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DOE OSTI2026

Single-cell chromatin accessibility and cis -regulatory element analyses in plants using the scPlantReg platform

Understanding gene regulation is fundamental to plant improvement, but the lack of plant-specific single-cell assay for transposase-accessible chromatin using sequencing (scATAC-seq) frameworks and cross-species databases has limited insights into cell-type-specific cellular regulation. Here we present ‘scPlantReg’, an integrated framework and database for plant scATAC-seq data. scPlantReg supports end-to-end analyses from raw data processing to biological interpretation and features ‘scATACtor’, a supervised machine-learning approach that outperforms existing tools for cell-type annotation. We applied scPlantReg to pearl millet to characterize cell-type-specific chromatin accessibility and identify validated activating and repressing accessible chromatin regions (ACRs), revealing WRKY transcription factors as potential regulators of xylem development. Furthermore, we reanalysed scATAC-seq datasets from 8 plant species, spanning 11 tissues and multiple developmental stages, enabling cross-species comparisons. Furthermore, these analyses uncovered conserved regulatory programmes, including AP2/EREBP-associated ACRs linked to cell wall development and cell-type-conserved TFs across grasses. Collectively, scPlantReg provides a general framework and resource for comparative regulatory analysis in plants.

Epigenomics↗

DOE OSTI2025

BOPTest As a Platform for Building Controls and Grid-Interactive Buildings Workforce Training

Building automation and controls are becoming increasingly complex with the emergence of Grid Integrated Efficient Buildings (GEBs) as well as new highly efficient sequences of operation and data-driven control schemes. However, there remains a significant gap in hands-on training opportunities for building operators and technicians to gain practical experience with advanced control systems in a low-risk environment. This paper presents BOPTEST (Building Optimization Performance Test) as a suitable platform for workforce training in building controls and GEB technologies. BOPTEST provides a suite of standardized building simulation test cases with a REST API, real-time control interfaces through BACnet, semantic models connecting users to building data, and built-in calculation of control metrics and performance indicators. The platform enables trainees to interact with virtual buildings using industry-standard protocols while learning how to implement and innovate control strategies. The training platform is designed to offer a structured and interactive learning experience for building engineers, helping them effectively develop, learn, and retain skills in fault identification, troubleshooting, and correction. The workflow is divided into three main phases: 1) Setup, 2) Exercise, and 3) Review, each comprising specific activities performed by either the instructor or the student. Initial pilot training sessions have yielded positive feedback from instructors and participants and demonstrates that BOPTEST effectively fills an industry need for a low-risk training resource via simulation of real building control systems, allowing trainees to gain practical experience before working in the field. The platform's ability to provide immediate performance feedback while maintaining familiar industry interfaces makes it particularly suitable for workforce development programs. This work provides a replicable model for leveraging building simulation in control education and training.

Paul, Lazlo↗

DOE OSTI2025

BOPTEST as a Platform for Building Controls and Grid-Interactive Buildings Workforce Training

Paul, Lazlo↗

DOE OSTI2026

Data-driven Mori–Zwanzig modeling of Lagrangian particle dynamics in turbulent flows

The dynamics of Lagrangian particles in turbulence play a crucial role in mixing, transport, and dispersion in complex flows. Their trajectories exhibit highly nontrivial statistical behavior, motivating the development of surrogate models that can reproduce these trajectories without incurring the high computational cost of direct numerical simulations of the full Eulerian field. This task is particularly challenging because reduced-order models typically lack access to the full set of interactions with the underlying turbulent field. Novel data-driven machine learning techniques can be powerful in capturing and reproducing complex statistics of the reduced-order/surrogate dynamics. In this work, we show how one can learn a surrogate dynamical system that is able to evolve a turbulent Lagrangian trajectory in a way that is point-wise accurate for short-time predictions (with respect to Kolmogorov time) and stable and statistically accurate at long times. This approach is based on the Mori–Zwanzig formalism, which prescribes a mathematical decomposition of the full dynamical system into resolved dynamics that depend on the current state and the past history of a reduced set of observables, and the unresolved orthogonal dynamics due to unresolved degrees of freedom of the initial state. We show how by training this reduced order model on a point-wise error metric on short time-prediction, we are able to correctly learn the dynamics of Lagrangian turbulence, such that also the long-time statistical behavior is stably recovered at test time. This opens up a range of applications, for example, for the control of active Lagrangian agents in turbulence.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2025

Final Report for CSP Tower Public Opinion and Education Project

As part of the CSP Plant Optimization Study for the California Power Market (DE-EE0009809) the project wanted to understand the public’s opinion of the technology and and explore the types of community engagement that is needed to support such development. The initial objectives for the public perception activities were twofold. The primary objective was to gather public opinion and feedback from the communities living near the two operating solar power tower plants, Ivanpah and Crescent Dunes, and to distill lessons learned from the community engagement conducted before, during, and after the plants were developed to inform future development. This included outreach to nearby airports. The other objective was to gauge public opinion about large-scale solar, specifically CSP towers, to start educating the public on the benefits and to begin building relationships with communities of interest, initially targeting the Kingman, Arizona area. The objectives shifted after the first exploratory trip to Ivanpah and Kingman, however, as it became apparent that it would be challenging to gather public opinion from the community surrounding Ivanpah that could be useful for other community profiles, and the company wasn’t ready to address the concerns in Kingman. Another area was chosen, therefore, to represent those where future development is possible. The recently published Lawrence Berkeley National Lab Perceptions of Large-Scale Solar Project Neighbors Study exemplified public perception polling based on social science and served as the foundation for the survey questions taken to the field. The intent was to ensure that people knew their input was valued and that the time they spent was valuable for the participant as well. It has been noted in the literature that in-person interaction has greater benefits than activities online or via mail, as well as limits the expense.

14 SOLAR ENERGY↗

DOE OSTI2025

Machine Learning-Based Extreme Data Reduction for Prompt Supernova Pointing at DUNE

One of the goals of the Deep Underground Neutrino Experiment (DUNE) is to use the massive underground liquid argon time projection chamber (LArTPC) detectors at its far site for multimessenger astronomy (MMA), in the detection of neutrinos from core-collapse supernovae (SNe). Its current baseline trigger strategy detects activity in the detector that is consistent with supernova (SN) neutrinos and saves the raw data for further offline analysis but provides no prompt pointing information crucial for optical follow-ups by other observatories. This approach is based on the assumption that prompt pointing determination using raw data is computationally prohibitive. In this article, we demonstrate a proof-of-concept based on applying extreme data reduction on the buffered SN data in the DUNE data acquisition (DAQ) system’s front-end computers using a machine learning (ML) workflow. This reduces the data by ~5 orders of magnitude, allowing a full track reconstruction to be carried out quickly on a single server. The total time to perform the ML-based data reduction and the full track reconstruction is less than the time to transfer the SN data back to Fermilab or a high-performance computing (HPC) center. This shows that prompt processing of raw SN data is possible and, in fact, trivial once the data have been reduced to reject radiological backgrounds, paving the way to a high-quality SN pointing trigger that is based on fully reconstructed data instead of trigger primitives (TPs).

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2025

Hyper Spectral Anomaly Detection

Anomaly detection is a common machine learning (ML) task with growing importance in the fields of imaging, quality assurance, and multiple security related disciplines. Anomaly detection is more difficult than traditional machine learning methods due to the inherent unlabeled nature of the datasets. Existing anomaly detection architectures commonly face challenges with explainability, retaining information related to the relational structure of the data, and false positive rates. Hyperspectral Imaging Anomaly Detection (HSI) is a statistical model that employs vertex and edge weighted graphs to preserve the data’s relationships on different topographical scales. The model is able to generalize from anomaly detection in 2D images to novel datasets related to cyber-security. Furthermore, the use of multi-spectral and other filtering methods results in fewer false positives and increases the explainability of model predictions. When applying HSI to cyber-security datasets, we are able to successfully detect malicious activity with a relatively high degree of accuracy.

97 - MATHEMATICS AND COMPUTING↗

DOE OSTI2026

Machine learning for slow-extraction uniformity at the Fermilab Delivery Ring

The Muon-to-Electron Conversion Experiment (Mu2e) requires uniform slow extraction from the Fermilab Delivery Ring during each 43 ms spill. This project analyzed 13,737 spills from seven parquet files collected during March and June 2026 commissioning. Each spill contained 430 samples at 0.1 ms resolution and was summarized by the Spill Duty Factor. Null Action and active proportional-integral-derivative conditions established operational baselines. Fixed-ramp sessions were segmented to evaluate reproducibility, drift, and spill-to-spill spread, while a deliberate quadrupole-ramp step identified the beam-response peak and trough. Median profiles were reproducible within fixed conditions but drifted over multi-hour periods. The resulting baselines and response features support future physics-based and machine-learning approaches to real-time spill regulation.

Prescott, Matthew J. [Purdue U., West Lafayette; F↗

DOE OSTI2025

Facet-dependent structure and dissociation of water at pristine IrO 2 /water interfaces

Understanding the microscopic structure of water at metal oxide interfaces is crucial for advancing electrocatalysis. IrO 2 , specifically, has shown exceptional activity for electrochemical water oxidation, but we currently lack a fundamental understanding of how the surface structure of IrO 2 impacts water reactivity. In this work, we developed a machine learning potential trained to first-principles accuracy for modeling IrO 2 /water interfaces across different facets: (110), (100), (101), and (001). Using extensive machine learning molecular dynamics simulations, we investigated the spontaneous dissociation of water molecules at these interfaces. Our results reveal a distinct dissociation probability trend: (110) > (100) ≈ (101) > (001), which we attribute primarily to the reaction thermodynamics of surface water dissociation. A strong correlation is observed between the surface Ir–O bond distances and the dissociation probabilities, highlighting the role of surface geometry in modulating reactivity. As a consequence, the interfacial solvation structures and hydrogen bonding environments are dynamically tuned by the varying water dissociation capabilities across facets. This work elucidates how water dissociation energetics depend on surface orientation and interfacial structure, offering atomistic insights into manipulating reaction chemistry at electrocatalytic interfaces.

organic↗

DOE OSTI2024

Developing multi-gene CRISPRa/i programs to accelerate DBTL cycles in ABF hosts engineered for chemical production

This project developed and implemented a modular CRISPR activation and interference (CRISPRa/i) platform to accelerate strain optimization and pathway development for industrially relevant microbial hosts. By integrating multiplexed transcriptional perturbation tools with data-driven Design–Build–Test–Learn (DBTL) workflows, the team achieved reductions in cycle time and enhanced production of industrial aromatics, particularly 4-aminocinnamic acid (4-ACA), in Pseudomonas putida. Key accomplishments included: ● Development of a robust, tunable CRISPRa/i system in P. putida that enabled efficient multi-target gene regulation via guide RNA (gRNA) programs ● Completion of two full DBTL cycles, guided by machine learning (ML) models trained on transcriptomic and performance data, reducing engineering time by over 30% ● Optimization of multi-gene regulatory programs to balance expression of host and pathway modules, improve 4-ACA titers, and resolve metabolic bottlenecks ● Demonstration of system portability through a limited proof-of-concept extension in Acinetobacter baylyi, underscoring the generalizability of the approach ● Evaluation of strain performance on lignocellulosic biomass-derived substrates, demonstrating the feasibility of converting renewable carbon into aromatic building blocks These results illustrate the feasibility of applying ML-guided CRISPRa/i perturbation strategies to accelerate strain development in complex microbial systems. The resulting tools and datasets contribute to DOE objectives by improving platform predictability, reducing development costs, and enabling broader access to sustainable, economically viable bioproduction technologies.

09 BIOMASS FUELS↗

DOE OSTI2025

Descriptors for Cu facets for CO2 reduction reaction activity

Computation screening is crucial for designing efficient electrochemical catalysts for carbon dioxide (CO2R) reduction to valuable hydrocarbons and oxygenates. Herein, leveraging density functional theory calculations of the CO adsorption energy ΔE_CO on seventeen Cu terminations, we discover a strong linear correlation between ΔE_CO and the recently experimentally measured CO2R electrochemical currents (ACS Catal. 2022, 12, 11, 6578–6588). Examining the ab initio thermodynamics of the early critical intermediates CO*, COH*, and CHO*, we find that CO* → CHO* is the thermodynamically preferred step, and notably shows a volcano trend with the experimental currents where the maximum CO2R current corresponds to the moderate CHO* formation energy. Importantly, we show that increasing the step and kink density of the Cu termination not only enhances CO adsorption strength but also modulates the CO* → CHO* pathway, as respectively exemplified in the (941) and (741) facets. We also explain why (741) is exceptional with high CO2R activity as measured experimentally due to its relatively low activity toward the hydrogen evolution reaction compared with the other Cu surfaces. Beyond the general CO adsorption energy that only shows a linear trend with CO2R activity, we show that the reaction CO* → CHO* free energy is a descriptor that displays a volcano relationship with the overall CO2R activity on Cu facets.

machine learning↗

DOE OSTI2025

Material Test Reactors; Annular Core Research Reactor Testing

The Material Test Reactors Fifth Workshop reviews the successes and failures of material test protocols and lessons learned. This presentation introduces the Annular Core Research Reactor (ACRR), the history of nuclear reactors at Sandia National Labs and the experiment review process. Included are actual examples of experimental activities at ACRR.

Martin, Lonnie E. [Sandia National Laboratories (S↗

DOE OSTI2025

Systemic Drivers of Electric-Grid-Caused Catastrophic Wildfires: Implications for Resilience in the United States

Wildfires are projected to increase in severity and frequency due to climate change, and the electric grid is both a cause of wildfires and is vulnerable to wildfires. Equipment from the electric grid accounts for 10% of fires burned in California and 3% of fires nationally. Recent catastrophic wildfires, such as the Lahaina Fire, Camp Fire, Marshall Fire, and Smokehouse Creek fires, were all started by electrical equipment and show how devastating these events can be because they threaten lives and structures. Vegetation structure, weather and winds, climate and vegetation response, land use, and human activities all impact the likelihood of severe wildfires. We explore the relationship between the built environment, electric grid infrastructure specifically, and its role in causing catastrophic wildfires to find lessons learned for increasing resilience. Electric grid utility companies currently employ multiple methods to mitigate fire, including (1) early detection, (2) grid hardening, (3) vegetation management, and (4) pre-emptive shutoffs. Utility companies need to consider the conditions for wildfire and the impact that each mitigation strategy has on drivers of wildfire behavior, as a single solution will not be adequate. Utility companies need to work with stakeholders to develop a holistic strategy to reduce ignition likelihood and spread likelihood to reduce catastrophic wildfires and improve resiliency.

Eagleston, Holly (ORCID:0000000178175116)↗

DOE OSTI2025

MHD, disruptions and control physics: Chapter 4 of the special issue: on the path to tokamak burning plasma operation

In this chapter, we review the progress in MHD stability, disruptions and control in magnetic fusion research that has occurred over the past (more than) one and a half decades since the publication by Hender et al in 2007 on the same topic as part of the update of ITER Physics Basis. During this period, remarkable progress has been achieved in the understanding of the basic physics and overall control of MHD instabilities through a wide spectrum of dedicated experiments, theory and modeling. The sawtooth activities are probably today one of the best understood of MHD events and very robust control schemes have been developed for reliable operation of tokamaks through core heating. Similarly, significant improvements have been achieved in understanding and control of neoclassical tearing modes, resistive wall modes or locked modes and their control through ECCD or error field control. The field of disruption prediction through application of artificial intelligence, machine learning or deep learning methods, which had already started at the time of the 2007 review, has progressed significantly due to general progress in these fields and application of newer, more sophisticated algorithms. However, although remarkable progress has been achieved in the field of Disruptions, their understanding, prediction, possible avoidance and mitigation still remain probably the most active fields of R&D globally in this field. This is especially because reactor grade machines like ITER and DEMO will be much less tolerant in respect of disruptions and runaway currents, and their occurrences must be either avoided altogether or minimized to an acceptable value without causing any significant hindrance to robust machine operations. This review is intended to present a broad spectrum of the R&D that has occurred in this field in support of ITER, which will also be of immense significance for all future machines, especially reactors like DEMO.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2024

Utah FORGE 6-3629: Application of Machine Learning, Geomechanics, and Seismology for Real-Time Decision Making Tools During Stimulation - 2024 Annual Workshop Presentation

This is a presentation on the Cutting Edge Application of Machine Learning, Geomechanics, and Seismology for Real-Time Decision Making Tools During Stimulation by the University of Utah, presented by No'am Zach Dvory. This video slide presentation, by the University of Utah, discussed the technical objectives of developing a real-time decision-making platform to enhance seismic monitoring and risk management during stimulation activities. This presentation was featured in the Utah FORGE R&D Annual Workshop on August 15, 2024.

15 GEOTHERMAL ENERGY↗

DOE OSTI2025

HAMscope: a snapshot Hyperspectral Autofluorescence Miniscope for real-time molecular imaging

We introduce HAMscope, a compact, snapshot hyperspectral autofluorescence miniscope that enables real-time, label-free molecular imaging in a wide range of biological systems. By integrating a thin polymer diffuser into a widefield miniscope, HAMscope spectrally encodes each frame and employs a probabilistic deep learning framework to reconstruct 30-channel hyperspectral stacks (452-703 nm) or directly infer molecular composition maps from single images. A scalable multi-pass U-Net architecture with transformer-based attention and per pixel uncertainty estimation enables high spatio-spectral fidelity (mean absolute error ∼0.0048) at video rates. While initially demonstrated in plant systems, including lignin, chlorophyll, and suberin imaging in intact poplar and cork tissues, the platform is readily adaptable to other applications such as neural activity mapping, metabolic profiling, and histopathology. We show that the system generalizes to out-of-distribution tissue types and supports direct molecular mapping without the need for spectral unmixing. HAMscope establishes a general framework for compact, uncertainty-aware spectral imaging that combines minimal optics with advanced deep learning, offering broad utility for real-time biochemical imaging across neuroscience, environmental monitoring, and biomedicine.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

Nanoscale wetting controls reactive Pd ensembles in synthesis of dilute PdAu alloy catalysts

The performance of bimetallic dilute alloy catalysts is largely determined by the size of minority metal ensembles on the nanoparticle surface. By analyzing the synthesis of catalysts comprising Pd 8 Au 92 nanoparticles supported on silica using surface-sensitive techniques, we report that whether Pd overgrowth occurs before or after Au nanoparticle deposition onto the support controls the surface Pd ensemble size and abundance. These differences in Pd ensembles influence catalytic reactivity in H 2 –D 2 isotope exchange and benzaldehyde hydrogenation, which, in correlation with theoretical calculations, is used to elucidate the active site(s) in each reaction. To clarify how the synthetic sequence controls the formation of Pd ensembles, we combine numerical wetting calculations and molecular dynamics simulations (with a machine-learned force field) to visualize Pd deposition and migration on the nanoparticle surface, respectively. Our results suggest that the nanoparticle–support interface restricts nanoparticle accessibility to Pd deposition, which consequently controls the Pd ensemble size, illustrating the critical role of nanoscale wetting phenomena during bimetallic catalyst preparation.

36 MATERIALS SCIENCE↗

DOE OSTI2025

System Engineers and Decisions: It?s All about Knowledge

In order to guarantee that a system meets adequate levels of reliability and availability, system performances are continuously monitored and analyzed thanks to the technological advancements driving the Industry 4.0 revolution. An Industry 4.0 approach is typically based on advanced statistical, big data mining, machine learning, and internet-of-things methods designed to detect anomalies in the behavior of system, detect the most likely failure modes, and provide indications to system engineers on when maintenance activities should be performed before system performance are deemed unacceptable (which can be generated by diagnostic and prognostic methods). However, these analyses, which are designed to automatize and increase the efficacy of the system maintenance program, require large amount of data which can come in various forms: numeric, textual, images, sounds etc. Such data constitutes the historic knowledge benchmark to track system performances and support system engineer decisions. Here we claim that data is not sufficient to support this kind of analyses when applied to systems characterized by complex architectures and behaviors. Robust system engineer decisions require the ability to understand the system operational context that lies behind the observed data elements. In this respect, system models are in fact necessary to “put data in context” and capture relationships between data elements. Industry 4.0 methods require in fact contextual knowledge as a basis upon which hypotheses can be generated and assumptions tested. In our view, for complex systems, model-based system engineering (MBSE) models can afford this contextual knowledge, as they are typically used to describe systems architecture and dynamic behaviors. System knowledge is here intended as the blending of collected data and system architecture which takes the form of a “knowledge graph”. A knowledge graph is a database which consists of a large set of nodes (in our case an entity can be either a data or an MBSE element) which are linked to each other. The types of nodes and links follow a pre-defined topology, sometimes also refers as an ontology, that is designed to fit the actual decisions that needs to be performed. We show here how a knowledge graph can be defined to support system engineer maintenance decisions and how the same graph can be built based on system MBSE models and pre-processed data from numeric (through anomaly detections and diagnostic methods) and textual elements (through technical language processing TLP).

97 - MATHEMATICS AND COMPUTING↗