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DOE OSTI2025

Bias-Variance Trade-Off in Physics-Informed Neural Networks with Randomized Smoothing for High-Dimensional PDEs

Physics-Informed Neural Networks (PINNs) have triggered a paradigm shift in scientific computing, leveraging mesh-free properties and robust approximation capabilities. While proving effective for low-dimensional partial differential equations (PDEs), the computational cost of PINNs remains a hurdle in high-dimensional scenarios. This is particularly pronounced when computing high-order and high-dimensional derivatives in the physics-informed loss. Randomized Smoothing PINN (RS-PINN) introduces Gaussian noise for stochastic smoothing of the original neural net model, enabling the use of Monte Carlo methods for derivative approximation, which eliminates the need for costly automatic differentiation. Despite its computational efficiency, especially in the approximation of high-dimensional derivatives, RS-PINN introduces biases in both loss and gradients, negatively impacting convergence, especially when coupled with stochastic gradient descent (SGD) algorithms. We present a comprehensive analysis of biases in RS-PINN, attributing them to the nonlinearity of the Mean Squared Error (MSE) loss as well as the intrinsic nonlinearity of the PDE itself. We propose tailored bias correction techniques, delineating their application based on the order of PDE nonlinearity. The derivation of an unbiased RS-PINN allows for a detailed examination of its advantages and disadvantages compared to the biased version. Specifically, the biased version has a lower variance and runs faster than the unbiased version, but it is less accurate due to the bias. To optimize the bias-variance trade-off, we combine the two approaches in a hybrid method that balances the rapid convergence of the biased version with the high accuracy of the unbiased version. In addition to methodological contributions, we present an enhanced implementation of RS-PINN. Extensive experiments on diverse high-dimensional PDEs, including Fokker-Planck, Hamilton-Jacobi-Bellman (HJB), viscous Burgers’, Allen-Cahn, and Sine-Gordon equations, illustrate the bias-variance trade-off and highlight the effectiveness of the hybrid RS-PINN. Empirical guidelines are provided for selecting biased, unbiased, or hybrid versions, depending on the dimensionality and nonlinearity of the specific PDE problem.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2024

Predictive analytics of selections of russet potatoes

We explore the application of machine learning algorithms specifically to enhance the selection process of Russet potato (Solanum tuberosum L.) clones in breeding trials by predicting their suitability for advancement. This study addresses the challenge of efficiently identifying high-yield, disease-resistant, and climate-resilient potato varieties that meet processing industry standards. Leveraging manually collected data from trials in the state of Oregon, we investigate the potential of a wide variety of state-of-the-art binary classification models. The dataset includes 1086 clones, with data on 38 attributes recorded for each clone, focusing on yield, size, appearance, and frying characteristics, with several control varieties planted consistently across four Oregon regions from 2013 to 2021. We conduct a comprehensive analysis of the dataset that includes preprocessing, feature engineering, and imputation to address missing values. We focus on several key metrics such as accuracy, F1-score, and Matthews correlation coefficient (MCC) for model evaluation. The top-performing models, namely a feedforward neural network classifier (Neural Net), a histogram-based gradient boosting classifier (HGBC), and a support vector machine classifier (SVM), demonstrate consistent and significant results. To further validate our findings, we conducted a simulation study using the aims, data-generating mechanisms, estimands, methods, and performance measures (ADEMP) framework, simulating different data-generating scenarios to assess model robustness and performance through true positive, true negative, false positive, and false negative distributions, area under the receiver operating characteristic curve (AUC-ROC) and MCC. The simulation results highlight that non-linear models like SVM and HGBC consistently show higher AUC-ROC and MCC than logistic regression, thus outperforming the traditional linear model across various distributions, and emphasizing the importance of model selection and tuning in agricultural trials. Variable selection further enhances model performance and identifies influential features in predicting trial outcomes. The findings emphasize the potential of machine learning in streamlining the selection process for potato varieties, offering benefits such as increased efficiency, substantial cost savings, and judicious resource utilization. Our study contributes insights into precision agriculture and showcases the relevance of advanced technologies for informed decision-making in breeding programs.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2023

A general infrastructure for data-driven control design and implementation in tokamaks

A general infrastructure for tokamak controllers based on data-driven neural net models is presented. The paradigm allows for more flexible choices of both the underlying model and the desired controlled variables and targets. The system is implemented and tested on the DIII-D tokamak, enacting simultaneous pressure and temperature control via a finite-set model-predictive controller. Traditional control methods such as proportional–integral–derivative (PID) have proven effective for decoupled control tasks, but scale poorly when trying to achieve more complicated goals such as full state control. This is exactly where model-based controllers succeed.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2020

Graph interpolating activation improves both natural and robust accuracies in data-efficient deep learning

Improving the accuracy and robustness of deep neural nets (DNNs) and adapting them to small training data are primary tasks in deep learning (DL) research. In this paper, we replace the output activation function of DNNs, typically the data-agnostic softmax function, with a graph Laplacian-based high-dimensional interpolating function which, in the continuum limit, converges to the solution of a Laplace–Beltrami equation on a high-dimensional manifold. Furthermore, we propose end-to-end training and testing algorithms for this new architecture. The proposed DNN with graph interpolating activation integrates the advantages of both deep learning and manifold learning. Compared to the conventional DNNs with the softmax function as output activation, the new framework demonstrates the following major advantages: First, it is better applicable to data-efficient learning in which we train high capacity DNNs without using a large number of training data. Second, it remarkably improves both natural accuracy on the clean images and robust accuracy on the adversarial images crafted by both white-box and black-box adversarial attacks. Third, it is a natural choice for semi-supervised learning. This paper is a significant extension of our earlier work published in NeurIPS, 2018. For reproducibility, the code is available at https://github.com/BaoWangMath/DNN-DataDependentActivation .

Mathematics↗

DOE OSTI2021

Formation and surface melting of nanoparticle superlattices in a solution

The wisdom in the saying of “There are no two snowflakes alike” lies in the importance of history or kinetic pathways in the phase transitions of solids. Likewise, “artificial solids,” namely superlattices consisting of functional nanoparticles, have lattice size, surface morphology, crystallinity, symmetry, and structural reconfiguration (for example, transition into a disordered state) highly dependent on the kinetic pathways as the nanoparticles interact with each other in solution [1]. Great progresses have been made in understanding the formation pathways of superlattices using liquid-phase transmission electron microscopy (TEM) [2-4]. For example, by tracking single nanoparticle’s trajectories, especially aided by U-net neural network-based machine learning, previous studies mapped the fundamental nanoparticle interactions at nanometer resolution [5]. Nonclassical, two-step nucleation pathway has also been elucidated in the system of nanoprisms, by optimizing protocols such as loading nanoparticle suspensions over the supersaturation threshold and minimizing particle‒substrate interaction [2]. Surface morphologies or exposed facets of superlattices have been shown to follow the principles of Wulff construction rule, where the facet-dependent surface energy can be measured based on the capillary wave theory [4]. However, the reverse process of crystallization of superlattices, the conversion from crystalline to disordered state, has been much less explored. On one hand, the melting of nanoparticle superlattices can provide a preferred pathway to induce structural reorganization or shuffling of building blocks for them to transform into different types of crystal structures. On the other hand, understanding nanoscale superlattice melting and comparing such behaviors with the prevailing surface melting theories developed for atomic/molecular solids can provide a potent way to engineer phase transitions of supra- and hierarchical structures constructed from nanoscale entities (e.g., DNA-coated nanoparticles, proteins), for their applications in reprogrammable and switchable materials with multifunctional properties [6, 7]. The experimental challenges to observe melting of superlattices are twofold. Practically it is difficult to load the initial superlattice form, in an intact manner, into the highly confined liquid-phase TEM chamber for in-situ observation. Here, the triggering of melting also needs meticulous manipulation of nanoparticle concentration, interparticle interaction, and solution environment.

Kim, Ahyoung↗

DOE OSTI2022

Prospects and Limitations of Predicting Fuel Ignition Properties from Low-Temperature Speciation Data

Using chemical kinetic modeling and statistical analysis, we investigate the possibility of correlating key chemical “markers”–typically small molecules–formed during very lean (φ ~ 0.001) oxidation experiments with near-stoichiometric (φ ~ 1) fuel ignition properties. One goal of this work is to evaluate the feasibility of designing a fuel-screening platform, based on small laboratory reactors that operate at low temperatures and use minimal fuel volume. Buras et al. [Combust. Flame2020,216, 472–484] have shown that convolutional neural net (CNN) fitting can be used to correlate first-stage ignition delay times (IDTs) with OH/HO2 measurements during very lean oxidation in low-T flow reactors with better than factor-of-2 accuracy. In this work, we test the limits of applying this correlation-based approach to predict the low-temperature heat release (LTHR) and total IDT, including the sensitivity of total IDT to the equivalence ratio, φ. We demonstrate that first-stage IDT can be reliably correlated with very lean oxidation measurements using compressed sensing (CS), which is simpler to implement than CNN fitting. LTHR can also be predicted via CS analysis, although the correlation quality is somewhat lower than for first-stage IDT. In contrast, the accuracy of total IDT prediction at φ = 1 is significantly lower (within a factor of 4 or worse). Furthermore, these results can be rationalized by the fact that the first-stage IDT and LTHR are primarily determined by low-temperature chemistry, whereas total IDT depends on low-, intermediate-, and high-temperature chemistry. Oxidation reactions are most important at low temperatures, and therefore, measurements of universal molecular markers of oxidation do not capture the full chemical complexity required to accurately predict the total IDT even at a single equivalence ratio. As a result, we find that φ-sensitivity of ignition delay cannot be predicted at all using solely correlation with lean low-T chemical speciation measurements.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2024

Enhanced Sampling of Crystal Nucleation with Graph Representation Learnt Variables

In this study, we present a graph neural network-based learning approach using an autoencoder setup to derive low-dimensional variables from features observed in experimental crystal structures. These variables are then biased in enhanced sampling to observe state-to-state transitions and reliable thermodynamic weights. Our approach uses simple convolution and pooling methods. To verify the effectiveness of our protocol, we examined the nucleation of various allotropes and polymorphs of iron and glycine from their molten states. Our graph latent variables when biased in well-tempered metadynamics consistently show transitions between states and achieve accurate free energy calculations in agreement with experiments, both of which are indicators of dependable sampling. This underscores the strength and promise of our graph neural net variables for improved sampling. Furthermore, the protocol shown here should be applicable for other systems and with other sampling methods.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2022

Non‐Linear Dimensionality Reduction With a Variational Encoder Decoder to Understand Convective Processes in Climate Models

Abstract Deep learning can accurately represent sub‐grid‐scale convective processes in climate models, learning from high resolution simulations. However, deep learning methods usually lack interpretability due to large internal dimensionality, resulting in reduced trustworthiness in these methods. Here, we use Variational Encoder Decoder structures (VED), a non‐linear dimensionality reduction technique, to learn and understand convective processes in an aquaplanet superparameterized climate model simulation, where deep convective processes are simulated explicitly. We show that similar to previous deep learning studies based on feed‐forward neural nets, the VED is capable of learning and accurately reproducing convective processes. In contrast to past work, we show this can be achieved by compressing the original information into only five latent nodes. As a result, the VED can be used to understand convective processes and delineate modes of convection through the exploration of its latent dimensions. A close investigation of the latent space enables the identification of different convective regimes: (a) stable conditions are clearly distinguished from deep convection with low outgoing longwave radiation and strong precipitation; (b) high optically thin cirrus‐like clouds are separated from low optically thick cumulus clouds; and (c) shallow convective processes are associated with large‐scale moisture content and surface diabatic heating. Our results demonstrate that VEDs can accurately represent convective processes in climate models, while enabling interpretability and better understanding of sub‐grid‐scale physical processes, paving the way to increasingly interpretable machine learning parameterizations with promising generative properties.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2025

Assessing time-dependent temperature profile predictions using reduced transport models for high performing NSTX plasmas

Time-dependent, predictive simulations were performed with the 1.5D tokamak integrated modeling code TRANSP on a large set of well-analyzed, high performing discharges from the National Spherical Torus Experiment (NSTX) in order to evaluate how well modern reduced transport models can reproduce experimentally observed temperature profiles in spherical tokamaks. Overall, it is found that simulations using the Multi-Mode Model (MMM) more consistently agree with the NSTX observations than those using the Trapped Gyro-Landau Fluid (TGLF) model, despite TGLF requiring orders of magnitude greater computational cost. When considering all examined discharges, MMM has median overpredictions of electron temperature (T e ) and ion temperature (T i ) profiles of 28% and 27%, respectively, relative to the experiment. TGLF overpredicts T e by 46%, with much larger variance than MMM, and underpredicts T i by 25%. As the ratio of kinetic to magnetic field pressure (β) is increased across NSTX discharges, TGLF predicts lower T e and significant flattening of the T i profile, conflicting with NSTX observations. When using an electrostatic version of TGLF, both T e and T i are substantially overpredicted, underscoring the importance of electromagnetic turbulence in the high β spherical tokamak regime. Additionally, calculations with neural net surrogate models for TGLF were performed outside of TRANSP with a time slice flux matching transport solver, finding better agreement with experiment than the TRANSP simulations, highlighting the impact of different transport solvers and simulation techniques. Furthermore, the reasonable agreement with experiment of temperature profiles predicted by MMM motivates a more detailed examination of the sensitivities of the TRANSP simulations with MMM to different NSTX plasma regimes in a companion paper (Lestz et al Plasma Phys. Control. Fusion 67 105030), in preparation for self-consistent, time-dependent predictive modeling of NSTX-U scenarios.

Lestz, J. B. [General Atomics, San Diego, CA (Unit↗

DOE OSTI2022

Deep learning unresolved lensed light curves

ABSTRACT Gravitationally lensed sources may have unresolved or blended multiple images, and for time varying sources, the light curves from individual images can overlap. We use convolutional neural nets to both classify the light curves as due to unlensed, double, or quad lensed sources and fit for the time delays. Focusing on lensed supernova systems with time delays Δt ≳ 6 d, we achieve 100 per cent precision and recall in identifying the number of images and then estimating the time delays to σΔt ≈ 1 d, with a 1000× speedup relative to our previous Monte Carlo technique. This also succeeds for flux noise levels $\sim 10{{\ \rm per\ cent}}$. For Δt ∈ [2, 6] d, we obtain 94–98 per cent accuracy, depending on image configuration. We also explore using partial light curves where observations only start near maximum light, without the rise time data, and quantify the success.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2024

Learning energy-based representations of quantum many-body states

Efficient representation of quantum many-body states on classical computers is a problem of practical importance. An ideal representation of a quantum state combines a succinct characterization informed by the structure and symmetries of the system along with the ability to predict the physical observables of interest. Several machine-learning approaches have been recently used to construct such classical representations, which enable predictions of observables and account for physical symmetries. However, the structure of a quantum state typically gets lost unless a specialized is employed based on prior knowledge of the system. Moreover, most such approaches give no information about what states are easier to learn in comparison with others. Here, we propose a generative energy-based representation of quantum many-body states derived from Gibbs distributions used for modeling the thermal states of classical spin systems. Based on the prior information on a family of quantum states, the energy function can be specified by a small number of parameters using an explicit low-degree polynomial or a generic parametric family such as neural nets and can naturally include the known symmetries of the system. Our results show that such a representation can be efficiently learned from data using exact algorithms in a form that enables the prediction of expectation values of physical observables. Importantly, the structure of the learned energy function provides a natural explanation for the difficulty of learning an energy-based representation of a given class of quantum states when measured in a certain basis. Published by the American Physical Society 2024

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2020

Provable Convergence of Plug-and-Play Priors With MMSE Denoisers

Plug-and-play priors (PnP) is a methodology for regularized image reconstruction that specifies the prior through an image denoiser. While PnP algorithms are well understood for denoisers performing maximum a posteriori probability (MAP) estimation, they have not been analyzed for the minimum mean squared error (MMSE) denoisers. Here we address this gap by establishing the first theoretical convergence result for the iterative shrinkage/thresholding algorithm (ISTA) variant of PnP for MMSE denoisers. We show that the iterates produced by PnP-ISTA with an MMSE denoiser converge to a stationary point of some global cost function. We validate our analysis on sparse signal recovery in compressive sensing by comparing two types of denoisers, namely the exact MMSE denoiser and the approximate MMSE denoiser obtained by training a deep neural net.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2022

R-Stream 3.22.3-DOE

R-stream release 3.22.3 including the Glow and TVM front-ends, and the features developed in the Portacy 2B, X-MAT and STAPL projects. R-Stream is an automatic parallelization, source-to-source compiler. The TVM and Glow front-ends to R-Stream were developed to automatically map neural net models to parallel computers using openMP and CUDA (for Glow).

Meister, Benoit↗

DOE OSTI2023

QC-GN2OMS2

The QC-GN2OMS2 neural network was designed to predict mass spectra better than currently available approaches. Fundamentally the neural net is designed to input the structure of a molecule and collision energy value then output a spectra datafile for the end user. This software is able to make predictions orders of magnitude faster (milliseconds) than QC methods and with 50-60% greater accuracy than rules approaches.

Overstreet, Richard↗

DOE OSTI2024

MLUQ (Uncertainty quantification for ML closure models) [SWR-24-36]

Data-based closure models are increasingly being used to replace physic-based closure models because of their flexibility and the growing availability of data. However, closure models are subject to uncertainty because of lack of data in parts of the input space (epistemic uncertainty) or because of noise in the data (aleatoric uncertainty). This software contains a toolbox for training bayesian neural nets that can estimate both uncertainties. A specific treatment is provided to ensure accuracy outside of the data distribution. A set of tools are provided to reduce the dimensionality of the uncertain parameter space, thereby enabling fast uncertainty propagation.

Hassanaly, Malik↗

DOE OSTI2024

pyKinML

SAND2024-13788O pyKinML software is used to train neural net potential energy surfaces for hydrocarbon molecules. The models study reaction kinetics but can be used for other purposes as well, such as running molecular dynamics simulation. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

Najm, Habib↗

DOE OSTI2026

CHM-MS-net-Canopy-Height-Model

The CHM-MS-net Canopy Height Model is a MS-net neural network applied to high resolution satellite imagery to estimate tree height, tree location, and crown radius.

Atchley, Adam↗

DOE OSTI2020

Rapid Assessment of Autoignition Propensity in Novel Fuels and Blends

We developed a computational strategy to correlate bulk combustion metrics of novel fuels and blends in the low-temperature autoignition regime with measurements of key combustion intermediates in a small-volume, dilute, high-pressure reactor. We used neural net analysis of a large simulation dataset to obtain an approximate correlation and proposed experimental and computational steps needed to refine such a predictive correlation. We also designed and constructed a high-pressure laboratory apparatus to conduct the proposed measurements and demonstrated its performance on three canonical fuels: n-heptane, i-octane, and dimethyl ether.

10 SYNTHETIC FUELS↗