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At least 289 records · Page 16

Similarity Metric for Data Optimization and Efficient Training of Reactive Machine Learning Force Fields for Hydrocarbon Radiolysis

Radiolysis is a common approach to sterilize polymers, chemically modify them for upcycling, and accelerate their decomposition for recycling purposes. Reactive molecular dynamics (MD) simulations provide a powerful tool to generate atomic-level trajectories of the reactive processes and quantify radiolytic chemical degradation pathways. For this, machine learning (ML) surrogate models for reactive force fields with quantum mechanical accuracy are now widely used, which require ML training data sets that can provide information on atomic environments for target chemical systems. However, radiolysis chemistry can be highly complex and diverse, which poses significant challenges for generating training data to parametrize ML models. In this regard, we developed a method for optimizing the training data set using a cosine similarity metric to help guide training set selection for radiolysis of polyethylene, a model hydrocarbon polymer, as well as to enhance the transferability of our reactive ML force field (MLFF) to a variety of molecular and polymeric systems. Our approach performs atom-by-atom comparisons between local atomic environments to pinpoint important data points associated with rare and localized events, such as radiolysis damage within structures. We apply this approach to train the Chebyshev Interaction Model for Efficient Simulation (ChIMES) MLFF model, which expresses the atomic interaction potentials in terms of linear combinations of many-body Chebyshev polynomials. We first show that our method can reduce our training set size by ∼70% while improving overall accuracy compared to more standard MD model fitting approaches. We then validate our optimum model against diverse hydrocarbon simulation data, including simple alkanes and systems with unsaturated carbon bonds, over a wide range of thermodynamic conditions. Finally, we use our ChIMES model to perform MD simulations of radiolytic damage with large-scale systems that help avoid system size effects. Overall, our approach yields an MD force field that retains most of the accuracy of the underlying quantum method while yielding many orders of improvement in computational efficiency. In conclusion, our efforts will have impact on future hydrocarbon polymer radiolysis studies, where the chemical details of the polymer–radiation interactions can have a strong effect on the resulting products observed in experiments.

Hydrocarbons↗

Optimizing Neutrino Flavor Conversion Measurements through Machine Learning

The phenomenon of neutrino flavor conversion whereby the flavor of a neutrino particle can change between its time of production and later detection was the first definitive evidence of physics beyond the Standard Model. Some of the oscillation parameters used to describe this conversion are not yet well measured, leaving important questions still open regarding flavor conversion both in vacuum and as neutrinos travel through matter. NOvA is a long-baseline neutrino oscillation experiment that uses Fermilab's predominantly $\nu_\mu$ NuMI beam. A 14 kton oil-based liquid scintillator far detector 810 km away is used to measure neutrino oscillation through the $\nu_\mu$ disappearance and $\nu_e$ appearance channels. Super-K is a 50 kton water Cherenkov detector, which measures the disappearance of $\nu_e$ produced during solar fusion. The high density environment of the sun decreases the $\nu_e$ survival probability at higher energies observable in Super-K compared to the vacuum-dominated oscillations at lower energies. However, the transition region is overshadowed by radioactive background in the detector. In both of these experiments, the separation of neutrino detection events from background and classification of neutrino flavor are crucial tasks that benefit from the introduction of machine learning. Chapter 1 gives an overview of neutrinos and the context under which flavor conversion is measured in this dissertation. Chapters 2-7 present the results of a Bayesian sampling approach for the latest NOvA 3-flavor oscillation analysis with $26.6 \times 10^{20}$ protons on target in neutrino mode and $12.5 \times 10^{20}$ in antineutrino mode collected over 10 years. Chapters 8-13 present the results of extending the Super-K solar analysis to lower energies during its fourth phase with 2970 days of livetime.

Yankelevich, Alejandro Jaime [UC, Irvine]↗

Optimizing Neutrino Flavor Conversion Measurements through Machine Learning

The phenomenon of neutrino flavor conversion whereby the flavor of a neutrino particle can change between its time of production and later detection was the first definitive evidence of physics beyond the Standard Model. Some of the oscillation parameters used to describe this conversion are not yet well measured, leaving important questions still open regarding flavor conversion both in vacuum and as neutrinos travel through matter. NOvA is a long-baseline neutrino oscillation experiment that uses Fermilab's predominantly $\nu_\mu$ NuMI beam. A 14 kton oil-based liquid scintillator far detector 810 km away is used to measure neutrino oscillation through the $\nu_\mu$ disappearance and $\nu_e$ appearance channels. Super-K is a 50 kton water Cherenkov detector, which measures the disappearance of $\nu_e$ produced during solar fusion. The high density environment of the sun decreases the $\nu_e$ survival probability at higher energies observable in Super-K compared to the vacuum-dominated oscillations at lower energies. However, the transition region is overshadowed by radioactive background in the detector. In both of these experiments, the separation of neutrino detection events from background and classification of neutrino flavor are crucial tasks that benefit from the introduction of machine learning. Chapter 1 gives an overview of neutrinos and the context under which flavor conversion is measured in this dissertation. Chapters 2-7 present the results of a Bayesian sampling approach for the latest NOvA 3-flavor oscillation analysis with $26.6 \times 10^{20}$ protons on target in neutrino mode and $12.5 \times 10^{20}$ in antineutrino mode collected over 10 years. Chapters 8-13 present the results of extending the Super-K solar analysis to lower energies during its fourth phase with 2970 days of livetime.

Yankelevich, Alejandro Jaime [UC, Irvine]↗

Optimizing Neutrino Flavor Conversion Measurements through Machine Learning

The phenomenon of neutrino flavor conversion whereby the flavor of a neutrino particle can change between its time of production and later detection was the first definitive evidence of physics beyond the Standard Model. Some of the oscillation parameters used to describe this conversion are not yet well measured, leaving important questions still open regarding flavor conversion both in vacuum and as neutrinos travel through matter. NOvA is a long-baseline neutrino oscillation experiment that uses Fermilab's predominantly $\nu_\mu$ NuMI beam. A 14 kton oil-based liquid scintillator far detector 810 km away is used to measure neutrino oscillation through the $\nu_\mu$ disappearance and $\nu_e$ appearance channels. Super-K is a 50 kton water Cherenkov detector, which measures the disappearance of $\nu_e$ produced during solar fusion. The high density environment of the sun decreases the $\nu_e$ survival probability at higher energies observable in Super-K compared to the vacuum-dominated oscillations at lower energies. However, the transition region is overshadowed by radioactive background in the detector. In both of these experiments, the separation of neutrino detection events from background and classification of neutrino flavor are crucial tasks that benefit from the introduction of machine learning. Chapter 1 gives an overview of neutrinos and the context under which flavor conversion is measured in this dissertation. Chapters 2-7 present the results of a Bayesian sampling approach for the latest NOvA 3-flavor oscillation analysis with $26.6 \times 10^{20}$ protons on target in neutrino mode and $12.5 \times 10^{20}$ in antineutrino mode collected over 10 years. Chapters 8-13 present the results of extending the Super-K solar analysis to lower energies during its fourth phase with 2970 days of livetime.

Yankelevich, Alejandro Jaime [UC, Irvine] (ORCID:0↗

DeCOIL: Optimization of Degenerate Codon Libraries for Machine Learning-Assisted Protein Engineering

With advances in machine learning (ML)-assisted protein engineering, models based on data, biophysics, and natural evolution are being used to propose informed libraries of protein variants to explore. Synthesizing these libraries for experimental screens is a major bottleneck, as the cost of obtaining large numbers of exact gene sequences is often prohibitive. Degenerate codon (DC) libraries are a cost-effective alternative for generating combinatorial mutagenesis libraries where mutations are targeted to a handful of amino acid sites. However, existing computational methods to optimize DC libraries to include desired protein variants are not well suited to design libraries for ML-assisted protein engineering. To address these drawbacks, we present DEgenerate Codon Optimization for Informed Libraries (DeCOIL), a generalized method which directly optimizes DC libraries to be useful for protein engineering: to sample protein variants that are likely to have both high fitness and high diversity in the sequence search space. Using computational simulations and wet-lab experiments, we demonstrate that DeCOIL is effective across two specific case studies, with potential to be applied to many other use cases. DeCOIL offers several advantages over existing methods, as it is direct, easy-to-use, generalizable, and scalable. With accompanying software, DeCOIL can be readily implemented to generate desired informed libraries.

59 BASIC BIOLOGICAL SCIENCES↗

Leveraging Multitime Hamilton–Jacobi PDEs for Certain Scientific Machine Learning Problems

Hamilton-Jacobi partial differential equations (HJ PDEs) have deep connections with a wide range of fields, including optimal control, differential games, and imaging sciences. By considering the time variable to be a higher dimensional quantity, HJ PDEs can be extended to the multi-time case. In this paper, we establish a novel theoretical connection between specific optimization problems arising in machine learning and the multi-time Hopf formula, which corresponds to a representation of the solution to certain multi-time HJ PDEs. Through this connection, we increase the interpretability of the training process of certain machine learning applications by showing that when we solve these learning problems, we also solve a multi-time HJ PDE and, by extension, its corresponding optimal control problem. As a first exploration of this connection, we develop the relation between the regularized linear regression problem and the Linear Quadratic Regulator (LQR). We then leverage our theoretical connection to adapt standard LQR solvers (namely, those based on the Riccati ordinary differential equations) to design new training approaches for machine learning. Lastly, we provide some numerical examples that demonstrate the versatility and possible computational advantages of our Riccati-based approach in the context of continual learning, post-training calibration, transfer learning, and sparse dynamics identification.

97 MATHEMATICS AND COMPUTING↗

Extreme-scale stochastic optimization and simulation via learning-enhanced decomposition and parallelization (Final Technical Report)

Stochastic optimization and simulation models ubiquitously arise in designing and operating complex service/engineering systems. They can be extreme in scale due to high-dimensional data and decisions, and can also involve decisions made sequentially in response to newly revealed data, both causing significant computational challenge. The objective of this research is to explore a unified framework that integrates machine learning with discrete optimization and risk-averse modeling, to improve the efficiency of decomposition paradigms for stochastic optimization and simulations at extreme scale. The models we consider represent a broad class of complex decision-making problems, where 0-1 or continuous decisions are made before and/or after knowing multiple sources of uncertainties that could be correlated. We will employ machine learning methods to dynamically decide and prioritize computational procedures, including cut generation, branching, and bounding of the optimal objective. Furthermore, the research will shed new lights on the traditional decomposition algorithms for extreme-scale computing. Deliverables of the research include new modeling and computational methods for advancing the state-of-the-art research in optimization and simulation, bringing many relevant risk-averse, data-driven optimization problems in practice within the range of tractability. Examples include distributed computing server scheduling and sensor deployment for monitoring critical infrastructures. Success in this effort will enable progress in solving multiple extreme-scale problems in the complex system design and operations arising from DoE missions in energy, environment, and national security.

24 POWER TRANSMISSION AND DISTRIBUTION↗

rlmolecule: A library for general-purpose material and molecular optimization using AlphaZero-style reinforcement learning

This library includes in-progress code for the optimization of materials and molecules using reinforcement learning. This project seeks to develop a generalized machine learning approach for optimizing targeted, and often complex, functional properties over the space of possible material structures, allowing faster identification of promising candidates. Electronic and transport properties of materials are determined by their molecular structure (for molecules) or their crystal structure (for in-organic crystalline materials). The atomic composition, bonding, and 3-D-spatial arrangement in these systems therefore represent a vast, discontinuous search space for optimal candidates. This library implements AlphaZero style reinforcement learning applied to two worked examples: the optimization of stable organic radicals for redox flow batteries, and the determination of stable electrolyte species for solid state batteries. The current code contains proof-of-concept results run on the Eagle HPC system, while the completed package will be a flexible tool for material optimization across of number of energy-relevant fields, which leverages cloud compute resources for the majority of the computational heavy lifting.

Biagioni, David↗

Technical Report for Bayesian Optimization and Reinforcement Learning for Beam Polarization Increase in the BNL Hadron Injectors

This project developed and evaluated physics-informed Bayesian learning and machine learning (ML)-based optimization methods for improving beam polarization preservation in the BNL hadron injector chain. The work focused on uncertainty-aware digital twin modeling, Bayesian calibration of accelerator simulations using beam measurements, and data-efficient optimization strategies including Bayesian optimization and reinforcement learning. These methods were applied to injector tuning and RF control problems in realistic accelerator settings to support improved operational robustness and readiness for RHIC operations and future Electron–Ion Collider facilities. No subject inventions were disclosed under this award.

43 PARTICLE ACCELERATORS↗

High-Performance Iridium–Molybdenum Oxide Electrocatalysts for Water Oxidation in Acid: Bayesian Optimization Discovery and Experimental Testing

Ir oxides are costly and scarce catalysts for oxygen evolution reaction (OER) in acid. There has been extensive interest in developing alternatives that are either Ir-free or require smaller amounts of Ir to drive the reactions at acceptable rates. One design strategy is to identify Ir-based mixed oxides that achieve similar performance while requiring smaller amounts of Ir. The obstacle to this strategy has been a very large phase space of the Ir-based mixed metal oxides, in terms of the metals combined with Ir and the different crystallographic structures of the mixed oxides, which prevents a thorough exploration of possible materials. In this work, we developed a workflow that uses machine-learning-aided Bayesian optimization in combination with density functional theory to make the exploration of this phase space plausible. This screening identified Mo as a promising dopant for forming acid-tolerant Ir-based oxides for the OER. We synthesized and characterized the Ir–Mo mixed oxides in the form of thin-film electrocatalysts with a known surface area. We show that these mixed oxides exhibited overpotentials ~30 mV lower than a pure Ir control while maintaining 24% lower Ir dissolution rates than the Ir control. Furthermore, these findings suggest that Mo is a promising dopant and highlight the promise of machine learning to guide the experimental exploration and optimization of catalytic materials.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Conceptual Design of Integrated Energy Systems with Market Interaction Surrogate Models

Most integrated energy system (IES) optimization frameworks employ the price-taker approximation, which ignores important interactions with the market and can result in overestimated economic values. In this work, we propose a machine learning surrogate-assisted optimization framework to quantify IES/market interactions and thus go beyond price-taker. We use time series clustering to generate representative IES operation profiles for the optimization problem and use machine learning surrogate models to predict the IES/market interaction. We quantify the accuracy of the time series clustering and surrogate models in a case study to optimally retrofit a nuclear power plant with a polymer electrolyte membrane electrolyzer to co-produce electricity and hydrogen.

Chen, Xinhe↗