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At least 199 records · Page 11

Scalable Graph Analytics and HPC Operational Enhancement: Parallel Computing and ML/DL Innovations

Parallel computing plays a pivotal role in the efficient processing of large-scale graphs. Complex network analysis stands as a capti- vating research frontier, holding promise across diverse scientific domains such as sociology, biology, online media, and recommenda- tion systems. In this era, Machine Learning (ML) and Deep Learning (DL) have emerged as indispensable tools, underpinning remarkable technological achievements. Within this dynamic landscape, my research revolves around advancing parallel algorithms tailored for large-scale graph operations. To achieve this, I harness the power of cutting-edge technologies including OpenMP, MPI, HIP, and CUDA, on the High-Performance Computing (HPC) platforms to unlock optimal performance. I also apply ML/DL techniques to HPC operational data, to streamline the monitoring and maintenance of supercomputers, alleviating the complexities associated with their upkeep and enhancing user support. My research echoes the syn- ergy between parallel computing, large-scale graph analysis, and ML/DL, improving computational efficiency and user experience.

Sattar, Naw Safrin↗

Design of a neutral thermal scattering (NeTS) module for hydrogen in light water

The accurate representation of thermal scattering law (TSL) data is integral to the design and characterization of many modern nuclear systems, particularly those using light water as a moderator/coolant. As a material-dependent distribution over energy-momentum phase space, the TSL may exhibit a variety of unique and relevant conditional (e.g., temperature, pressure) and compositional (e.g., porosity, stoichiometry, radiation damage) dependencies. Currently, there are various approaches to incorporate temperature dependence, which is especially important in coupled neutronic-thermal hydraulic simulations. In each approach, there is an inherent tradeoff between memory consumption and accuracy. Some techniques require tens to hundreds of MBs or more, while others fail to reproduce the underlying data to within 10% error over the considered input domain, despite having a reduced storage burden. This work aims to address both sides of the tradeoff simultaneously by implementing a novel deep learning (DL) approach to TSL representation. The neural thermal scattering (NeTS) concept, which is amenable to an arbitrary number of dependencies, is demonstrated via the inclusion of temperature dependence into a highly compact, highly accurate functional form of the multi- variate TSL (i.e., S(α, β, T)) for hydrogen in light water. Resulting storage requirements are on the order of 100 kB, and median and maximum percent deviations are on the order of 0.1% and 1%, respectively. These measures represent a step improvement over previous techniques. Notably, the developed neural network and feature methodology build on those employed in prior work on beryllium oxide. (authors)

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

YOU-ONLY-LOOK-ONCE (YOLO) FOR RADIO FREQUENCY SIGNAL CLASSIFICATION

We propose a method that uses deep learning (DL) to identify and frame various signals that are present in an environment. This DL framework is based on the You Only Look Once (YOLO) object detection pipeline Our work demonstrates a specific application of high performance computing and computer vision to the field of telecommunications.

97 MATHEMATICS AND COMPUTING↗

DL-TODA: A Deep Learning Tool for Omics Data Analysis

Metagenomics is a technique for genome-wide profiling of microbiomes; this technique generates billions of DNA sequences called reads. Given the multiplication of metagenomic projects, computational tools are necessary to enable the efficient and accurate classification of metagenomic reads without needing to construct a reference database. The program DL-TODA presented here aims to classify metagenomic reads using a deep learning model trained on over 3000 bacterial species. A convolutional neural network architecture originally designed for computer vision was applied for the modeling of species-specific features. Using synthetic testing data simulated with 2454 genomes from 639 species, DL-TODA was shown to classify nearly 75% of the reads with high confidence. The classification accuracy of DL-TODA was over 0.98 at taxonomic ranks above the genus level, making it comparable with Kraken2 and Centrifuge, two state-of-the-art taxonomic classification tools. DL-TODA also achieved an accuracy of 0.97 at the species level, which is higher than 0.93 by Kraken2 and 0.85 by Centrifuge on the same test set. Application of DL-TODA to the human oral and cropland soil metagenomes further demonstrated its use in analyzing microbiomes from diverse environments. Compared to Centrifuge and Kraken2, DL-TODA predicted distinct relative abundance rankings and is less biased toward a single taxon.

59 BASIC BIOLOGICAL SCIENCES↗

Predicting Li-ion Battery Performance for Impurity-doped NMC Cathodes Using Deep Learning

With the electric vehicle (EV) market expansion and the energy sector's shift towards electrification, the demand for battery metals, including lithium (Li), cobalt (Co), and nickel (Ni), is set to surpass supply. A critical knowledge gap exists in the purity standards for battery precursors and the impact of impurities on battery performance. Addressing this, our study employs a Deep Machine Learning (DL) based multi-objective optimization approach to interpret the relationship between metal impurities in domestic battery resources and their effects on battery performance. We analyze experimental data from Li-ion batteries with NMC (Nickel-Manganese-Cobalt oxide) cathodes over 1000 cycles, representing approximately ~6-8 months of operation, to establish a baseline of performance without impurities. Leveraging this data, we develop a Physics-Informed Deep Learning (PIDL) framework to extend our findings to cases that include metal impurities (e.g., Fe, Cu, Al) ranging from (0.001 - 0.01) %, respectively. By incorporating physics-based features, our PIDL model can accurately estimate the performance of NMC cathodes doped with various metal impurities to provide rapid design decisions. This research paves the way for informed decisions in Li-ion battery material design and optimization, ensuring the sustainable growth of the EV market and the broader energy sector.

25 ENERGY STORAGE↗

Reduced order modeling for flow and transport problems with Barlow Twins self-supervised learning

Abstract We propose a unified data-driven reduced order model (ROM) that bridges the performance gap between linear and nonlinear manifold approaches. Deep learning ROM (DL-ROM) using deep-convolutional autoencoders (DC–AE) has been shown to capture nonlinear solution manifolds but fails to perform adequately when linear subspace approaches such as proper orthogonal decomposition (POD) would be optimal. Besides, most DL-ROM models rely on convolutional layers, which might limit its application to only a structured mesh. The proposed framework in this study relies on the combination of an autoencoder (AE) and Barlow Twins (BT) self-supervised learning, where BT maximizes the information content of the embedding with the latent space through a joint embedding architecture. Through a series of benchmark problems of natural convection in porous media, BT–AE performs better than the previous DL-ROM framework by providing comparable results to POD-based approaches for problems where the solution lies within a linear subspace as well as DL-ROM autoencoder-based techniques where the solution lies on a nonlinear manifold; consequently, bridges the gap between linear and nonlinear reduced manifolds. We illustrate that a proficient construction of the latent space is key to achieving these results, enabling us to map these latent spaces using regression models. The proposed framework achieves a relative error of 2% on average and 12% in the worst-case scenario (i.e., the training data is small, but the parameter space is large.). We also show that our framework provides a speed-up of $$7 \times 10^{6}$$ 7 × 10 6 times, in the best case, and $$7 \times 10^{3}$$ 7 × 10 3 times on average compared to a finite element solver. Furthermore, this BT–AE framework can operate on unstructured meshes, which provides flexibility in its application to standard numerical solvers, on-site measurements, experimental data, or a combination of these sources.

97 MATHEMATICS AND COMPUTING↗

LipidOz enables automated elucidation of lipid carbon–carbon double bond positions from ozone-induced dissociation mass spectrometry data

Lipids play essential roles in many biological processes and disease pathology, but unambiguous identification of lipids is complicated by the presence of multiple isomeric species differing by fatty acyl chain length, stereospecifically numbered (sn) position, and position/stereochemistry of double bonds. Conventional liquid chromatography-mass spectrometry (LC-MS/MS) analyses enable the determination of fatty acyl chain lengths (and in some cases sn position) and number of double bonds, but not carbon-carbon double bond positions. Ozone-induced dissociation (OzID) is a gas-phase oxidation reaction that produces characteristic fragments from lipids containing double bonds. OzID can be incorporated into ion mobility spectrometry (IMS)-MS instruments for the structural characterization of lipids, including additional isomer separation and confident assignment of double bond positions. The complexity and repetitive nature of OzID data analysis and lack of software tool support have limited the application of OzID for routine lipidomics studies. Here, we present an open-source Python tool, LipidOz, for the automated determination of lipid double bond positions from OzID-IMS-MS data, which employs a combination of traditional automation and deep learning approaches. Our results demonstrate the ability of LipidOz to robustly assign double bond positions for lipid standard mixtures and complex lipid extracts, enabling practical application of OzID for future lipidomics.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Event-to-Video Conversion for Overhead Object Detection

Collecting overhead imagery using an event camera is desirable due to the energy efficiency of the image sensor compared to standard cameras. However, event cameras complicate downstream image processing, especially for complex tasks such as object detection. In this paper, we investigate the viability of event streams for overhead object detection. We demonstrate that across a number of standard modeling approaches, there is a significant gap in performance between dense event representations and corresponding RGB frames. We establish that this gap is, in part, due to a lack of overlap between the event representations and the pre-training data that the object detectors were initially trained on through a number of experiments. Then, apply an off-the-shelf event-to-video conversion tool that converts event streams into gray-scale video to close this gap. We demonstrate that this approach results in a large performance increase, outperforming even event-specific object detection techniques on our overhead target task. These results suggest that better aligning event representations with existing large pre-trained models may result in greater short-term performance gains compared to end-to-end event-specific architectural improvements.

machine learning (ML), computer vision, Neuromorph↗

Utah FORGE 6-3712: Probabilistic Estimation of Seismic Response Using Physics-Informed Recurrent Neural Networks - 2024 Annual Workshop Presentation

This is a presentation on the Probabilistic Estimation of Seismic Response Using Physics-Informed Recurrent Neural Networks by GTC Analytics, presented by Jesse Williams. This video slide presentation discusses the development of machine learning-based predictive tools to estimate the magnitude-frequency response of stimulation-induced seismicity. This presentation was featured in the Utah FORGE R&D Annual Workshop on August 15, 2024.

15 GEOTHERMAL ENERGY↗

Evaluating Deception Detection Model Robustness To Linguistic Variation

With the increasing use of automated, machine learning-driven tools and the downstream impact that algorithmic judgements can have, it is critical to develop models that are robust to evolving or manipulated inputs. Evaluating the reliability of multimodal models across linguistic variations to understand model susceptibility to intentional linguistic adversarial attacks as well as natural linguistic variations is essential in this pursuit. We present extensive analysis of model robustness and susceptibility to linguistic variations in the setting of deceptive news detection, a difficult classification task that is an increasingly important problem to solve with the impact of misinformation spread online. We evaluate the effectiveness of incorporating adversarial defense strategies and measure model susceptibility to state-of-the-art adversarial attacks using two types of linguistic attacks — character and word perturbations. We consider two multiclass prediction tasks — a 3-way classification of tweets as trustworthy, propaganda, or disinformation; and a 4-way classification as clickbait, hoax, satire, or conspiracy — and compare the performance of three embeddings that have been state-of-the-art for several NLP tasks — GloVe, ELMo, and BERT — to highlight consistent trends in susceptibility, high confidence misclassifications, and high impact failures. We find that character or mixed ensemble models are the most effective defense mechanisms and that character perturbations are a more effective attack than word perturbations for deception classification.

adversarial evaluation↗

DeepCare: Improving Patient Care using Deep Learning on Electronic Health Records

Coordinating patient care using electronic health records (EHR) data presents an exciting but formidable opportunity in data extraction, analysis and modeling. Traditional methods use a manual feature driven approach to model patients with age, family history and symptoms to predict disease outcomes. We propose a novel approach to model patients based on their streaming electronic health records data combined with information from medical knowledge bases, which has been gained over years of medical research. Using a combination of representation learning and long short term memory (LSTM) networks we plan to model patient evolution over time, leading to more accurate and individualized predictive models for patient’s diseases. Our approach will be transformative in providing critical decision support for patient care, enabling accurate understanding and evolution of diseases in patients.

60 APPLIED LIFE SCIENCES↗

Machine learning enables reconstruction of past fire regimes from charcoal-derived fire intensity and fuel composition

Background Fire is a foundational ecological process that shapes ecosystem structure, diversity, and resilience. Quantifying paleofire regime attributes such as frequency, severity, and intensity is essential for understanding the historical range of variability in fire behavior and its ecological effects. While frequency and severity are often reconstructed in paleofire studies, quantitative reconstructions of fire intensity remain limited. Recent work has shown that maximum pyrolysis temperature—a proxy for fire intensity—and plant species type can be inferred from charcoal using transmission Fourier-transform infrared (FTIR) spectroscopy. However, the sample preparation for transmission FTIR is destructive and time-consuming, limiting application and reuse of materials for other analyses. We evaluated reflectance FTIR spectroscopy as a non-destructive alternative for reconstructing combustion temperature and plant species from laboratory-generated charcoal. We also examined the influence of contrasting airflow environments (ambient air versus nitrogen-rich) on pyrolysis temperature and plant species reconstruction prediction accuracies and compared predictive performance between a novel, neural network–based deep learning model with the traditional modern analogue technique (MAT) using k-nearest neighbor functions. As proof of concept, we apply our enhanced methodology to ancient charcoal to demonstrate applicability at improving long-term fire regime reconstructions and the ability to link paleofire records with contemporary fire ecology. Results Our analysis shows that transmission and reflectance FTIR spectra yield comparable spectral profiles. However, sample preparation for reflectance FTIR is minimal and non-destructive, unlike transmission FTIR which is destructive. We demonstrate that oxygen environments improved reconstruction accuracy relative to nitrogen-rich conditions. Finally, our deep learning neural network (DL) achieved testing accuracies of 98.7% for temperature and 96.2% for species identification, outperforming MAT’s k-NN approach (89.8% and 65.9%, respectively). A Shapley importance analysis identified 5 key spectral regions that greatly influenced the model’s temperature or species categorization. When applied to ancient charcoal, our results show historic fires from the most recent past primarily burned at low intensities (400–500 °C), reflective of natural fire regimes in ponderosa pine forests. Our results corroborate charcoal morphology data that suggests all ancient charcoal originated from burned woody plant types. Conclusions By combining reflectance FTIR spectroscopy with a deep learning approach, we provide the first accuracies high enough to confidently identify both species and temperature from laboratory-produced charcoal, improving quantitative reconstructions of fire intensity and fuel composition from paleofire records. This opens a wide range of research into the link between fire and larger drivers (i.e., climate or human) and greater ecological understanding of fire regimes beyond that of burn scars or recent observations. These methodological improvements have direct relevance for fire management by improving interpretation of historical fire behavior, informing fuel–fire relationships, and providing a scalable analytical framework applicable to both long-term ecological studies and contemporary fire science.

54 ENVIRONMENTAL SCIENCES↗

Towards Low-Overhead Resilience for Data Parallel Deep Learning

Data parallel techniques have been widely adopted both in academia and industry as a tool to enable scalable training of deep learning models. At scale, DL training jobs can fail due to software or hardware bugs, may need to be preempted or terminated due to unexpected events, or may perform suboptimally because they were misconfigured. Under such circumstances, there is a need to recover and/or reconfigure data-parallel DL training jobs on-the-fly, while minimizing the impact on the accuracy of the DNN model and the runtime overhead. In this regard, state-of-art techniques adopted by the HPC community mostly rely on checkpoint-restart, which inevitably leads to loss of progress, thus increasing the runtime overhead. In this paper we explore alternative techniques that exploit the properties of modern deep learning frameworks (overlapping of gradient averaging and weight updates with local gradient computations through pipeline parallelism) to reduce the overhead of resilience/elasticity. To this end we introduce a failure simulation framework and two resilience strategies (immediate mini-batch rollback and lossy forward recovery), which we study compared with checkpoint-restart approaches in a variety of settings in order to understand the trade-offs between the accuracy loss of the DNN model and the runtime overhead.

data-parallel training↗

Data-driven global ocean modeling for seasonal to decadal prediction

Accurate modeling of ocean dynamics is crucial for enhancing our understanding of complex ocean circulation processes, predicting climate variability, and tackling challenges posed by climate change. Although great efforts have been made to improve traditional numerical models, predicting global ocean variability over multiyear scales remains challenging. Here, we propose ORCA-DL (Oceanic Reliable foreCAst via Deep Learning), a data-driven three-dimensional ocean model for seasonal to decadal prediction of global ocean dynamics. ORCA-DL accurately simulates the three-dimensional structure of global ocean dynamics with high physical consistency and outperforms state-of-the-art numerical models in capturing extreme events, including El Niño–Southern Oscillation and upper ocean heat waves. Moreover, ORCA-DL stably emulates ocean dynamics at decadal timescales, demonstrating its potential even for skillful decadal predictions and climate projections. Our results demonstrate the high potential of data-driven models for providing efficient and accurate global ocean modeling and prediction.

Science & Technology - Other Topics↗

Deep learning-based quasi-continuum theory for structure of confined fluids

Predicting the structural properties of water and simple fluids confined in nanometer scale pores and channels is essential in, for example, energy storage and biomolecular systems. Classical continuum theories fail to accurately capture the interfacial structure of fluids. In this work, we develop a deep learning-based quasi-continuum theory (DL-QT) to predict the concentration and potential profiles of a Lennard-Jones (LJ) fluid and water confined in a nanochannel. The deep learning model is built based on a convolutional encoder–decoder network (CED) and is applied for high-dimensional surrogate modeling to relate the fluid properties to the fluid–fluid potential. The CED model is then combined with the interatomic potential-based continuum theory to determine the concentration profiles of a confined LJ fluid and confined water. Further, we show that the DL-QT model exhibits robust predictive performance for a confined LJ fluid under various thermodynamic states and for water confined in a nanochannel of different widths. The DL-QT model seamlessly connects molecular physics at the nanoscale with continuum theory by using a deep learning model.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗