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At least 613 records · Page 34

KG-Hub—building and exchanging biological knowledge graphs

Knowledge graphs (KGs) are a powerful approach for integrating heterogeneous data and making inferences in biology and many other domains, but a coherent solution for constructing, exchanging, and facilitating the downstream use of KGs is lacking. Here we present KG-Hub, a platform that enables standardized construction, exchange, and reuse of KGs. Features include a simple, modular extract–transform–load pattern for producing graphs compliant with Biolink Model (a high-level data model for standardizing biological data), easy integration of any OBO (Open Biological and Biomedical Ontologies) ontology, cached downloads of upstream data sources, versioned and automatically updated builds with stable URLs, web-browsable storage of KG artifacts on cloud infrastructure, and easy reuse of transformed subgraphs across projects. Current KG-Hub projects span use cases including COVID-19 research, drug repurposing, microbial–environmental interactions, and rare disease research. KG-Hub is equipped with tooling to easily analyze and manipulate KGs. KG-Hub is also tightly integrated with graph machine learning (ML) tools which allow automated graph ML, including node embeddings and training of models for link prediction and node classification.

59 BASIC BIOLOGICAL SCIENCES↗

Physics-Informed Active Learning With Simultaneous Weak-Form Latent Space Dynamics Identification

The parametric greedy latent space dynamics identification (gLaSDI) framework has demonstrated promising potential for accurate and efficient modeling of high-dimensional nonlinear physical systems. However, it remains challenging to handle noisy data. Here, to enhance robustness against noise, we incorporate the weak-form estimation of nonlinear dynamics (WENDy) into gLaSDI. In the proposed weak-form gLaSDI (WgLaSDI) framework, an autoencoder and WENDy are trained simultaneously to discover intrinsic nonlinear latent-space dynamics of high-dimensional data. Compared with the standard sparse identification of nonlinear dynamics (SINDy) employed in gLaSDI, WENDy enables variance reduction and robust latent space discovery, therefore leading to more accurate and efficient reduced-order modeling. Furthermore, the greedy physics-informed active learning in WgLaSDI enables adaptive sampling of optimal training data on the fly for enhanced modeling accuracy. The effectiveness of the proposed framework is demonstrated by modeling various nonlinear dynamical problems, including viscous and inviscid Burgers' equations, time-dependent radial advection, and the Vlasov equation for plasma physics. With data that contains 5%–10% Gaussian white noise, WgLaSDI outperforms gLaSDI by orders of magnitude, achieving 1%–7% relative errors. Compared with the high-fidelity models, WgLaSDI achieves 121 to 1779x speed-up.

97 MATHEMATICS AND COMPUTING↗

Open Science principles for accelerating trait-based science across the Tree of Life

Synthesizing trait observations and knowledge across the Tree of Life remains a grand challenge for biodiversity science. Species traits are widely used in ecological and evolutionary science, and new data and methods have proliferated rapidly. Yet accessing and integrating disparate data sources remains a considerable challenge, slowing progress toward a global synthesis to integrate trait data across organisms. Trait science needs a vision for achieving global integration across all organisms. In this perspective, we outline how the adoption of key Open Science principles—open data, open source and open methods—is transforming trait science, increasing transparency, democratizing access and accelerating global synthesis. To enhance widespread adoption of these principles, we introduce the Open Traits Network (OTN), a global, decentralized community welcoming all researchers and institutions pursuing the collaborative goal of standardizing and integrating trait data across organisms. We demonstrate how adherence to Open Science principles is key to the OTN community and outline five activities that can accelerate the synthesis of trait data across the Tree of Life, thereby facilitating rapid advances to address scientific inquiries and environmental issues. Lessons learned along the path to a global synthesis of trait data will provide a framework for addressing similarly complex data science and informatics challenges.

59 BASIC BIOLOGICAL SCIENCES↗

NuMaCo

The Nuclear Material and Composition (NuMaCo) server is a web-based platform for storing, managing, and serving material composition data. It includes the SCALE Standard Composition Library and the PNNL Compendium, along with their associated references and uncertainty data. NuMaCo also provides tools to generate, compare, and validate material input definitions for both SCALE and MCNP.

Skutnik, Steve (000000016441135X)↗

Italian prototype building models for urban scale building performance simulation

Urban building energy modeling (UBEM) seeks to evaluate strategies to optimize building energy use at urban scale to support a city's building energy goals. Prototype building models are usually developed to represent typical urban building characteristics of a specific use type, construction year, and climate zone, as detailed characteristics of individual buildings at urban scale are difficult to obtain. This study investigated the Italian building stock, developing 46 building prototypes, based on construction year, for residential and office buildings. The study included 16 single-family buildings, 16 multi-family buildings, and 14 office buildings. Building envelope properties and heating, ventilation, and air conditioning system characteristics were defined according to existing building energy codes and standards for climatic zone E, which covers about half the Italian municipalities. Novel contributions of this study include (1) detailed specifications of prototype building energy models for Italian residential and office buildings that can be adopted by UBEM tools, and (2) a dataset in GeoJSON format of Italian urban buildings compiled from diverse data sources and national standards. Finally, the developed prototype building specifications, the building dataset, and the workflow can be applied to create other building prototypes and to support Italian national building energy efficiency and environmental goals.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Systems Innovation: Modernization & Efficiencies for ESH&Q Reviews

Environmental compliance reviews at INL have traditionally been managed through fragmented systems, relying on multiple spreadsheets and manual processes. This inefficiency led to time-consuming status updates and redundant tasks, such as manually sending reminder emails and transferring data from Excel to the Environmental Review Process (ERP). Initial attempts to streamline these processes using Power Automate and Excel revealed significant limitations, necessitating a more comprehensive solution. To address these immediate inefficiencies, automated workflows were developed using Power Automate. These workflows were designed to send scheduled status update reminders and capture responses through standardized forms, with submitted data flowing directly into centralized Excel trackers. This automation reduced the administrative burden, improved data accuracy, and enabled faster, more consistent reporting. Specifically, email automation achieved a 65% efficiency gain, while data integration saw a 48% improvement, resulting in 91% of project statuses being updated within two months. Despite the improvements brought by Power Automate, the fragmented nature of the review processes persisted. To further enhance efficiency and accuracy, the Integrated Review Tool (IRT) was developed. The IRT aims to centralize review initiation and connect team systems, creating an interconnected data infrastructure that preserves team autonomy while enhancing overall efficiency. This tool automates email reminders, centralizes reviews, and streamlines data integration, significantly improving the accuracy and efficiency of environmental compliance reviews. The design and development of the IRT involved advanced systems methodology, process mapping, project management, and collaboration with subject matter experts. The minimum viable product design is 100% complete, and system development is currently underway, with expected outcomes including a centralized entry point for all ESH&Q reviews, automated routing, real-time tracking and analytics, AI integration, and a user-friendly interface. This project demonstrates the potential of leveraging automation and integrated systems to enhance efficiency, accuracy, and decision-making in environmental reporting and compliance processes at INL.

99 - GENERAL AND MISCELLANEOUS↗

Organic matter concentration and composition of experimentally burned open air and muffle furnace vegetation chars across differing burn severity and feedstock types from Pacific Northwest, USA (v4).

This dataset represents results from an experimental study designed to compare how the chemical composition of organic matter changes across different burn conditions and feedstock materials. The dataset provides both solid and dissolved phase bulk concentration and organic matter characterization data from experimentally generated chars. Chars were created in a closed muffle furnace or on an open burn table from four different feedstock species representing vegetation commonly impacted by fire regimes across the Pacific Northwest, USA. This data can be used to compare how different burn conditions may influence resultant organic matter chemistry and help further our understanding of potential biogeochemical impacts on river corridors post-fire. This dataset is comprised of one data package readme, one data dictionary (dd), one file level metadata (flmd), fourteen burn table videos, burn table video metadata and three folders containing (A) data; (B) metadata and protocols; and (C) photos. The folder names and the file name of the data package readme include a version number which will be updated with future iterations of this data package. The data folder includes (1) solid carbon and solid nitrogen; (2) dissolved organic carbon (DOC, measured as non-purgeable organic carbon, NPOC) and total dissolved nitrogen (TN); (3) pH; (4) thermocouple time series temperature; (5) methods codes; (6) installation methods; (7) excitation emissions matrix (EEM) methods information; (8) a folder of excitation emissions matrix (EEM) fluorescence and absorbance spectra in dissolved organic matter and EEMs processing instructions; (9) solid state carbon-13 and solution state phosphorus nuclear magnetic resonance (13-C NMR and 31-P NMR) data and methods; (10) benzene polycarboxylic acid (BPCA) concentration and stable isotope data; (11) FTICR-MS methods; (12) Inductively coupled plasma (ICP) data for total calcium, magnesium, iron, aluminum, potassium, phosphorus, sodium, and sulfur along with sodium hydroxide-ethylenediaminetetraacetic acid (sodium hydroxide-EDTA) extractable calcium, magnesium, iron, aluminum, potassium, phosphorus, and sulfur; (13) a folder of phosphorus, carbon, and nitrogen X-ray absorption near edge structure (P-XANES, N-XANES, C-XANES) data for samples and standards; (14) P-XANES, N-XANES, C-XANES methods; (15) molybdate reactive phosphorus; and (16) folder of high resolution characterization of organic matter via 21 Tesla Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) generated through the Environmental Molecular Sciences Laboratory (EMSL; https://www.pnnl.gov/environmental-molecular-sciences-laboratory). The FTICR folder contains .txt data files and a subfolder containing instruments for using Formularity (https://omics.pnl.gov/software/formularity) and an R script to process the data based on the user's specific needs. The metadata and protocols folder includes (1) international geo-sample number (IGSN) mapping file (2) burn and laboratory metadata; (3) burn protocol; (4) laboratory protocol; (5) vegetation collection metadata; and (6) vegetation collection protocol. The folder contains photos of the solid chars. All files are .csv, .txt, .pdf, .jpg, .jpeg, .R, .ref, or .mp4. The data package was originally published October 2022 (v1). It was updated April 2023 (v2; new data files), September 2023 (v3; new and corrected data files), and September 2024 (v4; new and added/updated files). Metadata files were also updated to reflect these changes. See the change history section in the readme for more details.

54 ENVIRONMENTAL SCIENCES↗

Radiometric Standards and Best Practices: Recent Progress

International standards and best practices for solar resource assessments provide assurance for traceable measurements associated with a low uncertainty. This benefits the solar energy industry by reducing the investment risks through heightened confidence in the solar resource information. NREL, in collaboration with international organizations, such as subcommittees G03 of ASTM (Radiometry) and TC180/SC1 of ISO (Climate measurement and data), recently revised some standards that are widely used by the solar industry. These include radiometric standards that assist in (i) maintaining calibration traceability; (ii) uncertainty analysis; (iii) measurement quality assurance, and (iv) establishing reference spectral irradiance distributions. The latter are widely used by the solar community to evaluate the actual absorptance, reflectance, and transmittance of solar energy materials, or the performance of solar energy devices and systems, relative to standard conditions. This paper provides a summary of the recent changes brought to these standards as a way to better support the solar energy industry.

industries↗

Search for heavy neutral leptons decaying into muon-pion pairs in the MicroBooNE detector

We present upper limits on the production of heavy neutral leptons (HNLs) decaying to $\mu \pi$ pairs using data collected with the MicroBooNE liquid-argon time projection chamber (TPC) operating at Fermilab. This search is the first of its kind performed in a liquid-argon TPC. We use data collected in 2017 and 2018 corresponding to an exposure of $2.0 \times 10^{20}$ protons on target from the Fermilab Booster Neutrino Beam, which produces mainly muon neutrinos with an average energy of $\approx 800$ MeV. HNLs with higher mass are expected to have a longer time-of-flight to the liquid-argon TPC than Standard Model neutrinos. The data are therefore recorded with a dedicated trigger configured to detect HNL decays that occur after the neutrino spill reaches the detector. We set upper limits at the $90\%$ confidence level on the element $\lvert U_{\mu4}\rvert^2$ of the extended PMNS mixing matrix in the range $\lvert U_{\mu4}\rvert^2<(6.6$-$0.9)\times 10^{-7}$ for Dirac HNLs and $\lvert U_{\mu4}\rvert^2<(4.7$-$0.7)\times 10^{-7}$ for Majorana HNLs, assuming HNL masses between $260$ and $385$ MeV and $\lvert U_{e 4}\rvert^2 = \lvert U_{\tau 4}\rvert^2 = 0$.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Los Alamos National Laboratory Meteorology Monitoring Program: 2019 Data Completeness (Quality Report)

This report summarizes data completeness by tower and by instrument for 2019 and compares that data with the Los Alamos National Laboratory (LANL) and the ANSI/ANS-3.11-2015 standard. This report is designed to make data users aware of data completeness and any data quality issues. LANL meteorology monitoring goals include 95% completeness for all measurements. The ANS 2015 standard requires 90% completeness for all measurements. This report documents instrument/tower issues as they impact data completeness.

54 ENVIRONMENTAL SCIENCES↗

Confronting interacting dark radiation scenarios with cosmological data

Dark radiation (DR) is generally predicted in new physics scenarios that address fundamental puzzles of the Standard Model or tensions in the cosmological data. Cosmological data have the sensitivity to constrain not only the energy density of DR but also whether it is interacting. In this paper, we present a systematic study of five types of interacting DR (free-streaming, fluid, decoupling, instantaneous decoupling, and recoupling DR) and their impact on cosmological observables. We modify the Boltzmann hierarchy to describe all these types of interacting DR under the relaxation time approximation. We, for the first time, robustly calculate the collision terms for recoupling scalar DR and provide a better estimation of the recoupling transition redshift. We demonstrate the distinct features of each type of DR on the cosmic microwave background and matter power spectra. We perform Markov-chain Monte Carlo scans using the Planck 2018 data and baryon acoustic oscillation data. Assuming no new physics in the standard model neutrino sector, we find no statistically significant constraints on the couplings of DR, although there is a slight preference for the fluidlike limit of all the cases. In the case of instantaneous decoupling DR, this limit corresponds to a late transition redshift around recombination. Furthermore, the ΔN eff constraint varies marginally depending on the type of DR.

79 ASTRONOMY AND ASTROPHYSICS↗

Eastern North Atlantic Aerosol Mask (ENA-AM) with the Condensation Particle Counter (CPC) at Central Facility (C1) during Summer 2017

Eastern North Atlantic (ENA) Aerosol Mask (ENA-AM) is a mask developed to isolate high concentration aerosol events and identify the regional baseline in one minute time resolution CPC measurements collected at ENA central site during summer 2017(July 22 to August 20). ENA-AM is based on the statistically different behavior of adjacent data points during background and pollution peaks measurements. Measurements that differ by more than &alpha; times the standard deviation (&sigma;m) of the data below the median plus the two points after are masked by ENA-AM.

54 ENVIRONMENTAL SCIENCES↗

Eastern North Atlantic Aerosol Mask (ENA-AM) with the Condensation Particle Counter (CPC) at Central Facility (C1) during Winter 2017

Eastern North Atlantic (ENA) Aerosol Mask (ENA-AM) is a mask developed to isolate high concentration aerosol events and identify the regional baseline in one minute time resolution CPC measurements collected at ENA central site during Winter 2017(December 1-30). ENA-AM is based on the statistically different behavior of adjacent data points during background and pollution peaks measurements. Measurements that differ by more than &alpha; times the standard deviation (&sigma;m) of the data below the median plus the two points after are masked by ENA-AM.

54 ENVIRONMENTAL SCIENCES↗

Eastern North Atlantic Aerosol Mask (ENA-AM) with the Condensation Particle Counter (CPC) at Supplementary Facility (S01)

Eastern North Atlantic (ENA) Aerosol Mask (ENA-AM) is a mask developed to isolate high concentration aerosol events and identify the regional baseline in one minute time resolution CPC measurements collected at the ENA supplementary site (S1) during summer (July 22 to August 20) 2017. ENA-AM is based on the statistically different behavior of adjacent data points during background and pollution peaks measurements. Measurements that differ by more than &alpha; times the standard deviation (&sigma;m) of the data below the median plus the two points after are masked by ENA-AM.

54 ENVIRONMENTAL SCIENCES↗

Search for a massive scalar resonance decaying to a light scalar and a Higgs boson in the four b quarks final state with boosted topology

We search for new massive scalar particles X and Y through the resonant process X→YH→$b\bar{b}b\bar{b}$, where H is the standard model Higgs boson. Data from CERN LHC proton-proton collisions are used, collected at a centre-of-mass energy of 13 TeV in 2016–2018 and corresponding to an integrated luminosity of 138 fb -1 . The search is performed in mass ranges of 0.9–4 TeV for X and 60–600 GeV for Y, where both Y and H are reconstructed as Lorentz-boosted single large-area jets. The results are interpreted in the context of the next-to-minimal supersymmetric standard model and also in an extension of the standard model with two additional singlet scalar fields. The 95% confidence level upper limits for the production cross section vary between 0.1 and 150 fb depending on the X and Y masses, and represent a significant improvement over results from previous searches.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Nondestructive Assay Technical Infrastructure Program Mission and Vision

The Nondestructive Assay Program (NDAP) mission and vision is achieved by identifying and accomplishing a set of programmatic goals that correspond with eight broad technical program elements. The NDAP was created as a result of Defense Nuclear Facility Safety Board Recommendation 2007-1, entitled “Safety-Related In Situ Nondestructive Assay of Radioactive Materials,” which emphasized the need to improve in situ measurements of radioactive material at US Department of Energy (DOE) defense nuclear facilities. An NDAP five-year plan will define tasks to accomplish specific goals identified in the NDAP mission and vision. This mission and vision is applicable for eight technical program elements: Hardware/Software Development, Algorithm Development and Nuclear Data, Uncertainty Quantification, Nuclear Materials, Staffing, Personnel, And Training, Data Management, Requirement and Standards, and Information Preservation and Dissemination. An additional program element is technical support, which provides daily execution management support for the NDAP, site scope, and deliverable tracking via site task managers, along with technical advisement and support from the technical support group. The NDAP mission and vision provides attributes with specific goals for each program element, and some goals benefit multiple program elements. The goals and attributes defined herein are implemented via an NDAP five-year execution plan that defines site work scope, budget, and deliverables, all of which are updated annually. The NDAP is designed to benefit nondestructive assay (NDA) needs to support DOE nuclear criticality safety programs, ensuring that NDA technology is sufficiently capable of guaranteeing the safety of those who handle, store, process, or transport fissionable materials in the complex. Especially important for the NDAP is to maximize capabilities to identify, characterize, and manage in situ fissile material deposits in process equipment to ensure nuclear criticality safety at processing facilities.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Search for electroweak production of a vector-like T quark using fully hadronic final states

A search is performed for electroweak production of a vector-like top quark partner T of charge 2/3 in association with a top or bottom quark, using proton-proton collision data at $\sqrt{s} =$ 13 TeV collected by the CMS experiment at the LHC in 2016. The data sample corresponds to an integrated luminosity of 35.9 fb$^{-1}$. The search targets T quarks over a wide range of masses and fractional widths, decaying to a top quark and either a Higgs boson or a Z boson in fully hadronic final states. The search is performed using two experimentally distinct signatures that depend on whether or not each quark from the decays of the top quark, Higgs boson, or Z boson produces an individual resolved jet. Jet substructure, b tagging, and kinematic variables are used to identify the top quark and boson jets, and also to suppress the standard model backgrounds. The data are found to be consistent with the expected backgrounds. Upper limits at 95% confidence level are set on the cross sections for T quark-mediated production of tHQq, tZQq, and their sum, where Q is the associated top or bottom heavy quark and q is another associated quark. The limits are given for each search signature for various T quark widths up to 30% of the T quark mass, and are between 2 pb and 20 fb for T quark masses in the range 0.6-2.6 TeV. These results are significantly more sensitive than prior searches for electroweak single production of T$\to$tH and represent the first constraints on T$\to$tZ using hadronic decays of the Z boson with this production mode.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗