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At least 649 records · Page 36

ZENN: A thermodynamics-inspired computational framework for heterogeneous data–driven modeling

Traditional entropy-based methods—such as cross-entropy loss in classification problems—have long been essential tools for representing the information uncertainty and physical disorder in data and for developing artificial intelligence algorithms. However, the rapid growth of data across various domains has introduced new challenges, particularly the integration of heterogeneous datasets with intrinsic disparities. To address this, we introduce a zentropy-enhanced neural network (ZENN), extending zentropy theory into the data science domain via intrinsic entropy, enabling more effective learning from heterogeneous data sources. ZENN simultaneously learns both energy and intrinsic entropy components, capturing the underlying structure of multisource data. To support this, we redesign the neural network architecture to better reflect the intrinsic properties and variability inherent in diverse datasets. We demonstrate the effectiveness of ZENN on classification tasks and energy landscape reconstructions, showing its superior generalization capabilities and robustness-particularly in predicting high-order derivatives. In image and text classification tasks, ZENN demonstrates superior generalization by introducing a learnable temperature variable that models latent multisource heterogeneity, allowing it to surpass state-of-the-art models on CIFAR-10/100, BBC News, and AG News. As a practical application in materials science, we employ ZENN to reconstruct the Helmholtz energy landscape of Fe3Pt using data generated from density functional theory and capture key material behaviors, including negative thermal expansion and the critical point in the temperature–pressure space. Overall, this work presents a zentropy-grounded framework for data-driven machine learning, positioning ZENN as a versatile and robust approach for scientific problems involving complex, heterogeneous datasets.

36 MATERIALS SCIENCE↗

CHARGE-MAP: An integrated framework to study the multicriteria EV charging infrastructure expansion problem

The widespread adoption of electric vehicles (EVs) in recent years has necessitated the development of effective charging infrastructures. However, charging infrastructure expansion is a multifaceted problem that requires careful consideration of the existing infrastructure, spatiotemporal distribution of charging demands, power-grid capacity, and budget constraints. Here, to approach this complex problem, we present CHARGE-MAP, a data-driven simulation-optimization framework, focused on ensuring meaningful charging experience for individual EV owners. CHARGE-MAP integrates three modules: an agent-based simulation module that estimates spatiotemporal distribution of charging demands by modeling EV adopter mobility and charging behavior; an optimization module that determines optimal new charging station/charger locations and capacities, while minimizing expected detour distances and wait-times with a limited number of new stations; and a power module that determines how to connect the stations to the power grid while maintaining its stability. Using the state of Virginia (consisting of 95 counties and 38 independent cities) as a case study, our results show that CHARGE-MAP can meet the demand of ~198,600 predicted EVs with 1,305 new public charging stations and 2,164 new chargers. It reduces average detour distances for charging by 66% and wait-times at stations by 72% compared to the existing infrastructure. Furthermore, transformer capacity requirement analysis reveals that only 1.8% of residential transformers require upgrades, while over 80% of commercial charging locations can be supported with modest transformer infrastructure (25 to 50 kVA). This indicates that targeted investments can facilitate cost-effective EV integration. Consequently, CHARGE-MAP provides policymakers and urban planners with crucial data-driven insights for effective EV charging infrastructure expansion. Sign up for PNAS alerts.

charging infrastructure↗

MCP-enabled agentic AI workflow for building energy modelling: framework and use cases

Traditional building energy modelling workflows remain labor-intensive and error-prone, requiring specialized expertise that limits broader adoption. This paper introduces a novel Model Context Protocol (MCP)-enabled framework that connects AI assistants to EnergyPlus through MCP, a standardized interface for tool invocation and context management. Two complementary integration paradigms are presented and compared: conversational integration, where users interact through natural language while an AI assistant orchestrates MCP tools on demand, and agentic workflow integration, where specialized agents coordinate autonomously to complete multi-step tasks. Using an experimental testbed for residential buildings, the end-to-end workflows are demonstrated. The conversational approach reduced typical inspection and modification tasks from 1-2 h to under 15 min, while maintaining full transparency through visible tool invocations. The agentic approach automated parametric analysis. These demonstrations establish MCP as a foundational layer for AI-assisted building energy modelling, enabling natural language interactions with simulation tools while preserving professional oversight and decision-making authority.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Demonstration of OpenMC as a framework for atomic transport and plasma interaction

Modern tooling is demanded for predicting the transport and reaction characteristics of atoms and molecules, especially in the context of magnetic confinement fusion. DEGAS2, among the most common and capable tools currently in use, shares many fundamental similarities with the OpenMC framework, which was primarily developed for neutron and photon transport. In this work, we demonstrate that OpenMC is suitable for atomic transport calculations. The relative error between the models is small, and the performance of OpenMC is at least comparable to DEGAS2. This is the case even without taking advantage of heterogeneous computing architecture, which is only one of the several remarkable new capabilities that this demonstration heralds.

Monte Carlo↗

Simulation of Li-pellet triggered ELMs in EAST with an impurity model implemented under BOUT++ framework

A simple impurity model has been developed under the BOUT++ framework to investigate the Li-pellet triggered edge localized mode (ELM) in EAST configuration. The present impurity model decouples the ion pressure enhancement effect (IPEE) (which affects radial E X B flow shear and gyro-viscosity of deuterium ions and is implicitly included in our previous work) to make the simulation of Li pellet injection more physically reasonable. In addition, the present impurity model also includes the impurity equilibrium effect (IEE) (which induces modifications on vorticity and gyro-viscosity). The simulation results show that without IPEE a turbulent ELM induced by Li pellet is triggered by multiple peeling-ballooning modes (PBMs) rather than by a single dominant mode, and the simultaneous growth of multiple modes is conducive to reducing the time for pedestal entering the energy loss state. When a turbulent ELM occurs, the nonlinearly dominant modes undergo a secondary fast growth during fast crash phase. The finding explains the secondary increase of D α emission observed in the DIII-D Li injection experiments. During the evolution of a turbulent ELM, the continuous pedestal collapse dominates the pedestal energy loss in turbulent transport phase; however, in saturation phase, the stabilizing effects on PBMs (n ≠ 0) by n = 0 mode and radial E X B flow shear within the steepest gradient region are more prominent. It is also found that with IEE and without IPEE, the size threshold of ELM triggering and the magnitude of ELM sizes both show a good agreement with EAST and DIII-D experimental observations.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

A framework for discrete optimization of stellarator coils

Designing magnets for three-dimensional plasma confinement is a key task for advancing the stellarator as a fusion reactor concept. Stellarator magnets must produce an accurate field while leaving adequate room for other components and being reasonably simple to construct and assemble. In this paper, a framework for coil design and optimization is introduced that enables the attainment of sparse magnet solutions with arbitrary restrictions on where coils may be located. The solution space is formulated as a 'wireframe' consisting of a mesh of interconnected wire segments enclosing the plasma. Two methods are developed for optimizing the current distribution on a wireframe: Regularized Constrained Least Squares, which uses a linear least-squares approach to optimize the currents in each segment, and Greedy Stellarator Coil Optimization, a fully discrete procedure in which loops of current are added to the mesh one by one to achieve the desired magnetic field on the plasma boundary. Examples are presented of solutions obtainable with each method, some of which achieve high field accuracy while obeying spatial constraints that permit easy assembly.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

SICAS, a new integrated divertor-SOL-pedestal-core framework for self-consistent modeling of ion and impurity transport in fusion devices

We present a new framework for core-edge integration studies named SICAS (SOLPS-ITER coupled to ASTRA-STRAHL) which enables high fidelity simulations of the core, edge, and divertor regions encompassing the transport of ions as well as the impurities through the entire plasma domain. SICAS handles the exchanging of the particle and power fluxes as well as transport coefficients to ensure consistency through the codes. An overlapping region is defined from the inside of the separatrix of the plasma to the SOLPS-ITER core boundary allowing for matching profiles and fluxes between the two codes for a self-consistent approach. The results presented here demonstrated the flexibility of SICAS to simulate different configurations, scenarios, divertor geometries, and plasma species with good agreement with DIII-D experimental data. This tool opens new possibilities in integrated modeling of fusion devices integrating all relevant phenomena in the core and the divertor plasmas. These capabilities are required for the interpretation of current experiments as well as the design of new devices.

core-edge integration↗

The Unified Phenotype Ontology : a framework for cross-species integrative phenomics

Phenotypic data are critical for understanding biological mechanisms and consequences of genomic variation, and are pivotal for clinical use cases such as disease diagnostics and treatment development. For over a century, vast quantities of phenotype data have been collected in many different contexts covering a variety of organisms. The emerging field of phenomics focuses on integrating and interpreting these data to inform biological hypotheses. A major impediment in phenomics is the wide range of distinct and disconnected approaches to recording the observable characteristics of an organism. Phenotype data are collected and curated using free text, single terms or combinations of terms, using multiple vocabularies, terminologies, or ontologies. Integrating these heterogeneous and often siloed data enables the application of biological knowledge both within and across species. Existing integration efforts are typically limited to mappings between pairs of terminologies; a generic knowledge representation that captures the full range of cross-species phenomics data is much needed. We have developed the Unified Phenotype Ontology (uPheno) framework, a community effort to provide an integration layer over domain-specific phenotype ontologies, as a single, unified, logical representation. uPheno comprises (1) a system for consistent computational definition of phenotype terms using ontology design patterns, maintained as a community library; (2) a hierarchical vocabulary of species-neutral phenotype terms under which their species-specific counterparts are grouped; and (3) mapping tables between species-specific ontologies. This harmonized representation supports use cases such as cross-species integration of genotype-phenotype associations from different organisms and cross-species informed variant prioritization.

59 BASIC BIOLOGICAL SCIENCES↗

CABO-16S—a Combined Archaea, Bacteria, Organelle 16S rRNA database framework for amplicon analysis of prokaryotes and eukaryotes in environmental samples

Abstract Identification of both prokaryotic and eukaryotic microorganisms in environmental samples is currently challenged by the need for additional sequencing to obtain separate 16S and 18S ribosomal RNA (rRNA) amplicons or the constraints imposed by “universal” primers. Organellar 16S rRNA sequences are amplified and sequenced along with prokaryote 16S rRNA and provide an alternative method to identify eukaryotic microorganisms. CABO-16S combines bacterial and archaeal sequences from the SILVA database with 16S rRNA sequences of plastids and other organelles from the PR2 database to enable identification of all 16S rRNA sequences. Comparison of CABO-16S with SILVA 138.2 results in equivalent taxonomic classification of mock communities and increased classification of diverse environmental samples. In particular, identification of phototrophic eukaryotes in shallow seagrass environments, marine waters, and lake waters was increased. The CABO-16S framework allows users to add custom sequences for further classification of underrepresented clades and can be easily updated with future releases of reference databases. Addition of sequences obtained from Sanger sequencing of methane seep sediments and curated sequences of the polyphyletic SEEP-SRB1 clade resulted in differentiation of syntrophic and non-syntrophic SEEP-SRB1 in hydrothermal vent sediments. CABO-16S highlights the benefit of combining and amending existing training sets when studying microorganisms in diverse environments.

Eitel, Eryn M. (ORCID:0009000723919297)↗

Coefficient-to-Basis Network: a fine-tunable operator learning framework for inverse problems with adaptive discretizations and theoretical guarantees

We propose a Coefficient-to-Basis Network (C2BNet), a novel framework for solving inverse problems within the operator learning paradigm. C2BNet efficiently adapts to different discretizations through fine-tuning, using a pre-trained model to significantly reduce computational cost while maintaining high accuracy. Unlike traditional approaches that require retraining from scratch for new discretizations, our method enables seamless adaptation without sacrificing predictive performance. Furthermore, we establish theoretical approximation and generalization error bounds for C2BNet by exploiting low-dimensional structures in the underlying datasets. Our analysis demonstrates that C2BNet adapts to low-dimensional structures without relying on explicit encoding mechanisms, highlighting its robustness and efficiency. To validate our theoretical findings, we conducted extensive numerical experiments that showcase the superior performance of C2BNet on several inverse problems. The results confirm that C2BNet effectively balances computational efficiency and accuracy, making it a promising tool to solve inverse problems in scientific computing and engineering applications.

97 MATHEMATICS AND COMPUTING↗

New framework for extracting GPDs from exclusive photon electroproduction

Recently, a new framework for studying generic 2 → 3 hard exclusive reactions, referred to as single-diffractive hard exclusive processes, has been introduced to provide a cleaner separation of the underlying physical mechanisms. In this work, we expand this formalism to the case of exclusive real-photon electroproduction off a nucleon, 𝑒⁡(ℓ) +𝑁⁡(𝑝) →𝑒⁡(ℓ′) +𝑁⁡(𝑝′) + 𝛾⁡(𝑞′), which represents the classical channel for accessing generalized parton distributions (GPDs) in nucleons and nuclei. This extension enables a more systematic and physically transparent formulation of the reaction dynamics, paving the way for improved extractions of GPDs from experimental data as compared to existing approaches.

Qiu, Jian-Wei [Thomas Jefferson National Accelerat↗

Demonstration of a code coupling framework for modeling beam-collimator impacts in the advanced photon source

The high-brightness beams being produced in current and future accelerators present new machine protection concerns with the potential for high-energy-density (HED) conditions ( >100 J/mm 3 ) in beam-intercepting components. Simulating HED conditions in accelerators requires utilizing a suite of physics codes for particle dynamics, particle-matter interactions, and hydrodynamics. This paper describes a method of coupling the codes elegant, fluka, and flash to simulate the effects of a rapid beam loss in the advanced photon source storage ring and the resulting interaction of the beam and collimators. This paper expands previous work [J. Dooling et al., Collimator irradiation studies at the advanced photon source, in Proceedings of the IBIC-2023 (2023), pp. 245–249] by introducing a definition of the evolving geometry of the collimator surface as well as providing methods for simulating the absorption of synchrotron radiation and tracking shower particles produced during beam strikes. We demonstrate this framework by simulating machine conditions of the APS ring before and after its recent upgrade. Simulation results are compared with observed damage to collimators and test samples taken from the APS ring.

Accelerator/storage ring control systems↗

New proxies for second-order cumulants of conserved charges in heavy-ion collisions within the EPOS4 framework

Proxies for cumulants of baryon number 𝐵, electric charge 𝑄, and strangeness 𝑆 are usually measured in heavy-ion collisions via moments of net-number distribution of given hadronic species. Since these cumulants of conserved charges are expected to be sensitive to the existence of a critical point in the phase diagram of nuclear matter, it is crucial to ensure that the proxies used as substitutes are as close to them as possible. Hence, we use the EPOS 4 framework to generate Au + Au collisions at several collision energies of the BNL Relativistic Heavy Ion Collider beam energy scan. We compute second-order net cumulants of 𝜋, 𝐾, and 𝑝, for which experimental data have been published as well as the corresponding conserved charge cumulants. We then compare them with proxies, defined in previous lattice QCD and hadron resonance gas model studies, which are shown to reproduce more accurately their associated conserved charge cumulants. We investigate the impact of hadronic rescatterings occurring in the late evolution of the system on these quantities, as well as the amount of signal actually originating from the bulk medium which endures a phase transition.

Physics↗

Signatures of linearized gravity in atom interferometers: A simplified computational framework

We develop a general framework for calculating the leading-order, general relativistic contributions to the gravitational phase shift in single-photon atom interferometers within the context of linearized gravity. We show that the atom gradiometer observable, which only depends on the atom interferometer propagation phase, can be written in terms of three distinct contributions: the Doppler phase shift, which accounts for the tidal displacement of atoms along the baseline, the Shapiro phase shift, which accounts for the delay in the arrival time of photons at atom-light interaction points, and the Einstein phase shift, which accounts for the gravitational redshift measured by the atoms. For specific atom gradiometer configurations, we derive the signal and response functions for two physically motivated scenarios: (i) transient gravitational waves in the transverse-traceless gauge and, for the first time, in the proper detector frame, and (ii) transient massive objects sourcing weak and slow-varying Newtonian potentials. Here, we find that the Doppler contribution of realistic Newtonian noise sources (e.g., a freight truck or a piece of space debris) at proposed atom gradiometer experiments, such as AION, MAGIS, and AEDGE, can exceed the shot noise level and thus affect physics searches if not properly subtracted. Note: 44 pages including appendices, 4 figures; v2: different formatting, fixed typos, 28 pages including appendices, 5 figures, agrees with published version

Atom interferometry↗

Theoretical framework for soft X-ray Fourier transform spectroscopy using the Wigner function

This work presents a theoretical framework for the propagation of partially coherent Gaussian radiation in a modified Mach–Zehnder interferometer designed for Fourier transform spectroscopy (FTS) applications. Using the Wigner function formalism, we analytically propagate the radiation through the system and benchmark our approach by comparing the resulting interference pattern and interferogram with previous works in the diffraction limit. Our analysis reveals that the transverse coherence length requirement of the incident light field for detectable modulation is less stringent than previously assumed. Additionally, we provide theoretical demonstrations of FTS performance across various wavelengths using the proposed setup. These findings underscore the potential of this interferometer to achieve high-resolution FTS in the soft X-ray regime.

Fourier transform spectroscopy↗

Toward a quantitative description of solvation structure: a framework for differential solution scattering measurements

Appreciating that the role of the solute–solvent and other outer-sphere interactions is essential for understanding chemistry and chemical dynamics in solution, experimental approaches are needed to address the structural consequences of these interactions, complementing condensed-matter simulations and coarse-grained theories. High-energy X-ray scattering (HEXS) combined with pair distribution function analysis presents the opportunity to probe these structures directly and to develop quantitative, atomistic models of molecular systems in situ in the solution phase. However, at concentrations relevant to solution-phase chemistry, the total scattering signal is dominated by the bulk solvent, prompting researchers to adopt a differential approach to eliminate this unwanted background. Though similar approaches are well established in quantitative structural studies of macromolecules in solution by small- and wide-angle X-ray scattering (SAXS/WAXS), analogous studies in the HEXS regime—where sub-ångström spatial resolution is achieved—remain underdeveloped, in part due to the lack of a rigorous theoretical description of the experiment. To address this, herein we develop a framework for differential solution scattering experiments conducted at high energies, which includes concepts of the solvent-excluded volume introduced to describe SAXS/WAXS data, as well as concepts from the time-resolved X-ray scattering community. Our theory is supported by numerical simulations and experiment and paves the way for establishing quantitative methods to determine the atomic structures of small molecules in solution with resolution approaching that of crystallography.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

A Pulsar-Inspired Timing Framework for Power System: Optimization and Performance Evaluation

Due to their excellent stability, neutron pulsar stars are considered promising candidate timing sources for power system applications. However, the complexity of pulsar signals necessitates advanced processing algorithms to provide accurate timing references. This paper presents the foundational framework for pulsar signal processing, serving as the basis for further optimization. To enhance the timing accuracy and computation efficiency in pulsar period searches, three algorithms are proposed as the initial optimization step: wavelet de-noising, fast folding, and cross-correlation for profile evaluation. Wavelet de-noising improves signal-to-noise ratio (SNR) by 36%–70%. Fast folding reduces computation time from hundreds of seconds to mere milliseconds. Cross-correlation works better than traditional SNR-based methods by effectively identifying the optimal period. The performance of the proposed algorithms is evaluated using observation data from telescopes. Together, these algorithms significantly improve pulsar timing performance, reducing the error of the Pulse Per Second (PPS) signal from hundreds to tens of microseconds.

Wu, Ori [ORNL] (ORCID:0000000326723410)↗

CORSAIR: A Framework for Human Mobility Prediction through Visit Characterization and Spatial Behavior Modeling

The rapid advancement of location acquisition technologies has led to the daily collection of vast amounts of mobile trajectory data, facilitating in-depth research on human mobility and enabling more accurate mobility prediction models. However, existing methodologies often fall short in capturing the intricate dynamics of human navigation and spatial behavior. This paper addresses this gap by exploring the multifaceted relationships between individuals and their environments, considering the diverse influences of personal preferences and experiences. Some places hold sentimental value and are visited frequently, while others serve as transient points of passage. To model these differences, we introduce CORSAIR, a novel visit characterization framework that leverages visitation patterns and dwell times to delineate an individual’s relationship with specific places. CORSAIR classifies visits into seven distinct types: casual, occasional, routine, special, anchor, important, and resettling. Also, we show that explicitly recognizing these distinct visit types and incorporating nuanced visit intents into mobility prediction models leads to a substantial improvement in prediction accuracy. This distinction allows for more precise modeling of the individual’s transitions, enhancing the personalization and relevance of location-based services. Our findings suggest that a deeper understanding of the complexities of individual-environment interactions is crucial for developing effective predictive tools in mobility research.

Amichi, Licia [ORNL] (ORCID:0000000177631394)↗