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At least 685 records · Page 38

TH-CD-206-05: Machine-Learning Based Segmentation of Organs at Risks for Head and Neck Radiotherapy Planning

Purpose: Accurate and efficient delineation of tumor target and organs-at-risks is essential for the success of radiotherapy. In reality, despite of decades of intense research efforts, auto-segmentation has not yet become clinical practice. In this study, we present, for the first time, a deep learning-based classification algorithm for autonomous segmentation in head and neck (HaN) treatment planning. Methods: Fifteen HN datasets of CT, MR and PET images with manual annotation of organs-at-risk (OARs) including spinal cord, brainstem, optic nerves, chiasm, eyes, mandible, tongue, parotid glands were collected and saved in a library of plans. We also have ten super-resolution MR images of the tongue area, where the genioglossus and inferior longitudinalis tongue muscles are defined as organs of interest. We applied the concepts of random forest- and deep learning-based object classification for automated image annotation with the aim of using machine learning to facilitate head and neck radiotherapy planning process. In this new paradigm of segmentation, random forests were used for landmark-assisted segmentation of super-resolution MR images. Alternatively to auto-segmentation with random forest-based landmark detection, deep convolutional neural networks were developed for voxel-wise segmentation of OARs in single and multi-modal images. The network consisted of three pairs of convolution and pooing layer, one RuLU layer and a softmax layer. Results: We present a comprehensive study on using machine learning concepts for auto-segmentation of OARs and tongue muscles for the HaN radiotherapy planning. An accuracy of 81.8% in terms of Dice coefficient was achieved for segmentation of genioglossus and inferior longitudinalis tongue muscles. Preliminary results of OARs regimentation also indicate that deep-learning afforded an unprecedented opportunities to improve the accuracy and robustness of radiotherapy planning. Conclusion: A novel machine learning framework has been developed for image annotation and structure segmentation. Our results indicate the great potential of deep learning in radiotherapy treatment planning.

60 APPLIED LIFE SCIENCES↗

Use of Graph Theory and Neural Networks for Microstructural Classification

Recent advances in materials data analytics have provided new avenues for determining process-structure-property (PSP) linkages in a variety of materials. Machine learning techniques including few-shot learning have increased the efficiency of classifying microscopy images for the purposes of material characterization. Modifications in segmentation also show potential in improving the accuracy of our current pyCHIP classifier. Replacing previous encoders trained on ImageNet with those trained on microscopy images like MicroNet has initially shown better performance at classifying images of irradiated samples. Additionally, different normalization approaches were tested to show no discernable effect on classification. The Louvain method for community detection is analyzed on a set of irradiated samples with different parameters to determine which proved beneficial under what circumstances. We suggest that microscopy experiments be automated in the future using a combination of these techniques to enable high-throughput analyses.

36 MATERIALS SCIENCE↗

RockFlow: Fast Generation of Synthetic Source Rock Images Using Generative Flow Models

Image-based evaluation methods are a valuable tool for source rock characterization. The time and resources needed to obtain images has spurred development of machine-learning generative models to create synthetic images of pore structure and rock fabric from limited image data. While generative models have shown success, existing methods for generating 3D volumes from 2D training images are restricted to binary images and grayscale volume generation requires 3D training data. Shale characterization relies on 2D imaging techniques such as scanning electron microscopy (SEM), and grayscale values carry important information about porosity, kerogen content, and mineral composition of the shale. Here, we introduce RockFlow, a method based on generative flow models that creates grayscale volumes from 2D training data. We apply RockFlow to baseline binary micro-CT image volumes and compare performance to a previously proposed model. We also show the extension of our model to 2D grayscale data by generating grayscale image volumes from 2D SEM and dual modality nanoscale shale images. The results show that our method underestimates the porosity and surface area on the binary baseline datasets but is able to generate realistic grayscale image volumes for shales. With improved binary data preprocessing, we believe that our model is capable of generating synthetic porous media volumes for a very broad class of rocks from shale to carbonates to sandstone.

58 GEOSCIENCES↗

A simplified regression building thermal modelling method for detached two-floor house in U.S.

The residential building sector accounts for approximately 37% of total U.S. electricity consumption. Within the residential building sector, heating and cooling is the main target for peak load shifting/reduction since it is the largest contributor to peak demand. In fact, the flexibility of residential HVAC loads can provide continuous variation of demand to provide grid services by varying their demand over a baseline. The performance of HVAC load control to provide grid services relies heavily on the accuracy of indoor air temperature or cooling/heating demand predictions and therefore the quality of building model. Besides forward models, popular building models are data-driven models which can be broken down into two categories: gray-box model, e.g. Resistance-Capacitance (RC) model and black-box model. RC model, also called lumped capacitance or network model, which is constituted with electrical analogue pattern with resistance (R) and capacitance (C). In general, RC models require considerable computation burden and long periods of data to train limited number of model coefficients. Black-box models have gained increasing interest due to their capability in analyzing large-scale data and flexibility in practical applications. But, the data-mining based (machine learning algorithms/techniques based) models tend to have invisible model structures which poses a problem when trying to use the model for optimal control or model predictive control of the HVAC system. Hence, there is a continuing need for efficient online system identification techniques, which can provide explicit parameters for the model. Traditional regression models fit well for this specific purpose. This paper presents an innovative way to predict average indoor temperature in separate floors of typical detached residential house. A rolling horizon linear regression model, which includes online adaptive correction component, is proposed to predict the temperature difference between downstairs and upstairs. A RC model is used to predict the overall mean indoor air temperature. Since the adaptive algorithm needs to be implemented online, a less computation-demanding polynomial fitting algorithm is adopted. This kind of fitting problem can be cast as linear regression problem with multiple variables, parameters of which can be efficiently obtained by well-known gradient descent method.The validation is conducted by comparing the predicted results with the results from data-mining based models as well as measured data from a real typical detached two-floor house. The results show that the developed method has satisfactory performance in predicting the building indoor temperature in 1st and 2nd floors.

Cui, Borui↗

Enhancing SRF cavity stability and minimizing detuning with data-driven resonance control based on dynamic mode decomposition

Effective resonance control of superconducting radio frequency (SRF) cavities is critical for large machines like LCLS-II, as failure to achieve proper control can result in increased RF power consumption, higher cryogenic heat loads, and increased costs. To address this challenge, we have developed a machine learning (ML) model based on the dynamic mode decomposition method to represent the forced cavity dynamics. Using this model, we designed a model predictive controller (MPC) and demonstrated through simulation that the MPC can effectively stabilize the amplitude and phase of SRF cavities using only a frequency actuator, even in the presence of multiple mechanical modes. The lightweight and explicit ML model makes the controller suitable for direct implementation on field-programmable gate arrays, unlocking the full potential of SRF linacs like LCLS-II, enabling higher beam power and energy, and also serving as an advanced motion controller for various applications, such as photon beamlines and storage rings.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Predicting Volume of Distribution in Humans: Performance of In Silico Methods for a Large Set of Structurally Diverse Clinical Compounds

Volume of distribution at steady state (V D,ss ) is one of the key pharmacokinetic parameters estimated during the drug discovery process. Despite considerable efforts to predict V D,ss , accuracy and choice of prediction methods remain a challenge, with evaluations constrained to a small set (<150) of compounds. To address these issues, a series of in silico methods for predicting human V D,ss directly from structure were evaluated using a large set of clinical compounds. Machine learning (ML) models were built to predict V D,ss directly and to predict input parameters required for mechanistic and empirical V D,ss predictions. In addition, log D, fraction unbound in plasma (fup), and blood-to-plasma partition ratio (BPR) were measured on 254 compounds to estimate the impact of measured data on predictive performance of mechanistic models. Furthermore, the impact of novel methodologies such as measuring partition (Kp) in adipocytes and myocytes (n = 189) on V D,ss predictions was also investigated. In predicting V D,ss directly from chemical structures, both mechanistic and empirical scaling using a combination of predicted rat and dog V D,ss demonstrated comparable performance (62%–71% within 3-fold). The direct ML model outperformed other in silico methods (75% within 3-fold, r 2 = 0.5, AAFE = 2.2) when built from a larger data set. Scaling to human from predicted V D,ss of either rat or dog yielded poor results (<47% within 3-fold). Measured fup and BPR improved performance of mechanistic V D,ss predictions significantly (81% within 3-fold, r 2 = 0.6, AAFE = 2.0). Adipocyte intracellular Kp showed good correlation to the V D,ss but was limited in estimating the compounds with low V D,ss .

59 BASIC BIOLOGICAL SCIENCES↗

Predicting defect behavior in B2 intermetallics by merging ab initio modeling and machine learning

We present a combination of machine learning and high throughput calculations to predict the points defects behavior in binary intermetallic (A-B) compounds, using as an example systems with the cubic B2 crystal structure (with equiatomic AB stoichiometry). To the best of our knowledge, this work is the first application of machine learning-models for point defect properties. High throughput first principles density functional calculations have been employed to compute intrinsic point defect energies in 100 B2 intermetallic compounds. The systems are classified into two groups: (i) those for which the intrinsic defects are antisites for both A and B rich compositions, and (ii) those for which vacancies are the dominant defect for either or both composition ranges. The data was analyzed by machine learning-techniques using decision tree, and full and reduced multiple additive regression tree (MART) models. Among these three schemes, a reduced MART (r-MART) model using six descriptors (formation energy, minimum and difference of electron densities at the Wigner-Seitz cell boundary, atomic radius difference, maximal atomic number and maximal electronegativity) presents the highest fit (98 %) and predictive (75 %) accuracy. This model is used to predict the defect behavior of other B2 compounds, and it is found that 45 % of the compounds considered feature vacancies as dominant defects for either A or B rich compositions (or both). The ability to predict dominant defect types is important for the modeling of thermodynamic and kinetic properties of intermetallic compounds, and the present results illustrate how this information can be derived using modern tools combining high throughput calculations and data analytics.

97 MATHEMATICS AND COMPUTING↗

Advancing Methodologies for Applying Machine Learning and Evaluating Spatiotemporal Models of Fine Particulate Matter (PM 2.5 ) Using Satellite Data Over Large Regions

Reconstructing the distribution of fine particulate matter (PM 2.5 ) in space and time, even far from ground monitoring sites, is an important exposure science contribution to epidemiologic analyses of PM 2.5 health impacts. Flexible statistical methods for prediction have demonstrated the integration of satellite observations with other predictors, yet these algorithms are susceptible to overfitting the spatiotemporal structure of the training datasets. We present a new approach for predicting PM 2.5 using machine-learning methods and evaluating prediction models for the goal of making predictions where they were not previously available. We apply extreme gradient boosting (XGBoost) modeling to predict daily PM 2.5 on a 1 x 1 km 2 resolution for a 13 state region in the Northeastern USA for the years 2000–2015 using satellite-derived aerosol optical depth and implement a recursive feature selection to develop a parsimonious model. We demonstrate excellent predictions of withheld observations but also contrast an RMSE of 3.11 μg/m 3 in our spatial cross-validation withholding nearby sites versus an overfit RMSE of 2.10 μg/m 3 using a more conventional random ten-fold splitting of the dataset. As the field of exposure science moves forward with the use of advanced machine-learning approaches for spatiotemporal modeling of air pollutants, our results show the importance of addressing data leakage in training, overfitting to spatiotemporal structure, and the impact of the predominance of ground monitoring sites in dense urban sub-networks on model evaluation. The strengths of our resultant modeling approach for exposure in epidemiologic studies of PM 2.5 include improved efficiency, parsimony, and interpretability with robust validation while still accommodating complex spatiotemporal relationships.

air pollution↗

Learning a general model of single phase flow in complex 3D porous media

Modeling effective transport properties of 3D porous media, such as permeability, at multiple scales is challenging as a result of the combined complexity of the pore structures and fluid physics—in particular, confinement effects which vary across the nanoscale to the microscale. While numerical simulation is possible, the computational cost is prohibitive for realistic domains, which are large and complex. Although machine learning (ML) models have been proposed to circumvent simulation, none so far has simultaneously accounted for heterogeneous 3D structures, fluid confinement effects, and multiple simulation resolutions. By utilizing numerous computer science techniques to improve the scalability of training, we have for the first time developed a general flow model that accounts for the pore-structure and corresponding physical phenomena at scales from Angstrom to the micrometer. Using synthetic computational domains for training, our ML model exhibits strong performance (R 2 = 0.9) when tested on extremely diverse real domains at multiple scales.

36 MATERIALS SCIENCE↗

Machine Learning for Mapping Multipactor Susceptibility in RF Systems: Capabilities and Generalization Constraints

Multipactor is a surface-driven electron avalanche phenomenon that degrades the performance and reliability of radio-frequency (RF) systems in particle accelerator and vacuum electronics applications. Multipactor behavior in a given device structure is conventionally assessed through susceptibility charts, which provide a parameter-space characterization of the instability. In this work, we assess the capabilities of machine-learning (ML) models to learn and predict such susceptibility charts and analyze the constraints governing their generalization across materials. Using a simulation-derived dataset spanning six distinct secondary-electron-yield material profiles in a canonical two-surface planar geometry, we train supervised regression models and artificial neural networks to predict the time-averaged electron growth rate, δavg, across the relevant parameter space. Model performance is evaluated using metrics that explicitly probe the structure of susceptibility charts, including Intersection over Union, Structural Similarity Index, and correlation analysis. Tree-based ensemble models outperform neural-network models in reconstructing susceptibility regions and in generalizing across material domains. Principal-component analysis reveals disjoint material feature distributions, indicating that the piecewise mode structure of multipactor susceptibility is difficult to represent with a single global model and that generalization is constrained by data coverage rather than by model complexity. An exhaustive reduced-coverage study further shows that sparse material-space coverage can yield mean performance in the same general range but producing large variability in the susceptibility-region overlap. These results clarify the capabilities of ML-based surrogate models for parameter-space characterization of multipactor discharge. They also provide guidance for their appropriate use in RF system design.

43 PARTICLE ACCELERATORS↗

Optimizing Management of Persistent Data Structures in High-Performance Analytics

Large-scale data analytics workflows ingest massive input data into various data structures, including graphs and key-value datastores. These data structures undergo multiple transformations and computations and are typically reused in incremental and iterative analytics workflows. Persisting in-memory views of these data structures enables reusing them beyond the scope of a single program run while avoiding repetitive raw data ingestion overheads. Memory-mapped I/O enables persisting in-memory data structures without data serialization and deserialization overheads. However, memory-mapped I/O lacks the key feature of persisting consistent snapshots of these data structures for incremental ingestion and processing. The obstacles to efficient virtual memory snapshots using memory-mapped I/O include background writebacks outside the application’s control, and the significantly high storage footprint of such snapshots. To address these limitations, we present Privateer, a memory and storage management tool that enables storage-efficient virtual memory snapshotting while also optimizing snapshot I/O performance. Here, we integrated Privateer into Metall, a state-of-the-art persistent memory allocator for C++, and the Lightning Memory-Mapped Database (LMDB), a widely-used key-value datastore in data analytics and machine learning. Privateer optimized application performance by 1.22× when storing data structure snapshots to node-local storage, and up to 16.7× when storing snapshots to a parallel file system. Privateer also optimizes storage efficiency of incremental data structure snapshots by up to 11× using data deduplication and compression.

Computer science↗

Learning a General Model of Single Phase Flow in Complex 3D Porous Media

Modeling effective transport properties of 3D porous media, such as permeability, at multiple scales is challenging as a result of the combined complexity of the pore structures and fluid physics—in particular, confinement effects which vary across the nanoscale to the microscale. While numerical simulation is possible, the computational cost is prohibitive for realistic domains, which are large and complex. Although machine learning (ML) models have been proposed to circumvent simulation, none so far has simultaneously accounted for heterogeneous 3D structures, fluid confinement effects, and multiple simulation resolutions. By utilizing numerous computer science techniques to improve the scalability of training, we have for the first time developed a general flow model that accounts for the pore-structure and corresponding physical phenomena at scales from Angstrom to the micrometer. Using synthetic computational domains for training, our ML model exhibits strong performance (R 2 = 0.9) when tested on extremely diverse real domains at multiple scales.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Data-driven, structure-preserving approximations to entropy-based moment closures for kinetic equations

In this study, we present a data-driven approach for approximating entropy-based closures of moment systems from kinetic equations. The proposed closure learns the entropy function by fitting the map between the moments and the entropy of the moment system, and thus does not depend on the spacetime discretization of the moment system or specific problem configurations such as initial and boundary conditions. With convex and C 2 approximations, this data-driven closure inherits several structural properties from entropy-based closures, such as entropy dissipation, hyperbolicity, and H-Theorem. We construct convex approximations to the Maxwell–Boltzmann entropy using convex splines and neural networks, test them on the plane source benchmark problem for linear transport in slab geometry, and compare the results to the standard, entropy-based systems which solve a convex optimization problem to find the closure. Numerical results indicate that these data-driven closures provide accurate solutions in much less computation time than that required by the optimization routine.

97 MATHEMATICS AND COMPUTING↗

Virtual node graph neural network for full phonon prediction

Understanding the structure-property relationship is crucial for designing materials with desired properties. The past few years have witnessed remarkable progress in machine-learning methods for this connection. However, substantial challenges remain, including the generalizability of models and prediction of properties with materials-dependent output dimensions. Here we present the virtual node graph neural network to address the challenges. By developing three virtual node approaches, we achieve Γ-phonon spectra and full phonon dispersion prediction from atomic coordinates. We show that, compared with the machine-learning interatomic potentials, our approach achieves orders-of-magnitude-higher efficiency with comparable to better accuracy. This allows us to generate databases for Γ-phonon containing over 146,000 materials and phonon band structures of zeolites. Additionally, our work provides an avenue for rapid and high-quality prediction of phonon band structures enabling materials design with desired phonon properties. The virtual node method also provides a generic method for machine-learning design with a high level of flexibility. In this study, the authors present a virtual node graph neural network to enable the prediction of material properties with variable output dimensions. This method offers fast and accurate predictions of phonon band structures in complex solids.

36 MATERIALS SCIENCE↗

Composition design of high-entropy alloys with deep sets learning

High entropy alloys (HEAs) are an important material class in the development of next-generation structural materials, but the astronomically large composition space cannot be efficiently explored by experiments or first-principles calculations. Machine learning (ML) methods might address this challenge, but ML of HEAs has been hindered by the scarcity of HEA property data. In this work, the EMTO-CPA method was used to generate a large HEA dataset (spanning a composition space of 14 elements) containing 7086 cubic HEA structures with structural properties, 1911 of which have the complete elastic tensor calculated. The elastic property dataset was used to train a ML model with the Deep Sets architecture. The Deep Sets model has better predictive performance and generalizability compared to other ML models. Association rule mining was applied to the model predictions to describe the compositional dependence of HEA elastic properties and to demonstrate the potential for data-driven alloy design.

36 MATERIALS SCIENCE↗

Machine Learning Prediction of H Adsorption Energies on Ag Alloys

Adsorption energies on surfaces are excellent descriptors of their chemical properties, including their catalytic performance. This has prompted a significant amount of work towards efficiently predicting adsorption energies without performing expensive quantum chemical calculations, based on semi-empirical or data scientific models. Here, we develop machine learning models to predict H adsorption energies on stepped Ag surface alloys using a database of energies obtained from first-principles electronic structure calculations based on density functional theory. Starting with a simple model and iteratively refining the features extracted from the calculations, we determine the key characteristics of successful models, and reduce the number of features required for accurate prediction of the adsorption energy. We find that nonlinear models are essential for accurate predictions. Moreover, detailed comparison of model predictions and calculations reveal a counterintuitive "selfpassivation" induced by some alloying elements, as well as unexpected discontinuous electronic structure effects. These findings are rationalized using tight-binding model hamiltonians and by analyzing the electronic density of states. Lastly, we show that we can estimate the reliability of a particular prediction, mitigating the effects of errors in the small fraction of cases where these errors are significant.

36 MATERIALS SCIENCE↗

Determination of Infinite Dilution Activity Coefficients of Molecular Solutes in Ionic Liquids and Deep Eutectic Solvents by Factorization-Machine-Based Neural Networks

Widely known as “green solvents,” ionic liquids (ILs) and deep eutectic solvents (DESs) have been used as substitutes for traditional organic solvents in separation science. To achieve better separations using ILs and DESs, this work aimed to predict the infinite dilution activity coefficients (IDACs) of molecular solutes in these solvents with the state-of-the-art factorization-machine-based neural network (DeepFM). DeepFM combines the benefits of factorization machines and deep neural networks to learn both low-order and high-order interactions among features. The IDAC prediction model was established with 52,372 experimental IDAC datapoints including 260 solvents (252 ILs and 8 DESs) and 112 molecular solutes collected at various temperatures from 288.15 to 428.15 K. Chemical information describing the ILs, DESs, and molecular solutes was included in the IDAC prediction model, including chemical functional groups, molecular weights, and Abraham solvation parameters. The IDAC prediction model showed an improved accuracy compared with alternative models; additionally, DESs were included in the IDAC prediction model for the first time. Here, the model will reduce the energy and resources needed to optimize the selection of ILs and DESs for specific separations, which will promote the development of these green solvents for sustainable chemical processes.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Applying machine learning and quantum chemistry to predict the glass transition temperatures of polymers

Glass transition temperature (T g ) is important for understanding the physical and mechanical properties of a polymer material because it relates to the thermal energy required to transition between a hard glassy state and a soft rubbery one. Over the years, various models have been developed for predicting this thermal property from molecular structure to aid in designing novel polymers in selected classes. This work builds on those efforts by utilizing both machine learning (ML) and quantum chemistry (QC) techniques to develop models that can predict T g values from the molecular structure under different data availability scenarios and for a wide variety of polymer types. For the ML model, a graph convolutional network (GCN) was used to map topological polymer features; this model was trained against a dataset of more than 7500 T g values and resulted in a root mean square error (RMSE) of 38.1 °C. The QC-based regression model was trained on 83 T g values and produced an RMSE of 34.5 °C. In conclusion, this work demonstrated that while both model techniques produce accurate predictions and are suitable for different data availability scenarios, the QC-based regression model offered a more interpretable model framework with significantly less training data.

36 MATERIALS SCIENCE↗