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At least 451 records · Page 25

Thermodynamics and its prediction and CALPHAD modeling: Review, state of the art, and perspectives

Thermodynamics is a science concerning the state of a system, whether it is stable, metastable, or unstable, when interacting with its surroundings. The combined law of thermodynamics derived by Gibbs about 150 years ago laid the foundation of thermodynamics. In Gibbs combined law, the entropy production due to internal processes was not included, and the 2nd law was thus practically removed from the Gibbs combined law, so it is only applicable to systems under equilibrium, thus commonly termed as equilibrium or Gibbs thermodynamics. Gibbs further derived the classical statistical thermodynamics in terms of the probability of configurations in a system in the later 1800's and early 1900's. With the quantum mechanics (QM) developed in 1920's, the QM-based statistical thermodynamics was established and connected to classical statistical thermodynamics at the classical limit as shown by Landau in the 1940's. In 1960's the development of density functional theory (DFT) by Kohn and co-workers enabled the QM prediction of properties of the ground state of a system. On the other hand, the entropy production due to internal processes in non-equilibrium systems was studied separately by Onsager in 1930's and Prigogine and co-workers in the 1950's. In 1960's to 1970's the digitization of thermodynamics was developed by Kaufman in the framework of the CALculation of PHAse Diagrams (CALPHAD) modeling of individual phases with internal degrees of freedom. CALPHAD modeling of thermodynamics and atomic transport properties has enabled computational design of complex materials in the last 50 years. Our recently termed zentropy theory integrates DFT and statistical mechanics through the replacement of the internal energy of each individual configuration by its DFT-predicted free energy. The zentropy theory is capable of accurately predicting the free energy of individual phases, transition temperatures and properties of magnetic and ferroelectric materials with free energies of individual configurations solely from DFT-based calculations and without fitting parameters, and is being tested for other phenomena including superconductivity, quantum criticality, and black holes. Those predictions include the singularity at critical points with divergence of physical properties, negative thermal expansion, and the strongly correlated physics. Furthermore, those individual configurations may thus be considered as the genomic building blocks of individual phases in the spirit of the materials genome®. This has the potential to shift the paradigm of CALPHAD modeling from being heavily dependent on experimental inputs to becoming fully predictive with inputs solely from DFT-based calculations and machine learning models built on those calculations and existing experimental data through newly developed and future open-source tools. Furthermore, through the combined law of thermodynamics including the internal entropy production, it is shown that the kinetic coefficient matrix of independent internal processes is diagonal with respect to the conjugate potentials in the combined law, and the cross phenomena that the phenomenological Onsager flux and reciprocal relationships are due to the dependence of the conjugate potential of a molar quantity on nonconjugate molar quantities and other potentials, which can be predicted by the zentropy theory and CALPHAD modeling.

42 ENGINEERING↗

Data for Zheng et al. (2025), "AquaMEND: Reconciling multiple impacts of salinization on soil carbon biogeochemistry"

Soil salinization, exacerbated by climate change, poses a global threat to coastal ecosystems and soil function. Salinity affects soil carbon cycling by directly impacting microbial activity and indirectly altering soil physicochemical properties, but current models inadequately represent these complexities. This dataset contains the observational and modeling data from Zheng et al. (2025), which described a process-based modeling framework that couples soil solution chemistry with microbial carbon cycling reactions to study the impacts of soil salinization. This conceptual model is implemented numerically into the open-source geochemical program PHREEQC 3.0 (Parkhurst and Appelo, 2013). This dataset consists of: - Figure2_AquaMEND_salinity_buffer: Contains model simulation outputs to assess the impact of three different cation exchange and surface complexation processes on salinity buffering (Fig. 2 from Zheng et al. 2025). - Figure3_Salinity_function: Contains salinity function fitting for literature data (Fig. 3 from Zheng et al. 2025). - Figure4_AquaMEND_microbial_mechanisms: Contains model simulation outputs for testing various microbial process-based hypotheses related to soil salinization, including microbial mortality, carbon use efficiency (CUE), extracellular enzyme activity, and other microbial mechanisms (Fig. 4 from Zheng et al. 2025). - Figure5_AquaMEND_Redox: Contains on model simulation outputs to evaluate shifts among key redox processes, such as aerobic respiration, sulfate reduction, and methanogenesis (Fig.5 from Zheng et al. 2025). - Figure6_AquaMEND_sorption: Contains on model simulation outputs for investigating the effects of salinity on dissolved organic matter (DOM) sorption and desorption processes (Fig. 6 from Zheng et al. 2025). - Figure7_AquaMEND_process_couple: Contains on model simulation outputs for exploring coupled biotic-abiotic processes and their interactions (Fig. 7 from Zheng et al. 2025). - data: Includes datasets used to develop salinity response functions and evaluate salinity buffering capacity. Datasets for MEND model calibration. - database: Contains the `.dat` file required by PHREEQC for model execution. - README.md: A Markdown plain text file describing the computational tools and directories. Files are a mixture of plain text CSV (comma-separated value) and plain text *.dat files written by the model; no special software is required to read them.

EARTH SCIENCE > AGRICULTURE > SOILS > SOIL SALINIT↗

Atomic-Scale Characterization of Dilute Dopants in Topological Insulators via STEM–EDS Using Registration and Cell Averaging Techniques

Magnetic dopants in three-dimensional topological insulators (TIs) offer a promising avenue for realizing the quantum anomalous Hall effect (QAHE) without the necessity for an external magnetic field. Understanding the relationship between site occupancy of magnetic dopant elements and their effect on macroscopic property is crucial for controlling the QAHE. By combining atomic-scale energy-dispersive X-ray spectroscopy (EDS) maps obtained by aberration-corrected scanning transmission electron microscopy (AC-STEM) and novel data processing methodologies, including semi-automatic lattice averaging and frame registration, we have determined the substitutional sites of Mn atoms within the 1.2% Mn-doped Sb 2 Te 3 crystal. More importantly, the methodology developed in this study extends beyond Mn-doped Sb 2 Te 3 to other quantum materials, traditional semiconductors, and even electron irradiation sensitive materials.

36 MATERIALS SCIENCE↗

Population-level Dark Energy Constraints from Strong Gravitational Lensing using Simulation-Based Inference

In this work, we present a scalable approach for inferring the dark energy equation-of-state parameter ($w$) from a population of strong gravitational lens images using Simulation-Based Inference (SBI). Strong gravitational lensing offers crucial insights into cosmology, but traditional Monte Carlo methods for cosmological inference are computationally prohibitive and inadequate for processing the thousands of lenses anticipated from future cosmic surveys. New tools for inference, such as SBI using Neural Ratio Estimation (NRE), address this challenge effectively. By training a machine learning model on simulated data of strong lenses, we can learn the likelihood-to-evidence ratio for robust inference. Our scalable approach enables more constrained population-level inference of $w$ compared to individual lens analysis, constraining $w$ to within $1\sigma$.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Initial Uncertainty Analysis of Carbon Tetrachloride Contamination and Remediation in the Ringold A and Lower Mud Units at the Central Plateau

The long-term effectiveness of groundwater cleanup at the Hanford Site Central Plateau depends on predictive models that can capture key uncertainties in contaminant fate and transport. Carbon tetrachloride (CCl 4 ), a persistent and toxic compound, presents particular challenges due to variability in degradation rates, uncertainty in initial plume distribution, and subsurface heterogeneity. These uncertainties directly influence plume persistence, migration pathways, and remedy performance, and thus must be systematically evaluated to support long-term remediation planning. To address these gaps, a large-scale Monte Carlo analysis was conducted using the Plateau to River (P2R) model framework. The modeling approach parameterized three primary uncertainty factors: (1) degradation rate, (2) initial plume distribution, and (3) hydraulic conductivity. Degradation was represented as a first-order process, with half-lives ranging from 70 to 700 years. Initial plume distributions were created using a geostatistical simulation method (sgsim), which generates many equally plausible versions of how contaminants might be distributed underground. From this, 100 different scenarios were mapped onto the P2R grid. Variability in hydraulic conductivity was represented in a similar way, with 100 scenarios each for the Ringold Lower Mud and Ringold A units (layers 6 and 7), based on fitted exponential variograms and conditioned to well data. In total, more than 1000 realizations were simulated to assess plume behavior under uncertainty. Results demonstrate that degradation kinetics exert the strongest control over plume persistence: Shorter half-lives produced rapid mass reduction, while longer half-lives yielded persistent plumes with limited attenuation. A nonlinear response was observed, with steep mass reductions at half-lives greater than 200 years and near-linear declines beyond this threshold, reflecting interactions between degradation and pumping. The initial plume distribution strongly influenced early transport patterns, with broader sources generating larger plume footprints, although pump-and-treat operations constrained plume migration to managed areas. By comparison, hydraulic conductivity variability in the Ringold units had only a secondary influence, modifying spreading behavior without altering the dominant migration pathways governed by source configuration and hydraulic controls. Overall, the analysis highlights that uncertainty in degradation rate and initial plume configuration are the primary drivers of variability in plume predictions, while conductivity heterogeneity plays a limited role. These findings underscore the need for improved site-specific data on degradation processes and source characterization to enhance the reliability of long-term performance assessments and to better inform remedial decision-making at the Central Plateau.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Human Lung Fibroblast Response to HCoV-229E Infection, Top-down Proteomics of Histones (ACS-TZ-DP7)

The purpose of this experiment was to evaluate the human host cellular response to wild type human coronavirus strain 229E (HCoV-229E) infection, specifically how histones are modified following infection. Sample data was obtained from mock-infected and HCoV-229E-infected immortalized human lung fibroblasts (MRC-5) (MOI 3). Whole cell lysates were collected at 24 hours post infection and histones from all samples were enriched and were processed for proteoform identification analysis.

59 BASIC BIOLOGICAL SCIENCES↗

Conversion of Site-Specific Meteorological Data for use in CAP-88 PC

CAP-88 PC is a commonly used radiological atmospheric dispersion model. This US EPA-approved model is used to demonstrate compliance with atmospheric emission regulations for radionuclides. While the model includes a large library of meteorological data for use across the United States, there are applications when users may wish to use onsite meteorological data as an input to the CAP-88 PC model. Here, in this work, we present a work-around process for preparing and converting onsite data for use in CAP-88 PC. However, the use of local data should provide a more realistic estimate of doses to members of the public in the immediate vicinity of a facility, although the regulatory agency having jurisdiction may not accept the use of local data for compliance. Additionally, the historical meteorological records from 20+ years ago (at a site many kilometers away) might not be representative of current local weather patterns, highlighting another benefit of using local meteorological data.

54 ENVIRONMENTAL SCIENCES↗

Uncertainty based Online Ensemble on Non-Stationary Data for Fusion Science

Machine Learning (ML) is poised to play a pivotal role in the development and operation of next-generation fusion devices. Fusion data shows non-stationary behavior due to drifts in the data. The drifts can arise from both experimental evolution and machine wear-and-tear. ML models assume stationary distribution and fail to maintain performance when encountered with non-stationary data streams.Online learning can be used to continuously adapt the models with new data as it is acquired. However, traditional online learning can suffer from short-term performance degradation, as ground truth are not available before making the prediction. To address this challenge, we propose uncertainty aware ensemble approach for online learning. We use Deep Gaussian Process Approximation (DGPA) technique for calibrated uncertainty estimation and use the uncertainty values to guide a meta-algorithm that produces predictions based on ensemble of learners. Moreover, DGPA also provides uncertainty estimation along with the predictions for decision makers. This paper demonstrates that the proposed method outperforms traditional online learning approach, and a naive ensemble without uncertainty guidance by about 7% and 6%, respectively, on B-coil deflection prediction at DIII-D Fusion Facility.

Rajput, Kishansingh [Thomas Jefferson National Acc↗

Uncertainty based Online Ensemble on Non-Stationary Data for Fusion Science

Machine Learning (ML) is poised to play a pivotal role in the development and operation of next-generation fusion devices. Fusion data shows non-stationary behavior due to drifts in the data. The drifts can arise from both experimental evolution and machine wear-and-tear. ML models assume stationary distribution and fail to maintain performance when encountered with non-stationary data streams.Online learning can be used to continuously adapt the models with new data as it is acquired. However, traditional online learning can suffer from short-term performance degradation, as ground truth are not available before making the prediction. To address this challenge, we propose uncertainty aware ensemble approach for online learning. We use Deep Gaussian Process Approximation (DGPA) technique for calibrated uncertainty estimation and use the uncertainty values to guide a meta-algorithm that produces predictions based on ensemble of learners. Moreover, DGPA also provides uncertainty estimation along with the predictions for decision makers. This paper demonstrates that the proposed method outperforms traditional online learning approach, and a naive ensemble without uncertainty guidance by about 7% and 6%, respectively, on B-coil deflection prediction at DIII-D Fusion Facility.

Rajput, Kishansingh [Thomas Jefferson National Acc↗

Snow Depth Datasets for Snodgrass Catchment, Colorado, Water Year 2022-2023

This data package presents snow depths data from distributed temperature probes at 18 locations near Snodgrass catchment, Colorado. These data show that snow melt-out dates are approximately one or two weeks later under evergreen forests compared to other vegetation types even at the same elevation. These data were collected to understand how snowmelt heterogeneity impacts headwater hydrology, including streamflow and groundwater levels. They were also used to compare with process-based model simulations of snow depth to evaluate whether the model accurately represents snowmelt dynamics and their effects on headwater hydrology. Snow_DTPs_locations.csv includes all probes locations and their associated elevation and vegetation types. Snow_Depth_Snodgrass_WY2022_2023.csv includes processed snow depths datasets for Water Year (WY) 2022 and 2023. This dataset also includes a file-level metadata (flmd.csv) file that lists each file contained in the dataset with associated metadata and a data dictionary (dd.csv) file that contains column/row headers used throughout the files along with a definition, units, and data type. Several probes have recordings for WY 2021.

54 ENVIRONMENTAL SCIENCES↗

Multioutput Convolutional Neural Network for Improved Parameter Extraction in Time-Resolved Electrostatic Force Microscopy Data

Time-resolved scanning probe microscopy methods, like time-resolved electrostatic force microscopy (trEFM), enable imaging of dynamic processes ranging from ion motion in batteries to electronic dynamics in microstructured thin film semiconductors for solar cells. Reconstructing the underlying physical dynamics from these techniques can be challenging due to the interplay of cantilever physics with the actual transient kinetics of interest in the resulting signal. Previously, quantitative trEFM used empirical calibration of the cantilever or feed-forward neural networks trained on simulated data to extract the physical dynamics of interest. Both these approaches are limited by interpreting the underlying signal as a single exponential function, which serves as an approximation but does not adequately reflect many realistic systems. Here, we present a multi-branched, multi-output convolutional neural network (CNN) that uses the trEFM signal in addition to the physical cantilever parameters as input. The trained CNN accurately extracts parameters describing both single-exponential and bi-exponential underlying functions, and more accurately reconstructs real experimental data in the presence of noise. This article demonstrates an application of physics-informed machine learning to complex signal processing tasks, enabling more efficient and accurate analysis of trEFM.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

ZrH2 as measured on ARCS for NXS2021

This data is for ZrH2 in an Al can it is measured at room temperature. This data was used for the Neutron and Xray scattering school in 2021. It was measured on the ARCS direct geometry spectrometer at the spallation neutron source. The .nxs files are event files that can be read and processed with Mantid. The nxspe files are auto reduced files that can be read with Mantid, Dave, or Mslice. Both types of files are hdf5 and can be read with any tool that reads hdf5.

MATERIALS SCIENCE↗

R-Adaptivity to Enable Compression of Elementary Computations in Extreme-Scale Finite Element Simulators

Modern computing systems are capable of exascale calculations, which are revolutionizing the development and application of high-fidelity numerical models in computational science and engineering. While these systems continue to grow in processing power, the available system memory has not increased commensurately, and electrical power consumption continues to grow. A predominant approach to limit the memory usage in large-scale applications is to exploit the abundant processing power and continually recompute many low-level simulation quantities, rather than storing them. However, this approach can adversely impact the throughput of the simulation and diminish the benefits of modern computing architectures. We present three novel contributions to reduce the memory burden while maintaining, and sometimes improving, performance in simulations based on finite element discretizations. The first contribution develops dictionary-based data compression schemes that detect and exploit the structure of the discretization, due to redundancies across the finite element mesh. While these schemes are shown to reduce memory requirements by more than 99% on meshes with large numbers of identical mesh cells, there are applications where this structure does not exist. The second contribution leverages a recently developed augmented Lagrangian optimization algorithm to enable r-adaptivity for meshes with the goal of enhancing the redundancies in the mesh. The third contribution extends these methods to patch-based linear solvers and preconditioners by compressing local matrices. Numerical results demonstrate the effectiveness of the proposed methods to detect, enhance and exploit mesh structure on a suite of examples inspired by large-scale applications.

97 MATHEMATICS AND COMPUTING↗

Biosynthesis of bioprivileged, linear molecules via novel carboligase reactions

Over the award period, we made progress on the three aims. We screened twenty-five carboligases for activity coupling twenty-one possible -keto acids (Aim 1). The carboligases were selected across a diverse set of protein sequences. Using Q-Exactive UHPLC-MS, we tested a total of 210 coupled products per enzyme and generated a dataset of 5250 enzyme-substrate activity relationships. We identified multiple enzymes that had activity for synthesizing suberic acid and heptanoic acid (Aim 2). We built a random forest model for predicting the activity of each enzyme toward substrates on which it was not tested using the data from Aim 1. Finally, we evaluated growth defects that occurred due to expression of different carboligases in E. coli (Aim 3). We were able to identify specific metabolites and putative pathways that, when supplemented in the media, recovered the growth defect associated with the presence of specific carboligases. We are in the process of publishing two manuscript describing the methods for high-throughput screening of enzyme promiscuity, using machine learning to predict activity on untested substrates, and enzyme activity data we collected. This project has produced enabling data for biosynthesis of a range of new-to-nature compounds to support biomanufacturing.

60 APPLIED LIFE SCIENCES↗

Development of Data-Driven Models for Performance Prediction and Chemical Dosing of a Full-Scale Controlled Phosphorus Precipitation Reactor

This study evaluated the use of data-driven models to improve control of a struvite precipitation reactor that removes phosphorus from wastewater while producing a fertilizer product. The researchers developed predictive models for influent orthophosphate concentration, effluent orthophosphate concentration, and phosphorus removal using operational data from a full-scale MagPrex™ reactor at a water resource recovery facility in Denver, Colorado. Model predictions were used to recommend magnesium chloride dosing adjustments needed to achieve a target effluent phosphorus concentration. Several machine learning approaches were tested, with ridge regression providing the best predictions for influent orthophosphate concentration and phosphorus removal, and XGBoost providing the best predictions for effluent orthophosphate concentration. Simulation results indicated that the decision-support approach could correctly identify dosing adjustments in most cases and reduce chemical use. Full-scale implementation achieved lower accuracy due to changing operating conditions and limited historical data in some operating ranges. Here, the results demonstrate the potential of data-driven tools to support phosphorus recovery process control while also identifying practical limitations that affect deployment in full-scale systems.

42 ENGINEERING↗

Resonance Self-Shielding: Why it is so Important

This paper is one of a series that I am writing to document my 58 years of experience with ENDF and Neutron Transport calculations, beginning when I worked at the National Nuclear Data Center (NNDC), Brookhaven National Laboratory (BNL), from 1967 to 1972. During those years I was the head of the computer unit of NNDC, assigned to develop computer codes to pre-process, view and test ENDF/B data. Since then, I have continued to support the ENDF effort without any official position or monetary compensation, because I realized how important accurate nuclear data is for use in use in our Engineering applications. It is so important to realize that regardless of how accurate or even perfect our application codes may be to transport particles, without accurate nuclear data we are in a “Garbage In = Garbage Out” situation.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

FAIR Data and Interpretable AI Framework for Architectured Metamaterials (Final Report)

This research program established a transformative framework for the discovery and design of mechanical metamaterials, which are architected structures engineered to control physical phenomena like sound and vibration in ways natural materials cannot. To overcome the traditional reliance on trial-and-error, the project developed an interpretable Artificial Intelligence (AI) framework that moves beyond "black box" models to reveal the specific geometric patterns—such as "unit-cell templates"—that govern a material’s performance. A major breakthrough was the development of a hierarchical design method, which allows a single material to block vibrations across multiple frequency ranges simultaneously by layering patterns at different scales without them interfering with one another. This was further expanded to include irregular, graph-based designs that use spanning tree algorithms to ensure structural connectivity while allowing for customized, direction-dependent properties like stiffness and acoustic impedance. Beyond design, the project addressed the practicalities of real-world production by developing uncertainty quantification techniques that account for manufacturing defects and material variability, reducing the need for expensive physical testing by orders of magnitude. To speed up the discovery process, the team implemented Gaussian Process Regression and other surrogate models that provide accurate performance predictions at a fraction of the traditional computational cost. The AI-generated designs were successfully validated through fabrication of physical samples and wave propagation experiments, confirming their ability to accurately guide or reflect waves as predicted. By contributing these tools and high-quality FAIR benchmark datasets to the wider scientific community, this work provides a scalable foundation for advancing technologies in aerospace vibration control, medical imaging, and noise reduction.

36 MATERIALS SCIENCE↗

Weather radar utility in hazard detection and response

Publicly accessible weather radar data have significant capabilities for meteorological measurements and predictions and, further, have the potential to measure nonmeteorological events that include smoke, ash, and debris plumes as well as explosions. The ability to identify and track nonmeteorological events can be of assistance in emergency response, hazard mitigation, and related activities in locations where radar coverage both exists and is recorded and accessible to the user. Here, in this study, events from multiple locations in the United States that are reported in news outlets are assessed using a manual inspection process of Level 2 weather radar data to identify anthropogenic and nonbiological returns. Explosive events are also identified, and a large high-altitude debris cloud from the intentional destruction of the SpaceX Starship is tracked across a wide area. Finally, future efforts using a machine learning model are discussed as a means of automating the process and potentially enabling near-real-time nonmeteorological event identification in the same areas where the data are accessible. Using weather radar data can be a valuable new tool for Department of Defense systems to aid in military awareness, and for interagency emergency response and forensic mission experts to consider national weather service data in their mission profiles. Radar data can be effective in detecting several common types of emergencies and inform and aid response personnel.

54 ENVIRONMENTAL SCIENCES↗