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At least 1,279 records · Page 71
All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

National serosurvey and risk mapping reveal widespread distribution of Coxiella burnetii in Kenya

Coxiella burnetii, the causative agent of Q fever, is an emerging pathogen that has the potential to cause severe chronic infections in animals and humans worldwide. The detrimental impact on public health is projected to be higher in the low- and middle-income countries given their lower capacity to sustain effective surveillance and response measures. We implemented a national serosurvey of cattle in Kenya to map the spatial distribution of the pathogen. The study used serum samples that were collected from randomly selected cattle in different ago-ecological zones across the country. These samples were screened for the pathogen using PrioCHECK Ruminant Q Fever AB Plate ELISA kit. The laboratory findings were analyzed using INLA package to identify risk factors for C. burnetii exposure from herd- and animal-level factors, area, and bioclimatic datasets accessed from online databases. A total of 6,593 cattle were recruited for the study; of these, 7.9% (95% CI; 7.2–8.5) were seropositive. Outputs from the multivariable analysis revealed that the animal age and some of the geographical variables including wind speed, area under shrubs and “petric calcisols” type of soil were significantly associated with C. burnetii seropositivity. Being a calf, weaner or subadult was associated with lower odds of exposure compared to being an adult by 0.24 (credibility interval: 2.5% and 97.5%), 0.41 (0.30–0.55) and 0.51 (0.38–0.69), respectively. In addition, a unit increase in the wind speed increased the odds of C. burnetii seropositivity by 1.27 (1.05–1.52) while an increase on the land area under shrubs was associated with lower odds of exposure (0.67 [0.47–0.69]). The effect of petric calcisols was non-linear; an increase of the land area with this soil type was associated with an exponential increase in C. burnetii seropositivity. This study provides new data on C. burnetii seroprevalence, information of its risk factors and a prevalence map that can be used for C. burnetii risk surveillance and control. The identification of environmental risk factors for C. burnetii exposure, and the increasing awareness of the zoonotic potential of the pathogen, calls for the need to enhance the existing collaborations for the surveillance and control of C. burnetii in line with the One Health framework. The evidence generated on the potential role of environmental factors can also be used to design nature-based interventions, such as replacement of vegetation in denuded areas, to reduce potential for the aerosolization of the pathogen. Livestock vaccination in the hotspots would also reduce animal infections and hence the contamination of the environment.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2025

An Application of Molecular Recognition for the Efficient Removal of Cesium from Hanford Nuclear Waste by Modular Solvent Extraction

In this work, experimental results leading to flowsheet design are presented showing how a calixarene-crown ether based solvent-extraction process can meet the challenge of cesium removal from nuclear tank wastes stored at the US Department of Energy Hanford site. Cleanup of legacy Cold War nuclear waste stored in underground tanks represents one of the greatest environmental challenges facing the US Department of Energy in terms of risk, cost, and effectiveness of applicable science and technology. Planning for the cleanup at the Hanford Site calls for the removal of the radioactive fission product 137Cs from its alkaline salt waste, including the use of modular processes that can be deployed near the tank farms. To meet the resulting need for extremely high selectivity, the Next-Generation Caustic-Side Solvent Extraction (NG-CSSX) process employing a calix[4]arene-crown ether in modified kerosene has been adapted to remove sub-millimolar cesium in competition with molar sodium and potassium in a high-nitrate alkaline matrix. Potassium loading in the solvent was determined in extraction, scrubbing, and stripping, leading to an empirical model closely approximating cesium distribution ratios for a variety of Hanford waste types. Process chemistry has been developed based on this molecular-recognition approach, focusing on the competitive effect of potassium loading and the mitigating process modifications needed, including extending the scrub section. The result is a modular flowsheet design that can achieve cesium decontamination factors well in excess of 15,000 even for the worst-case Hanford waste.

Williams, Neil [ORNL] (ORCID:000000023159226X)↗
DOE OSTI2025

Reconstructing Hanford worker external doses from photons for epidemiology

The accurate reconstruction of external photon doses is essential for credible radiation epidemiology. This article presents the methodology used to derive dose estimates for 37 012 Hanford Site workers included in the Million Person Study. The approach employs historical dose records from the Hanford Radiation Exposure database and a previous epidemiology study. Bias correction factors specific to dosimeter type and period of use were applied and missing annual doses were estimated using a hierarchical nearby method to estimate deep dose equivalent for each worker. For early years with limited detection sensitivity, missed doses were quantified based on expected time-period-specific, low-dose statistical distributions. The revised dose estimates resulted in lower median and mean career doses than unadjusted data, while increasing the number of person-years with nonzero dose. Sensitivity analyses assessed the influence of bias in dosimetry measurements, missed doses and gap years on dose estimates. Differences in cumulative dose estimates between unadjusted and revised annual estimates are most prominent in the early operational years due to the highest bias during that time period.

dose reconstruction↗
DOE OSTI2021

Mass calibration of distant SPT galaxy clusters through expanded weak-lensing follow-up observations with HST, VLT, & Gemini-South

Expanding from previous work, we present weak-lensing (WL) measurements for a total sample of 30 distant (z median = 0.93) massive galaxy clusters from the South Pole Telescope Sunyaev–Zel’dovich (SPT-SZ) Survey, measuring galaxy shapes in Hubble Space Telescope (HST) Advanced Camera for Surveys images. We remove cluster members and preferentially select z ≳ 1.4 background galaxies via V - I colour, employing deep photometry from VLT/FORS2 and Gemini-South/GMOS. We apply revised calibrations for the WL shape measurements and the source redshift distribution to estimate the cluster masses. In combination with earlier Magellan/Megacam results for lower-redshifts clusters, we infer refined constraints on the scaling relation between the SZ detection significance and the cluster mass, in particular regarding its redshift evolution. The mass scale inferred from the WL data is lower by a factor $0.76^{+0.10}_{-0.14}$ (at our pivot redshift z = 0.6) compared to what would be needed to reconcile a flat Planck νΛCDM cosmology (in which the sum of the neutrino masses is a free parameter) with the observed SPT-SZ cluster counts. In order to sensitively test the level of (dis-)agreement between SPT clusters and Planck, further expanded WL follow-up samples are needed.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2026

Performance-Aligned LLMs for Generating Fast HPC Code

Optimizing scientific software is a difficult task because codebases are often large and complex, and performance can depend upon several factors including the algorithm, its implementation, and hardware among others. Causes of poor performance can originate from disparate sources and be difficult to diagnose. Recent years have seen a multitude of work that use large language models (LLMs) to assist in software development tasks. However, these tools are trained to model the distribution of code as text, and are not specifically designed to understand performance aspects of code. In this work, we introduce a reinforcement learning based methodology to align the outputs of code LLMs with performance. This allows us to build upon the current code modeling capabilities of LLMs and extend them to generate better performing code. Here, we demonstrate that our fine-tuned model improves the expected speedup of generated code over base models for a set of benchmark tasks from 0.9 to 1.6 for serial code and 1.9 to 4.5 for OpenMP parallel code.

Computer science↗
DOE OSTI2020

Electron beam injection from a hollow cathode plasma into a downstream reactive environment: Characterization of secondary plasma production and Si 3 N 4 and Si etching

A material etching system was developed by combining beam electron injection from a direct current (DC) hollow-cathode (HC) electron source with the downstream reactive environment of a remote CF 4 /O 2 low temperature plasma. The energy of the injected beam electrons is controlled using an acceleration electrode biased positively relative to the HC Argon discharge. For an acceleration voltage greater than the ionization potential of Ar, the extracted primary electrons can produce a secondary plasma in the process chamber. We characterized the properties of the secondary plasma by performing Langmuir probe measurements of the electron energy probability function (EEPF) 2.5 cm below the extraction ring. The data indicate the existence of two major groups of electrons, including electrons with a primary beam electron energy which varies as the acceleration voltage is varied, along with low energy electrons produced by ionization of the Ar gas atoms in the process chamber by the injected beam electrons. When combining the HC Ar beam electron with a remote CF 4 /O 2 electron cyclotron wave resonance (ECWR) plasma, the EEPF of both the low energy plasma electron and beam electron components decreases. Additionally, we studied surface etching of Si3N4 and poly-crystalline Si (poly-Si) thin films as a function of process parameters, including the acceleration voltage (0-70 V), discharge current of the HC discharge (1-2 A), pressure (2- 100 mTorr), source to substrate distance (2.5 to 5 cm), and feed gas composition (with or without CF 4 /O 2 ). The direction of the incident beam electrons was perpendicular to the surface. Si 3 N 4 and poly-crystalline silicon etching are seen and indicate an electronneutral synergy effect. No/little remote plasma spontaneous etching was observed for the conditions used in this study, and the etching is confined to the substrate area irradiated by the injected beam electrons. The electron etched Si 3 N 4 surface etching rate profile distribution is confined within a ~30 mm diameter circle, which is slightly broader than the area for which poly-Si etching is seen, and coincides closely with the spatial profile of beam electrons as determined by the Langmuir probe measurements. The magnitude of poly-Si etching rate is by a factor of two times smaller than the Si 3 N 4 etching rate. In this paper, we discuss possible explanations of the data and the role of surface charging.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2020

Physico-chemical properties of lignin fractions from acid pretreated corn stover and their effects on enzymatic hydrolysis of microcrystalline cellulose

Lignin has been shown to be a recalcitrance factor in many biomass conversion studies. To better understand the effects of lignin on cellulose conversion, different lignin fractions were extracted from the same dilute acid pretreated corn stover by three sequential isolation methods, namely ethanol extraction, dioxane extraction, and enzyme purification. The physicochemical properties of each lignin fraction including molecular weight distribution, surface area, surface charge, and other structural features varied, depending on the isolation methods. All three lignin fractions had negative surface charges, and ethanol-extracted lignin carried the highest surface charges, followed by dioxane-extracted lignin and cellulase-purified residual lignin. These physicochemical properties of lignin fractions also resulted in different extent of inhibitory effects on enzymatic hydrolysis of microcrystalline cellulose (MCC). Dioxane-extracted lignin exhibited the highest inhibitory effect on glucose release from MCC, followed by the cellulase-purified residual lignin fraction and ethanol-extracted lignin. Furthermore, lignin fractions with higher contents of syringyl (S) substructure and β-O-4 aryl ether interunit linkages showed a stronger negative effect on cellulase hydrolysis of MCC.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2026

Continual Learning for Particle Accelerators

Particle accelerators operate under dynamically changing conditions, which often lead to data distribution drifts. These drifts pose significant challenges for Machine Learning (ML) models, which typically fail to maintain performance when faced with such non-stationary data. In particle accelerators, the primary sources of these data drifts include changes in accelerator settings and non-measured parameters such as machine degradation and environmental factors. Previous research has proposed conditional models to handle multiple beam configurations effectively; however, it is challenging to train the ML models on all possible configuration settings. Additionally, conditional models alone can not address performance degradation caused by drifts due to non-measured factors. These limitations contribute to a significant gap between ML development and its deployment in real-world operational settings. To bridge this gap, in this paper, we identify some of the key areas within particle accelerators where continual learning can help mitigate drift-induced performance degradation. In addition, we present a practical use case where a conditional Auto-Encoder model coupled with memory-based continual learning has been employed to demonstrate stable performance even when underlying data drifts.

Schram, Malachi [Thomas Jefferson National Acceler↗
DOE OSTI2026

Continual Learning for Particle Accelerators

Particle accelerators operate under dynamically changing conditions, which often lead to data distribution drifts. These drifts pose significant challenges for Machine Learning (ML) models, which typically fail to maintain performance when faced with such non-stationary data. In particle accelerators, the primary sources of these data drifts include changes in accelerator settings and non-measured parameters such as machine degradation and environmental factors. Previous research has proposed conditional models to handle multiple beam configurations effectively; however, it is challenging to train the ML models on all possible configuration settings. Additionally, conditional models alone can not address performance degradation caused by drifts due to non-measured factors. These limitations contribute to a significant gap between ML development and its deployment in real-world operational settings. To bridge this gap, in this paper, we identify some of the key areas within particle accelerators where continual learning can help mitigate drift-induced performance degradation. In addition, we present a practical use case where a conditional Auto-Encoder model coupled with memory-based continual learning has been employed to demonstrate stable performance even when underlying data drifts

Rajput, Kishansingh [Thomas Jefferson National Acc↗
DOE OSTI2021

Environmental harshness mediates the relationship between aboveground and belowground communities in Antarctica

Linkages between aboveground and belowground communities are a key but globally under-researched component of responses to environmental change. Given the logistical complications to studying these relationships, much of our knowledge derives from laboratory experiments and localized field studies which have so far yielded inconsistent results. Because environmental factors may alter relationships between above- and belowground communities, there is a need for broad-scale field studies testing these interactions. The Antarctic Peninsula provides an ideal test setting, given the relatively simple communities both above- and belowground. The Peninsula is also experiencing rapid environmental changes, including alterations in species diversity and distribution both above- and belowground. Thus, an improved understanding of the broad-scale consequences of altered environments and vegetation communities for the soil microbiome is of high priority. To determine the nature and strength of the relationship between in situ plant and soil communities across a broad spatial scale and range of environmental conditions, we sampled soil communities at 9 locations (spanning 60–72°S along the Scotia Arc and Antarctic Peninsula) beneath the major aboveground habitats (moss, grass, lichen, algae and bare soil). We measured a comprehensive suite of soil physicochemical properties, microbial (bacterial and fungal) diversity and composition, and invertebrate abundance and community composition to determine the relationships between plant and soil communities. Furthermore, our results suggest that, with increased environmental severity, plant cover types become more important for influencing the physicochemical soil environment, and therefore the soil microbial communities. Although we found site-specific relationships, broad-scale patterns reveal significant differences among bare soils and vegetated soils, particularly soils beneath grass and moss. This suggests that expansion of vegetation communities under current climate warming projections will be accompanied by shifts in the soil microbiome, with important implications for the ecosystem functioning with which they are associated.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Geophysical Monitoring Shows that Spatial Heterogeneity in Thermohydrological Dynamics Reshapes a Transitional Permafrost System

Climate change is causing rapid changes of Arctic ecosystems. Yet, data needed to unravel complex subsurface processes are very rare. Using geophysical and in-situ sensing, this study closes an observational gap associated with thermohydrological dynamics in discontinuous permafrost systems. It highlights the impact of vegetation and snow thickness distribution on subsurface thermohydrological properties and processes. Large snow accumulation near tall shrubs insulates the ground and allows for rapid and downward heat flow. Thinner snowpack above graminoid results in surficial freezing and prevents water from infiltrating into the subsurface. Analyzing short term disturbances, we found that lateral flow could be a driving factor in talik formation. Inter-annual measurements show that deep permafrost temperatures increased by about 0.2°C over two years. The results, which suggest that snow-vegetation-subsurface processes are tightly coupled, will be useful for improving predictions of Arctic feedback to climate change, including how subsurface thermohydrology influences CO 2 and CH 4 fluxes.

58 GEOSCIENCES↗
DOE OSTI2026

Radiative divertor detachment and impurity transport with nitrogen and neon seeding in KSTAR H-mode plasmas

Achieving core-edge compatible divertor detachment is a critical requirement for stable operation in future fusion devices. This study compares nitrogen and neon seeding in KSTAR H-mode plasmas with carbon walls, combining experiments and SOLPS-ITER modelling to evaluate their radiative dissipation and core-edge compatibility. Experimentally, N seeding achieved stronger divertor detachment, with larger reductions in target particle and heat fluxes, a higher divertor radiation fraction, and a lower core radiation fraction than Ne. In contrast, Ne seeding triggered a significant rise in core radiation followed by H–L back transitions, limiting the maximum total radiated power fraction to roughly half that of N. SOLPS-ITER simulations reproduced the experimental trends and revealed that the better core-edge compatibility of N arises from its higher divertor retention in addition to its higher cooling factor. The relative positions of the stagnation points of impurity poloidal velocity and ionization sources did not explain the different divertor compression. Instead, in the present modelling, the higher impurity parallel particle flux, resulting from the higher parallel impurity velocity, explains the stronger nitrogen impurity compression in the divertor region. The parallel temperature distribution with N was more favourable for achieving higher impurity parallel velocity than with Ne, because the impurity velocity is governed by modifications of the main ion flow due to friction and thermal forces, both of which strongly depend on the temperature. Ultimately, this behaviour is attributed to the strongly divertor-localized radiation of N. These results demonstrate that N is more effective than Ne in achieving radiative divertor detachment while maintaining low core contamination in KSTAR, consistent with observations in other present tokamaks.

KSTAR↗
DOE OSTI2021

Optimal Bayesian supervised domain adaptation for RNA sequencing data

Abstract Motivation When learning to subtype complex disease based on next-generation sequencing data, the amount of available data is often limited. Recent works have tried to leverage data from other domains to design better predictors in the target domain of interest with varying degrees of success. But they are either limited to the cases requiring the outcome label correspondence across domains or cannot leverage the label information at all. Moreover, the existing methods cannot usually benefit from other information available a priori such as gene interaction networks. Results In this article, we develop a generative optimal Bayesian supervised domain adaptation (OBSDA) model that can integrate RNA sequencing (RNA-Seq) data from different domains along with their labels for improving prediction accuracy in the target domain. Our model can be applied in cases where different domains share the same labels or have different ones. OBSDA is based on a hierarchical Bayesian negative binomial model with parameter factorization, for which the optimal predictor can be derived by marginalization of likelihood over the posterior of the parameters. We first provide an efficient Gibbs sampler for parameter inference in OBSDA. Then, we leverage the gene-gene network prior information and construct an informed and flexible variational family to infer the posterior distributions of model parameters. Comprehensive experiments on real-world RNA-Seq data demonstrate the superior performance of OBSDA, in terms of accuracy in identifying cancer subtypes by utilizing data from different domains. Moreover, we show that by taking advantage of the prior network information we can further improve the performance. Availability and implementation The source code for implementations of OBSDA and SI-OBSDA are available at the following link. https://github.com/SHBLK/BSDA. Supplementary information Supplementary data are available at Bioinformatics online.

Biochemistry & Molecular Biology↗
DOE OSTI2026

Measurement of medium-induced acoplanarity in central Au-Au and 𝑝⁢𝑝 collisions at $\sqrt{s_{NN}}$ = 200 GeV using direct-photon + jet and 𝜋 0 + jet correlations

The STAR Collaboration reports measurements of acoplanarity using semi-inclusive distributions of charged-particle jets recoiling from direct photon and 𝜋 0 triggers, in central Au–Au and 𝑝⁢𝑝 collisions at $\sqrt{s_{NN}}$ = 200 GeV. Significant medium-induced acoplanarity broadening is observed for large but not small recoil jet resolution parameter, corresponding to recoil jet yield enhancement up to a factor of ≈ 20 for trigger-recoil azimuthal separation far from 𝜋. This phenomenology is indicative of the response of the quark-gluon plasma to excitation, but not the scattering of jets off of its quasiparticles. As a result, the measurements are not well described by current theoretical models which incorporate jet quenching.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2020

A Radiative Transfer Model for Patchy Landscapes Based on Stochastic Radiative Transfer Theory

The availability of global high-resolution land cover maps provides promising a priori knowledge for characterizing subpixel heterogeneity and improving predictions of directional reflectance of coarse-resolution pixels. Due to mutual shadowing and sheltering effects between the adjacent forest and cropland patches, the spectral nonlinear mixing of patchy ecotones is significant, especially when the sun illuminates the ecotone from the forest side with high solar zenith angle. The spectral linear mixture (SLM) approach leads to overestimation of the bidirectional reflectance factor (BRF) in the red band in the principal plane (PP), with a maximum absolute error (MAE) of 0.0063 and a maximum relative error (MRE) of 52.5%, and to underestimation in the near-infrared band in PP with an MAE of 0.0940 and an MRE of 14.5%. In a scenario with randomly distributed boundary orientations, the overestimation of SLM increases with the degree of fragmentation and the view zenith angle. We propose a Radiative Transfer model for patchy ECotones (RTEC). which improves R² from 0.61 to 0.94 in the red band of Landsat-8 directional reflectance at the validation site. The RTEC model provides an efficient and analytical approach for directional reflectance predictions over heterogeneous patchy landscapes at coarse resolution and will be used for biophysical parameter retrievals [e.g., the leaf area index (LAI)] in future applications.

Zeng, Yelu↗
DOE OSTI2023

Newly Released Capabilities in the Distributed-Memory SuperLU Sparse Direct Solver

We present the new features available in the recent release of SuperLU_DIST, Version 8.1.1. SuperLU_DIST is a distributed-memory parallel sparse direct solver. The new features include (1) a 3D communication-avoiding algorithm framework that trades off inter-process communication for selective memory duplication, (2) multi-GPU support for both NVIDIA GPUs and AMD GPUs, and (3) mixed-precision routines that perform single-precision LU factorization and double-precision iterative refinement. Apart from the algorithm improvements, we also modernized the software build system to use CMake and Spack package installation tools to simplify the installation procedure. Throughout the article, we describe in detail the pertinent performance-sensitive parameters associated with each new algorithmic feature, show how they are exposed to the users, and give general guidance of how to set these parameters. We illustrate that the solver’s performance both in time and memory can be greatly improved after systematic tuning of the parameters, depending on the input sparse matrix and underlying hardware.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

Clean Energy Co-Benefits: Air Quality, Health and Just Energy Transitions

Outdoor air pollution is a leading environmental risk factor and contributes to public health concerns. With assistance from the Department of State, NREL researchers supported the expansion of the Intervention Model for Air Pollution (InMAP) to Global InMAP model. This model offers a new approach to estimating the human health impacts caused by air pollutant emissions and how those impacts are distributed across populations around the world. Further research sponsored by the U.S. Agency for International Development (USAID) and executed by NREL and the University of Minnesota applied the Global InMAP Model for the first time in a study of the effects of renewable electricity deployment on air quality and human health in Southeast Asia. This brief details the inception, application, and novel approach of the Global InMAP model, and more broadly NREL's capabilities for air quality modeling and health effects co-benefits analyses in the context of just energy transitions.

air quality↗
DOE OSTI2022

DenKv: Addressing Design Trade-offs of Key-value Stores for Scientific Applications

High-performance computing (HPC) facilities have employed flash-based storage tier near to compute nodes to absorb high I/O demand by HPC applications during periodic system-level checkpoints. To accelerate these checkpoints, proxy-based distributed key-value stores (PD-KVS) gained particular attention for their flexibility to support multiple backends and different network configurations. PD-KVS rely internally on monolithic KVS, such as LevelDB or RocksDB, to exploit the KV interface and query support. However, PD-KVS are unaware of the high redundancy factor in checkpoint data, which can be up to GBs to TBs, and therefore, tend to generate high write and space amplification on these storage layers. In this paper, we propose DenKv which is deduplication-extended node-local LSM-tree-based KVS. DenKv employs asynchronous partially inline dedup (APID) and aims to maintain the performance characteristics of LSM-tree-based KVS while reducing the write and space amplification problems. We implemented DenKv atop BlobDB and showed that our proposed solution maintains performance while reducing write amplification up to 2× and space amplification by 4× on average.

Khan, Awais↗