel Knights Landing (KNL) CPUs interconnected with Intel Omni-Path or Cray Aries. Our evaluation consists of a cross section of convolutional neural net workloads: CifarNet, AlexNet, GoogLeNet, and ResNet50 topologies using the Cifar10 and ImageNet datasets. The workloads are vendor-optimized for each architecture. Our analysis indicates that although GPUs provide the highest overall performance, the gap can close for some convolutional networks; and the KNL can be competitive in performance/watt. We find that NVLink facilitates scaling efficiency on GPUs. However, its importance is heavily dependent on neural network architecture. Furthermore, for weak-scaling --- sometimes encouraged by restricted GPU memory --- NVLink is less important.

Gawande, Nitin A.↗

RWRtoolkit: multi-omic network analysis using random walks on multiplex networks in any species

Abstract We introduce RWRtoolkit, a multiplex generation, exploration, and statistical package built for R and command-line users. RWRtoolkit enables the efficient exploration of large and highly complex biological networks generated from custom experimental data and/or from publicly available datasets, and is species agnostic. A range of functions can be used to find topological distances between biological entities, determine relationships within sets of interest, search for topological context around sets of interest, and statistically evaluate the strength of relationships within and between sets. The command-line interface is designed for parallelization on high-performance cluster systems, which enables high-throughput analysis such as permutation testing. Several tools in the package have also been made available for use in reproducible workflows via the KBase web application.

Kainer, David (ORCID:0000000172714676)↗

Anomaly detection search for new resonances decaying into a Higgs boson and a generic new particle $X$ in hadronic final states using $\sqrt{s}$ = 13 TeV $pp$ collisions with the ATLAS detector

A search is presented for a heavy resonance $Y$ decaying into a Standard Model Higgs boson $H$ and a new particle $X$ in a fully hadronic final state. The full Large Hadron Collider run 2 dataset of proton-proton collisions at $\sqrt{s}$ = 13 TeV collected by the ATLAS detector from 2015 to 2018 is used and corresponds to an integrated luminosity of 139 fb –1 . The search targets the high $Y$-mass region, where the $H$ and $X$ have a significant Lorentz boost in the laboratory frame. A novel application of anomaly detection is used to define a general signal region, where events are selected solely because of their incompatibility with a learned background-only model. It is constructed using a jet-level tagger for signal-model-independent selection of the boosted $X$ particle, representing the first application of fully unsupervised machine learning to an ATLAS analysis. Two additional signal regions are implemented to target a benchmark $X$ decay into two quarks, covering topologies where the $X$ is reconstructed as either a single large-radius jet or two smallradius jets. The analysis selects Higgs boson decays into $b$$\overline{b}$, and a dedicated neural-network-based tagger provides sensitivity to the boosted heavy-flavor topology. No significant excess of data over the expected background is observed, and the results are presented as upper limits on the production cross section $σ$ ($pp$ → $Y$ → $XH$ → $q$$\overline{q}$$b$$\overline{b}$) for signals with $m_Y$ between 1.5 and 6 TeV and $m_X$ between 65 and 3000 GeV

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

An Integrated Vision-Based System for Spacecraft Attitude and Topology Determination for Formation Flight Missions

With the space industry's increasing focus upon multi-spacecraft formation flight missions, the ability to precisely determine system topology and the orientation of member spacecraft relative to both inertial space and each other is becoming a critical design requirement. Topology determination in satellite systems has traditionally made use of GPS or ground uplink position data for low Earth orbits, or, alternatively, inter-satellite ranging between all formation pairs. While these techniques work, they are not ideal for extension to interplanetary missions or to large fleets of decentralized, mixed-function spacecraft. The Vision-Based Attitude and Formation Determination System (VBAFDS) represents a novel solution to both the navigation and topology determination problems with an integrated approach that combines a miniature star tracker with a suite of robust processing algorithms. By combining a single range measurement with vision data to resolve complete system topology, the VBAFDS design represents a simple, resource-efficient solution that is not constrained to certain Earth orbits or formation geometries. In this paper, analysis and design of the VBAFDS integrated guidance, navigation and control (GN&C) technology will be discussed, including hardware requirements, algorithm development, and simulation results in the context of potential mission applications.

Rogers, Aaron↗

Network Analysis of Academic Medical Center Websites in the United States

Healthcare resources are published annually in repositories such as the AHA Annual Survey Database TM . However, these data repositories are created via manual surveying techniques which are cumbersome in collection and not updated as frequently as website information of the respective hospital systems represented. Also, this resource is not widely available to patients in an easy-to-use format. Network analysis techniques have the potential to create topological maps which serve to aid in pathfinding for patients in their search for healthcare services. This study explores the topological structure of forty United States academic health center websites. Network analysis is utilized to analyze and visualize 48,686 webpages. Several elements of network structure are examined including basic network properties, and centrality measures distributions. The Louvain community detection algorithm is used to examine the extent to which these techniques allow identification of healthcare resources within networks. The results indicate that websites with related healthcare services tend to form observable clusters useful in mapping key resources within a hospital system.

97 MATHEMATICS AND COMPUTING↗

Users manual for AUTOMESH-2D: A program of automatic mesh generation for two-dimensional scattering analysis by the finite element method

AUTOMESH-2D is a computer program specifically designed as a preprocessor for the scattering analysis of two dimensional bodies by the finite element method. This program was developed due to a need for reproducing the effort required to define and check the geometry data, element topology, and material properties. There are six modules in the program: (1) Parameter Specification; (2) Data Input; (3) Node Generation; (4) Element Generation; (5) Mesh Smoothing; and (5) Data File Generation.

Hua, Chongyu↗

Recovering network topologies via Taylor expansion and compressive sensing

Gaining knowledge of the intrinsic topology of a complex dynamical network is the precondition to understand its evolutionary mechanisms and to control its dynamical and functional behaviors. In this article, a general framework is developed to recover topologies of complex networks with completely unknown node dynamics based on Taylor expansion and compressive sensing. Numerical simulations illustrate the feasibility and effectiveness of the proposed method. Moreover, this method is found to have good robustness to weak stochastic perturbations. Finally, the impact of two major factors on the topology identification performance is evaluated. This method provides a natural and direct point to reconstruct network topologies from measurable data, which is likely to have potential applicability in a wide range of fields.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Very Long Baseline polarimetry and the γ -ray connection in Markarian 421 during the broadband campaign in 2011

Context. This is the third paper in a series devoted to the analysis of the multiwavelength data from a campaign on the nearby (z = 0.03) TeV blazar Mrk 421 during 2011. Aims. In this study, we investigate the structure of the high angular resolution polarization, the magnetic topology, the total intensity light curve, the γ-ray flux, and the photon index. We describe how they evolve and how they are connected. Methods. We analyzed data in polarized intensity obtained with the Very Long Baseline Array (VLBA) at twelve epochs (one observation per month from January to December 2011) at 15, 24, and 43 GHz. For the absolute orientation of the electric vector position angles (EVPA) we used the D-terms method; we also confirm its accuracy. We also used γ-ray data from the Fermi Large Area Telescope on weekly time bins throughout 2011. Results. The source shows polarized emission, and its properties vary with time, frequency, and location along the jet. The core mean polarization fraction is generally between 1% and 2%, with a 4% peak at 43 GHz in March; the polarization angle is variable, mainly at 15 GHz, where it changes frequently, and less so at 43 GHz, where it oscillates in the range 114°-173°. The jet polarization properties are more stable, with a fractional polarization of around 16% and a polarization angle nearly perpendicular to the jet axis. The average flux and photon index at γ-ray energies are (17.4 ± 0.5) × 10 -8 ph cm -2 s -1 and Γ = 1.77 ± 0.02. The γ-ray light curve shows variability, with a main peak of (38 ± 11) × 10 -8 ph cm -2 s -1 at the beginning of March and two later peaks centered on September 8 and November 13. The first γ-ray peak appears to be associated with the peak in the core polarized emission at 43 GHz, as well as with the total intensity light curve. A discrete correlation function analysis yields a correlation coefficient of 0.54 at zero delay, with a significance level >99.7%. Conclusions. With this multifrequency study, we accurately determine the polarization properties of Mrk 421, both in the core and in the jet region. The radio and γ-ray light curves are correlated. The observed EVPA variability at 15 GHz is partly due to opacity and partly to a variable Faraday rotation effect. Finally, to explain the residual variability of the intrinsic polarization angle and the low degree of polarization in the core region, we invoke a blend of variable cross-polarized subcomponents with different polarization properties within the beam.

79 ASTRONOMY AND ASTROPHYSICS↗

Magnetoresistance in LuBi and YBi semimetals due to nearly perfect carrier compensation

In this paper, monobismuthides of lutetium and yttrium are shown as representatives of materials which exhibit extreme magnetoresistance and magnetic-field-induced resistivity plateaus. At low temperatures and in magnetic fields of 9 T, the magnetoresistance attains orders of magnitude of 10 4 % and 10 3 %, on YBi and LuBi, respectively. Our thorough examination of electron-transport properties of both compounds shows that observed features are the consequence of nearly perfect carrier compensation rather than of possible nontrivial topology of electronic states. The field-induced plateau of electrical resistivity can be explained with Kohler scaling. An anisotropic multiband model of electronic transport describes very well the magnetic field dependence of electrical resistivity and Hall resistivity. Data obtained from the Shubnikov–de Haas oscillation analysis also confirm that the Fermi surface of each compound contains almost equal amounts of holes and electrons. Finally, first-principle calculations of electronic band structure are in a very good agreement with the experimental data.

36 MATERIALS SCIENCE↗

Leptonic cascade decays of a heavy Higgs boson through vectorlike leptons at the LHC

We demonstrate the potential of fully leptonic cascade decays of a heavy neutral Higgs boson through vectorlike leptons as a simultaneous probe for extended Higgs sectors and extra matter particles at the LHC. The processes we explore are unique in that their event topologies lead to di-boson-like leptonic final states with a lepton pair which does not reconstruct the mass of a gauge boson. By recasting existing $2\ell$ + $E^{\text{miss}}_{R}$ and $3/4\ell$ searches channels using run2 data from the LHC we obtain model independent bounds on the masses of heavy scalars and vectorlike leptons and use these results to explore future prospects at the HL-LHC. Our results can be directly applied to any kind of new physics scenarios sharing the final states and the event topology. For concreteness, we apply our results to a benchmark scenario: a two Higgs doublet model type-II augmented with vectorlike leptons. Remarkably, even with current data the sensitivity of our analysis shows a reach for masses of a heavy neutral Higgs and vectorlike leptons up to 2 TeV and 1.5 TeV, respectively. Even for low tan β ≳ 1, the analysis retains sensitivity to heavy Higgs masses slightly above 1 TeV. The future sensitivities at the HL-LHC extend the reach for heavy Higgses and new leptons to 2.7 TeV and 2 TeV, respectively.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Experiments, Statistical Analysis, and Modeling to Evaluate the Porosity Influence in SPS Coatings

Suspension plasma spray (SPS) is far more complicated than conventional plasma spray and requires a deep knowledge about the influence of process parameters and their correlations. In this study, YSZ coatings were manufactured by SPS with six different process parameters such as plasma power, suspension mass load, original powder size, substrate surface topology, spray distance, and spray step. Then, the porosity of as-prepared coatings was investigated by image method and X-ray transmission technique. A multivariate analysis on the collected experimental data was carried out by employing mathematical statistics methods. The results showed that: 1) Coating porosity has a negative correlation with plasma power and suspension mass load and a positive correlation with the original powder size, spray distance, spray step, and substrate roughness; 2) Spraying distance is the main factor affecting to coating porosity, followed by suspension mass load and substrate surface roughness, respectively. A linear model for porosity prediction was developed and was verified by experiments. Furthermore, the mechanism by which process parameters influence coating porosity is additionally discussed.

36 MATERIALS SCIENCE↗