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At least 1,261 records · Page 70

Feedback-based quantum algorithms for ground state preparation

The ground state properties of quantum many-body systems are a subject of interest across chemistry, materials science, and physics. Thus, algorithms for finding ground states can have broad impacts. Variational quantum algorithms are one class of ground state algorithms that has received significant attention in recent years. These algorithms utilize a hybrid quantum-classical computing framework to prepare ground states on quantum computers. However, this requires solving a classical optimization problem that can become prohibitively expensive in high dimensions. Here, we develop formulations of feedback-based quantum algorithms for ground state preparation that can be used to address this challenge for two broad classes of Hamiltonians: Fermi-Hubbard Hamiltonians, and molecular Hamiltonians represented in second quantization. Feedback-based quantum algorithms are optimization-free; in place of classical optimization, quantum circuit parameters are set according to a deterministic feedback law derived from quantum Lyapunov control principles. This feedback law guarantees a monotonic improvement in solution quality with respect to the depth of the quantum circuit. A variety of numerical illustrations are provided that analyze the convergence and robustness of feedback-based quantum algorithms for these problem classes. Published by the American Physical Society 2024

Larsen, James B. (ORCID:000000020777440X)↗

Nanoscale X-ray Imaging and Dynamics of Electronic and Magnetic Materials

This project supported cutting-edge nanoscale characterization developments including X-ray Imaging by utilizing the power of Coherent X-ray Diffractive Imaging (CXDI). This research pioneered new directions in studies of nanoscale dynamics using X-ray Photon Correlation Spectroscopy (XPCS) and Ultrafast X-ray Scattering (UXS), extending our understanding of science and technology at the limits of ultrasmall (atomic/nanoscale) and ultrafast (from seconds to femtosecond dynamics). The research funded by this award spans a wide range of condensed matter and materials physics systems, from correlated oxides and nanomaterials to energy-related materials, and quantum materials for neuromorphic computing.

25 ENERGY STORAGE↗

JIRIAF: JLAB Integrated Research Infrastructure Acros Facilities

The JIRIAF project aims to combine geographically diverse computing facilities into an integrated science infrastructure. This project starts by dynamically evaluating temporarily unallocated or idled compute resources from multiple providers. These resources are integrated to handle additional workloads without affecting local running jobs. This paper describes our approach to launch best-effort batch tasks which exploit these underutilized resources. Our system measures the real-time behavior of jobs running on a machine and learns to distinguish typical performance from outliers. Unsupervised ML techniques are used to analyze hardware-level performance measures, followed by a real-time cross-correlation analysis to determine which applications cause performance degradation. We then ameliorate bad behavior by throttling these processes. We demonstrate that problematic performance interference can be detected and acted on, which makes it possible to continue to share resources between applications and simultaneously maintain high utilization levels in a computing cluster. We relocate the CLAS12 data processing workflow to a remote data center for a case study, preventing file migration and temporal data persistency.

Lawrence, David↗

Understanding the Impact of Dynamic Power Capping on Application Progress

Electrical power has become an important design constraint in high-performance computing (HPC) systems. On future HPC machines, power is likely to be a budgeted resource and thus managed dynamically. Power management software needs to reliably measure application performance at runtime in order to respond effectively to changes in application behavior. Execution time tells us little about how the science in the application is progressing toward an application-defined end goal. To the best of our knowledge, no study has defined or categorized online application progress in the context of power management. Based on semi-structured interviews with HPC application-specialists, we define an online notion of progress—an application-specific metric that can be monitored at runtime to provide a sense of the rate at which application science is being performed. Using instrumentation, we characterize and categorize the progress of various production scientific applications and benchmarks. We propose a model of the impact of dynamic power capping on application progress. By experimental evaluation, we show that our model accurately captures the general behavior of the progress of different classes of applications under a power cap. We believe that such a model is an important first step toward the design of more dynamic power management policies for HPC systems.

application progress↗

Basic Research Needs Workshop on Synthesis Science for Energy Relevant Technology

The technology that lies at our fingertips becomes more powerful each day. Smartphones connect us instantly to family, friends, and co-workers around the globe; give us access to a limitless stream of information; control the heating in our homes; and serve as our cameras, calculators, flashlights, music players, boarding passes and, on occasion, our phones. Cars are ever more fuel-efficient, safer, semi-autonomous, and have more computing power than the systems that guided humankind to the moon. LED lighting and solar panels are becoming commonplace, replacing less efficient technologies and expanding the energy options available worldwide. Novel polymers and nanoparticles are playing a crucial role in enhanced oil recovery. None of these advances would have been possible without the discovery and development of, and ability to create, new materials and chemical processes. Now imagine what our world would be like if we could accelerate those discoveries a thousandfold. What if the only limit to synthesizing new forms of matter were the imagination? We could build complex assemblies of atoms and molecules with architectures and capabilities far exceeding those of materials found in nature—for example, develop catalysts that turn garbage into fuels, design solar cells to power our homes directly from sunlight, make batteries with the energy density of gasoline, and create one- and two-dimensional solids that transport charge hundreds of times faster than silicon or allow us to build quantum bits based on the spins of electrons or photons to realize the promise of “beyond Moore’s law” computing. Advances in synthesis science are required to bring about this future—we not only must know how to design new molecules and materials with desired functions and properties through theory and computational techniques; we also must be able to make the materials we envision. New approaches to discovering as yet unimagined matter require a sea change in the way we think about the science of synthesis. Chemical and materials sciences have traditionally focused on understanding structure–function relationships with the goal of predicting where the atoms should be placed to achieve a targeted property or process. Much less effort has been directed toward a predictive science of synthesis—understanding how to get the atoms where they need to go to achieve the desired structure. This report, which is the result of the Basic Energy Sciences Workshop on Basic Research Needs for Synthesis Science for Energy Technologies, lays out the scientific challenges and opportunities in synthesis science. The workshop was attended by more than 100 leading national and international scientific experts. Its five topical and two crosscutting panels identified four priority research directions (PRDs) for realizing the vision of predictive, science-directed synthesis.

99 GENERAL AND MISCELLANEOUS↗

Genomes to Structure and Function Workshop Report 2022

The goal of the U.S. Department of Energy (DOE) Biological and Environmental Research (BER) Program is to achieve a predictive understanding of complex biological, earth, and environmental systems with the aim of advancing the nation’s energy and infrastructure security. (https://www.energy.gov/science/ ber/biological-and-environmental-research). To pursue this goal, collaborations among experts in diverse research areas that lead to multidisciplinary projects are indispensable. The roles of DOE’s User Facilities, which offer unique and powerful resources for such research projects, are evolving, and expectations for the facilities are increasing. To respond to Users’ needs, the Joint Genome Institute (JGI) and Environmental Molecular Sciences Laboratory (EMSL) initiated the Facilities Integrating Collaborations for User Science (FICUS) program in 2014. This collaboration has grown into a popular and successful program, advancing more than 100 multidisciplinary projects to date. Similarly, the new interFacility collaborations among the JGI, EMSL, and User resources for BER structural biology and imaging at the Basic Energy Science (BES) Program’s synchrotron and neutron facilities are becoming essential for cutting-edge transdisciplinary science. To further explore the need for the BER research community to combine genomic, functional, and structural approaches to advance their research, an organizing committee was formed to develop and jointly host a 3-part workshop. The committee’s members represented seven DOE National Laboratory User Facilities (Appendix 1 lists the members). The “Genomes to Structure and Function” virtual workshop (see Appendices 2–5) was composed of three sessions. The first session, titled “Molecular Structures” (October 27– 28, 2021), highlighted diverse integrative experimental and computational approaches correlating structural data with sequencing and functional information, as well as predicting protein structures to model complex biological systems. The second session, “Intracellular Organization, and Material Synthesis and Decomposition” (December 15–16, 2021), covered imaging methods for observing, quantifying, and manipulating biosystems. The third session, “Imaging the Rhizosphere and Cellular Organization” (January 26–27, 2022) emphasized advanced and non-invasive imaging techniques applied to plant root-microbe-soil interactions.

59 BASIC BIOLOGICAL SCIENCES↗

Computation-guided optimization of split protein systems

Splitting bioactive proteins into conditionally reconstituting fragments is a powerful strategy for building tools to study and control biological systems. However, split proteins often exhibit a high propensity to reconstitute, even without the conditional trigger, limiting their utility. Current approaches for tuning reconstitution propensity are laborious, context-specific or often ineffective. Here, we report a computational design strategy grounded in fundamental protein biophysics to guide experimental evaluation of a sparse set of mutants to identify an optimal functional window. We hypothesized that testing a limited set of mutants would direct subsequent mutagenesis efforts by predicting desirable mutant combinations from a vast mutational landscape. This strategy varies the degree of interfacial destabilization while preserving stability and catalytic activity. We validate our method by solving two distinct split protein design challenges, generating both design and mechanistic insights. Furthermore, this new technology will streamline the generation and use of split protein systems for diverse applications.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Plant Design for a Developing Bioeconomy Workshop Report: Frontier Science for the Bioeconomy Workshop Series

Recent advances in fundamental plant biology research, synthetic biology, and artificial intelligence (AI) are unlocking powerful new capabilities in plant biodesign, offering unprecedented potential to reimagine plants as programmable platforms for resource-efficient production of bioenergy, biomaterials, chemicals, and more. The U.S. Department of Energy (DOE) convened the Plant Design for a Developing Bioeconomy virtual workshop on March 12 through 14, 2025, to bring together leaders across plant science, engineering, and computation to assess the current landscape and define a bold vision for future research. Discussions during the workshop built upon findings included in DOE’s Biological and Environmental Research (BER) workshop report Overcoming Barriers in Plant Transformation: A Focus on Bioenergy Crops (U.S. DOE 2024; genomicscience. energy.gov/plant-transformation). Participants identified critical knowledge gaps, technical barriers, and emerging opportunities in the design and engineering of plant systems to support a robust, resilient domestic bioeconomy aligned with DOE’s mission.

09 BIOMASS FUELS↗

Probing the Origin of Interfacial Carriers in SrTiO 3 –LaCrO 3 Superlattices

Emergent phenomena at complex oxide interfaces could provide the basis for a wide variety of next-generation devices, including photovoltaics and spintronics. To date, detailed characterization and computational modeling of interfacial defects, cation intermixing, and film stoichiometry have helped to explain many of the novel behaviors observed at a single heterojunction. Unfortunately, many of the techniques employed to characterize a single heterojunction are less effective for a superlattice made up of a repeating series of interfaces that induce collective interfacial phenomena throughout a film. However, these repeating interfaces present an untapped opportunity to introduce an additional degree of complexity, such as confined electric fields, that cannot be studied in a single heterojunction. In this work, we explore the properties of SrTiO3-LaCrO3 superlattices to understand the role of defects, including variations in cation stoichiometry of individual layers of the superlattice, intermixing across interfaces, and interfacial oxygen vacancies. Using x-ray photoelectron spectroscopy (XPS) and scanning transmission electron microscopy electron energy-loss spectroscopy (STEM-EELS), we quantify the stoichiometry of individual layers of the superlattice and determine the degree of intermixing in these materials. By comparing these results to both density functional theory (DFT) models and STEM-EELS measurements of the Ti and Cr valence in each layer of the superlattice, we correlate different types of defects with the associated materials properties of the superlattice. We show that a combination of ab initio modeling and complementary structural characterization methods can offer unique insight into structure-property relationships in many oxide superlattice systems.

36 MATERIALS SCIENCE↗

A Cloud-Based Decision Support System Framework for Hydropower Biological Evaluation

Hydropower has become one of the most important energy sources: it accounts for more than 80% of the world’s renewable energy and about 16% of all the energy in the world. Significantly more hydropower capacity is planned to be developed. However, hydro-structures, including powered dams, may have adverse biological effects on fishes, especially on migrating fish. For instance, fish can be injured or even killed when they pass through turbines. This is why biological evaluations on hydro-structures are greatly needed to estimate fish injury and mortality rates. The Hydropower Biological Evaluation Toolset (HBET) is an integrated suite of science-based desktop tools designed to evaluate whether the hydraulic conditions of hydropower structures are fish friendly by analyzing collected data and providing estimated injury and mortality rates. Sensor Fish, a small, autonomous sensor package, is used by HBET to record data describing the conditions that live fish passing through a hydropower structure will face. In this paper, we incorporated cloud computing into HBET, and migrated it into a cloud-based decision support system framework for hydropower biological evaluation. This will make the evaluation systems more scalable and flexible; however, this also introduces a significant challenge: how to maintain the security while retaining scalability and flexibility. We discuss the technical methodologies and algorithms implemented in the proposed framework, and analyze the countermeasures implemented therein.

Decision Support System, Hydropower, Dam, Fish Inj↗

Scientific Discovery with Physics-Informed System Identification (Abbreviated Report)

My fellowship research focused on making physics-based simulations faster and more useful through machine learning. Many problems in science and engineering are governed by partial differential equations, but high-fidelity simulations are often too expensive to run repeatedly. I worked on improving Latent Space Dynamics Identification (LaSDI), a reduced-order modeling framework that compresses large simulation data sets into a smaller representation and then learns how that representation evolves over time. The motivation was to develop reduced models that remain accurate for more challenging systems, especially when predictions must remain reliable over long time intervals or when the underlying dynamics are more complicated than standard methods can easily handle. I also contributed to related work on Quandary, a high-performance software effort for simulation and control of open quantum systems, before focusing primarily on Latent Space Dynamics Identification methods. The main outcomes of the fellowship were two new algorithms (both of which were published), Rollout-LaSDI and Higher-Order LaSDI, together with supporting work on multi-stage Latent Space Dynamics Identification. Rollout-LaSDI improved long-term prediction by training the model to stay accurate over extended time horizons, and Higher-Order LaSDI broadened the method so it could model systems with higher-order time dynamics. My contributions to multistage Latent Space Dynamics Identification also helped show that its later training stages could be simplified without losing effectiveness, and that this behavior held across different model architectures and training strategies. Taken together, these advances improved the accuracy, flexibility, and practical value of reduced-order modeling tools for computational science.

97 MATHEMATICS AND COMPUTING↗

Computer-aided classification of suspicious pigmented lesions using wide-field images

Early identification of melanoma is conducted through whole-body visual examinations to detect suspicious pigmented lesions, a situation that fluctuates in accuracy depending on the experience and time of the examiner. Computer-aided diagnosis tools for skin lesions are typically trained using pre-selected single-lesion images, taken under controlled conditions, which limits their use in wide-field scenes. Here, we propose a computer-aided classifier system with such input conditions to aid in the rapid identification of suspicious pigmented lesions at the primary care level. 133 patients with a multitude of skin lesions were recruited for this study. All lesions were examined by a board-certified dermatologist and classified into “suspicious” and “non-suspicious”. A new clinical database was acquired and created by taking Wide-Field images of all major body parts with a consumer-grade camera under natural illumination condition and with a consistent source of image variability. 3–8 images were acquired per patient on different sites of the body, and a total of 1759 pigmented lesions were extracted. A machine learning classifier was optimized and build into a computer aided classification system to binary classify each lesion using a suspiciousness score. In a testing set, our computer-aided classification system achieved a sensitivity of 100% for suspicious pigmented lesions that were later confirmed by dermoscopy examination (“SPL_A”) and 83.2% for suspicious pigmented lesions that were not confirmed after examination (“SPL_B”). Sensitivity for non-suspicious lesions was 72.1%, and accuracy was 75.9%. With these results we defined a suspiciousness score that is aligned with common macro-screening (naked eye) practices. This work demonstrates that wide-field photography combined with computer-aided classification systems can distinguish suspicious from non-suspicious pigmented lesions, and might be effective to assess the severity of a suspicious pigmented lesions. We believe this approach could be useful to support skin screenings at a population-level.

60 APPLIED LIFE SCIENCES↗

A Quantitative Study of Deep Learning Training on Heterogeneous Supercomputers

Deep learning (DL) has become a key technique for solving complex problems in scientific research and discovery. DL training for science is substantially challenging because it has to deal with massive quantities of multi-dimensional data. High- performance computing (HPC) supercomputers are increasingly being employed for meeting the exponentially growing demand for DL. Multiple GPUs and high-speed interconnect network are needed for supporting DL on HPC systems. However, the excessive use of GPUs without considering effective benefits leads to inefficient resource utilization of these expensive setups. In this paper, we conduct a quantitative analysis to gauge the efficacy of DL workloads on the latest HPC system and identify viability of next-generation DL-optimized heterogeneous supercomputers for enabling researchers to develop more efficient resource management and distributed DL middleware. We evaluate well- known DL models with large-scale datasets using the popular TensorFlow framework, and provide a thorough evaluation in- cluding scalability, accuracy, variability, storage resource, GPU- GPU/GPU-CPU data transfer, and GPU utilization. Our analysis reveals that the latest heterogeneous supercomputing cluster shows varying performance trend as compared to the existing literature for single- and multi-node training. To the best of our knowledge, this is the first work to conduct such a quantitative and comprehensive study of DL training on a supercomputing system with multiple GPUs.

Han, Jingoo↗

A nonvoxel-based dose convolution/superposition algorithm optimized for scalable GPU architectures

Purpose: Real-time adaptive planning and treatment has been infeasible due in part to its high computational complexity. There have been many recent efforts to utilize graphics processing units (GPUs) to accelerate the computational performance and dose accuracy in radiation therapy. Data structure and memory access patterns are the key GPU factors that determine the computational performance and accuracy. In this paper, the authors present a nonvoxel-based (NVB) approach to maximize computational and memory access efficiency and throughput on the GPU. Methods: The proposed algorithm employs a ray-tracing mechanism to restructure the 3D data sets computed from the CT anatomy into a nonvoxel-based framework. In a process that takes only a few milliseconds of computing time, the algorithm restructured the data sets by ray-tracing through precalculated CT volumes to realign the coordinate system along the convolution direction, as defined by zenithal and azimuthal angles. During the ray-tracing step, the data were resampled according to radial sampling and parallel ray-spacing parameters making the algorithm independent of the original CT resolution. The nonvoxel-based algorithm presented in this paper also demonstrated a trade-off in computational performance and dose accuracy for different coordinate system configurations. In order to find the best balance between the computed speedup and the accuracy, the authors employed an exhaustive parameter search on all sampling parameters that defined the coordinate system configuration: zenithal, azimuthal, and radial sampling of the convolution algorithm, as well as the parallel ray spacing during ray tracing. The angular sampling parameters were varied between 4 and 48 discrete angles, while both radial sampling and parallel ray spacing were varied from 0.5 to 10 mm. The gamma distribution analysis method (γ) was used to compare the dose distributions using 2% and 2 mm dose difference and distance-to-agreement criteria, respectively. Accuracy was investigated using three distinct phantoms with varied geometries and heterogeneities and on a series of 14 segmented lung CT data sets. Performance gains were calculated using three 256 mm cube homogenous water phantoms, with isotropic voxel dimensions of 1, 2, and 4 mm. Results: The nonvoxel-based GPU algorithm was independent of the data size and provided significant computational gains over the CPU algorithm for large CT data sizes. The parameter search analysis also showed that the ray combination of 8 zenithal and 8 azimuthal angles along with 1 mm radial sampling and 2 mm parallel ray spacing maintained dose accuracy with greater than 99% of voxels passing the γ test. Combining the acceleration obtained from GPU parallelization with the sampling optimization, the authors achieved a total performance improvement factor of >175 000 when compared to our voxel-based ground truth CPU benchmark and a factor of 20 compared with a voxel-based GPU dose convolution method. Conclusions: The nonvoxel-based convolution method yielded substantial performance improvements over a generic GPU implementation, while maintaining accuracy as compared to a CPU computed ground truth dose distribution. Such an algorithm can be a key contribution toward developing tools for adaptive radiation therapy systems.

60 APPLIED LIFE SCIENCES↗

Surrogate multi-fidelity data and model fusion for scientific discovery and uncertainty quantification in Earth System Models

This whitepaper addresses the Earth and Environmental Systems Sciences Division (EESSD)’s predictability challenges in modeling the integrated water cycle and data-model integration. Specifically, it focuses on reducing and characterizing the uncertainty in the representation of process models for unresolved physics, either due to model resolution or limited by the physical under standing or computational efficiency, and the use of observational data for in-situ process parameter optimization within ESM. The described methods may also be used to determine the nature of responses (e.g. strength and direction), and hence to identify critical processes that drive the overall ESM responses to perturbation in the forcing

54 ENVIRONMENTAL SCIENCES↗

Advancing our understanding of instabilities in high-energy-density systems through the study of benchmark datasets with advanced modeling tools

Numerous types of pulsed power driven inertial confinement fusion (ICF) and high energy density (HED) systems rely on implosion stability to achieve desired temperatures, pressures, and densities. Sandia National Laboratories Pulsed Power Sciences Center’s main ICF platform, Magnetized Liner Inertial Fusion (MagLIF), suffers from implosion instabilities which limit attainable fuel conditions and can compromise fuel confinement. This Truman Fellowship research primarily focused on computationally exploring (a) methods for improving our understanding of hydrodynamic and magnetohydrodynamic instabilities that form during cylindrical liner implosions, (b) methods for mitigating implosion instabilities, particularly those that degrade performance of MagLIF targets, and (c) novel MagLIF target designs intended to improve target performance primarily via enhanced implosion stability. Several multi-dimensional computational tools were used, including the magnetohydrodynamics code ALEGRA, the radiation-magnetohydrodynamics code HYDRA, and the magnetohydrodynamics code KRAKEN. This research succeeded in executing and analyzing simulations of automagnetizing liner implosions, shockless MagLIF implosions, dynamic screw pinch driven cylindrical liner implosions, and cylindrically convergent HED instability studies. The methods and tools explored and developed in this Truman Fellowship research have been published in several peer-reviewed journal articles and will serve as useful contributions to the fields of pulsed power science and engineering, particularly pertaining to pulsed power ICF and HED science.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Fluorescence Color by Data-Driven Design of Genomic Silver Clusters

DNA nucleobase sequence controls the size of DNA-stabilized silver clusters, leading to their well-known yet little understood sequence-tuned colors. The enormous space of possible DNA sequences for templating clusters has challenged the understanding of how sequence selects cluster properties and has limited the design of applications that employ these clusters. Here, we investigate the genomic role of DNA sequence for fluorescent silver clusters using a data-driven approach. Employing rapid parallel silver cluster synthesis and fluorimetry, we determine the fluorescence spectra of silver cluster products stabilized by 1432 distinct DNA oligomers. By applying pattern recognition algorithms to this large experimental data set, we discover certain DNA base patterns, or “motifs,” that correlate to silver clusters with similar fluorescence spectra. These motifs are employed in machine learning classifiers to predictively design DNA template sequences for specific fluorescence color bands. Our method improves selectivity of templates by 330% for silver clusters with peak emission wavelengths beyond 660 nm. The discovered base motifs also provide physical insights into how DNA sequence controls silver cluster size and color. Finally, this predictive design approach for color of DNA-stabilized silver clusters exhibits the potential of machine learning and data mining to increase the precision and efficiency of nanomaterials design, even for a soft-matter-inorganic hybrid system characterized by an extremely large parameter space.

59 BASIC BIOLOGICAL SCIENCES↗

Global energy spectrum of the general oceanic circulation

Abstract Advent of satellite altimetry brought into focus the pervasiveness of mesoscale eddies $${{{{{{{\bf{{{{{{{{\mathcal{O}}}}}}}}}}}}}}}}({100})$$ O ( 100 ) km in size, which are the ocean’s analogue of weather systems and are often regarded as the spectral peak of kinetic energy (KE). Yet, understanding of the ocean’s spatial scales has been derived mostly from Fourier analysis in small "representative” regions that cannot capture the vast dynamic range at planetary scales. Here, we use a coarse-graining method to analyze scales much larger than what had been possible before. Spectra spanning over three decades of length-scales reveal the Antarctic Circumpolar Current as the spectral peak of the global extra-tropical circulation, at ≈ 10 4 km, and a previously unobserved power-law scaling over scales larger than 10 3 km. A smaller spectral peak exists at ≈ 300 km associated with mesoscales, which, due to their wider spread in wavenumber space, account for more than 50% of resolved surface KE globally. Seasonal cycles of length-scales exhibit a characteristic lag-time of ≈ 40 days per octave of length-scales such that in both hemispheres, KE at 10 2 km peaks in spring while KE at 10 3 km peaks in late summer. These results provide a new window for understanding the multiscale oceanic circulation within Earth’s climate system, including the largest planetary scales.

54 ENVIRONMENTAL SCIENCES↗