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DOE OSTI2019

diBELLA: Distributed Long Read to Long Read Alignment

© 2019 ACM. We present a parallel algorithm and scalable implementation for genome analysis, specifically the problem of finding overlaps and alignments for data from "third generation" long read sequencers [29]. While long sequences of DNA offer enormous advantages for biological analysis and insight, current long read sequencing instruments have high error rates and therefore require different approaches to analysis than their short read counterparts. Our work focuses on an efficient distributed-memory parallelization of an accurate single-node algorithm for overlapping and aligning long reads. We achieve scalability of this irregular algorithm by addressing the competing issues of increasing parallelism, minimizing communication, constraining the memory footprint, and ensuring good load balance. The resulting application, diBELLA, is the first distributed memory overlapper and aligner specifically designed for long reads and parallel scalability. We describe and present analyses for high level design trade-offs and conduct an extensive empirical analysis that compares performance characteristics across state-of-the-art HPC systems as well as a commercial cloud architectures, highlighting the advantages of state-of-the-art network technologies.

Ellis, Marquita↗

NASA NTRS1994

The optical and X-ray content of the 1992 May 1 gamma-ray burst error box

A gamma-ray burst which occurred on 1992 May 1 was observed by three spacecraft in the third interplanetary network, and rapidly localized to a small error box. The coordinates were promptly circulated to a wide astronomical community, and radio, optical, and X-ray counterpart searches were carried out. A weak X-ray source was found in the error box, and two radio sources are discovered outside the error box, but in alignment with the X-ray source. The X-ray source position contains approximately 25 optical objects down to 23d magnitude. We discuss the prospects for identifying the burster counterpart.

Hurley, K.↗

DOE OSTI2025

Advanced Transmission Technologies –GETs and HPCs Session 3: HPCs and Building Actions Plans to Digital Assurance Risks

The third session of the Idaho National Laboratory’s (INL) Technical Assistance for Digital Assurance (TADA) program, held on November 11, 2025, centered on High Performance Conductors (HPCs) and the formulation of action plans to address digital assurance risks associated with Grid-Enhancing Technologies (GETs). This session convened experts from utilities, vendors, and government agencies to examine the technical, operational, and cybersecurity aspects of HPC deployment. Discussions highlighted the benefits of HPCs, such as their ability to rapidly increase transmission capacity using existing corridors, improve grid resilience, reduce system losses, and align with FERC Orders 2023 and 1920. Participants evaluated supply chain and digital assurance risks, including reliance on imported materials, limited domestic manufacturing capacity, workforce shortages, and traceability issues. The session also emphasized the importance of digital trust, integration-layer cybersecurity, and unified risk frameworks, introducing tools like intrusion detection systems, encryption, zero trust networking, and firmware integrity. Recaps of earlier workshops on Dynamic Line Ratings (DLRs), Advanced Power Flow Control (APFC), and Transmission Topology Optimization (TTO) underscored institutional barriers and integration challenges. Action plans were proposed to mitigate issues such as inconsistent cybersecurity practices, SBOM usage, supply chain visibility, operator trust, and misaligned incentives. Additionally, INL presented its supply chain risk management tools and Cyber-Informed Engineering (CIE) principles to support secure procurement and system design. The session concluded with a commitment to share key takeaways, incorporate cohort feedback into future policy development, and continue collaborative engagement through upcoming pilot activities. Session 3 of 3.

24 - POWER TRANSMISSION AND DISTRIBUTION↗

DOE OSTI2023

Social Vulnerability and Beacon Hill Resilience Hub Network [Slides]

Improving community resilience to climate change impacts is a core goal of the Beacon Hill stakeholder task force. Developing a network of resilience hubs in the community is a strategy the task force is pursuing to build this resilience. This technical assistance aims to assist the task force in their resilience hub network planning by: identifying hazards that the resilience hubs may address; providing background information on social vulnerability and climate impacts; identifying populations in Beacon Hill who are at risk to disproportionate climate impacts due to social isolation and physical vulnerability characteristics (e.g., lack of transportation or internet); and identifying the potential role of resilience hubs that align with best practices for reducing social vulnerability to climate impacts.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

NASA NTRS2006

Should We Enhance the Observing Systems or Improve Coordination Among the Operating Agencies: What is Needed the Most for Security--A Philosophical Discussion

As an integrated observing strategy, the concept of sensorweb for Earth observations is appealing in many aspects. For instance, by increasing the spatial and temporal coverage of observations from space and other vantage points, one can eventually aid in increasing the accuracy of the atmospheric models which are precursor to hurricane track prediction, volcanic eruption forecast, and trajectory path of transcontinental transport of dust, harmful nuclear and chemical plumes. In reality, there is little analysis available in terms of benefits, costs and optimized set of sensors needed to make these necessary observations. This is a complex problem that must be carefully studied and balanced over many boundaries such as science, defense, early warning, security, and surveillance. Simplistically, the sensorweb concept from the technological point of view alone has a great appeal in the defense, early warning and security applications. In fact, it can be relatively less expensive in per unit cost as opposed to building and deploying it for the scientific use. However, overall observing approach should not be singled out and aligned somewhat orthogonally to serve a particular need. On the other hand, the sensorweb should be designed and deployed to serve multiple subject areas and customers simultaneously; and can behave as directed measuring systems for both science and operational entities. Sensorweb can be designed to act as expert systems, and/or also provide a dedicated integrated surveillance network. Today, there is no system in the world that is fully integrated in terms of reporting timely multiple hazards warnings, computing the loss of life and property damage estimates, and is also designed to cater to everyone's needs. It is not an easier problem to undertake and more so is not practically solvable. At this time due to some recent events in the world, the scientific community, social scientists, and operational agencies are more cognizant and getting together to address such colossal problems. Increasing our knowledge of the home planet, via amplified set of observations, is certainly a right step in a right direction. Furthermore, this is a pre-requisite in understanding multiple hazard phenomenas. This paper examines various sensorweb options and observing architectures that can be useful specifically in addressing some of these complex issues. The ultimate goal is to serve the society by providing potential natural hazards information to the decision makers in the most expeditious manner so they can prepare themselves to mitigate potential risks to human life, livestock and property.

Habib, Shahid↗

NASA NTRS2006

Applying Advanced and Existing Sensors in Dealing with Potential Natural Disasters

As an integrated observing strategy, the concept of sensorweb for Earth observations is appealing in many aspects. For instance, by increasing the spatial and temporal coverage of observations from space and other vantage points, one can eventually aid in increasing the accuracy of the atmospheric models which are precursor to hurricane track prediction, volcanic eruption forecast, and trajectory path of transcontinental transport of dust, harmful nuclear and chemical plumes. In reality, there is little analysis available in terms of benefits, costs and optimized set of sensors needed to make these necessary observations. This is a complex problem that must be carefully studied and balanced over many boundaries such as science, defense, early warning, security, and surveillance. Simplistically, the sensorweb concept from the technological point of view alone has a great appeal in the defense, early warning and security applications. In fact, it can be relatively less expensive in per unit cost as opposed to building and deploying it for the scientific use. However, overall observing approach should not be singled out and aligned somewhat orthogonally to serve a particular need. On the other hand, the sensorweb should be designed and deployed to serve multiple subject areas and customers simultaneously; and can behave as directed measuring systems for both science and operational entities. Sensorweb can be designed to act as expert systems, and/or also provide a dedicated integrated surveillance network. Today, there is no system in the world that is fully integrated in terms of reporting timely multiple hazards warnings, computing the loss of life and property damage estimates, and is also designed to cater to everyone s needs. It is not an easier problem to undertake and more so is not practically solvable. At this time due to some recent events in the world, the scientific community, social scientists, and operational agencies are more cognizant and getting together to address such colossal problems. Increasing our knowledge of the home planet, via amplified set of observations, is certainly a right step in a right direction. Furthermore, this is a prerequisite in understanding multiple hazard phenomena's. This paper examines various sensorweb options and observing architectures that can be useful specifically in addressing some of these complex issues. The ultimate goal is to serve the society by providing potential natural hazards information to the decision makers in the most expeditious manner so they can prepare themselves to mitigate potential risks to human life, livestock and property.

Habib, Shahid↗

NASA NTRS2006

Acquiring Comprehensive Observations using an Integrated Sensorweb for Early Warning

As an integrated observing strategy, the concept of sensorweb for Earth observations is appealing in many aspects. For instance, by increasing the spatial and temporal coverage of observations from space and other vantage points, one can eventually aid in increasing the accuracy of the atmospheric models which are precursor to hurricane track prediction, volcanic eruption forecast, and trajectory path of transcontinental transport of dust, harmful nuclear and chemical plumes. In reality, there is little analysis'available in terms of benefits, costs and optimized set of sensors needed to make these necessary observations. This is a complex problem that must be carefully studied and balanced over many boundaries such as science, defense, early warning security, and surveillance. Simplistically, the sensorweb concept from the technological point of view alone has a great appeal in the defense, early warning and security applications. In fact, it can be relatively less expensive in per unit cost as opposed to building and deploying it for the scientific use. However, overall observing approach should not be singled out and aligned somewhat . orthogonally to serve a particular need. On the other hand, the sensorweb should be designed and deployed to serve multiple subject areas and customers simultaneously; and can behave as directed measuring systems for both science and operational entities. Sensorweb can be designed to act as expert systems, and/or also provide a dedicated integrated surveillance network. Today, there is no system in the world that is fully integrated in terms of reporting timely multiple hazards warnings, computing the lass of life and property damage estimates, and is also designed to cater to everyone's needs. It is not an easier problem to undertake and more so is not practically solvable. At this time due to some recent events in the world, the scientific community, social scientists, and operational agencies are more cognizant and getting together to address such colossal problems. Increasing our knowledge of the home planet, via amplified set of observations, is certainly a right step in a right direction. Furthermore, this is a pre-requisite in understanding multiple hazard phenomena's. This paper examines various sensorweb options and observing architectures that can be useful specifically in addressing some of these complex issues. The ultimate goal is to serve the society by providing potential natural hazards information to the decision makers in the most expeditious manner so they can prepare themselves to mitigate potential risks to human life, livestock and property.

Habib, Shahid↗

NASA NTRS2006

Acquiring Comprehensive Observations using an integrated Sensorweb for Early Warning

As an integrated observing strategy, the concept of sensorweb for Earth observations is appealing in many aspects. For instance, by increasing the spatial and temporal coverage of observations from space and other vantage points, one can eventually aid in increasing the accuracy of the atmospheric models which are precursor to hurricane track prediction, volcanic eruption forecast, and trajectory path of transcontinental transport of dust, harmful nuclear and chemical plumes. In reality, there is little analysis'available in terms of benefits, costs and optimized set of sensors needed to make these necessary observations. This is a complex problem that must be carefully studied and balanced over many boundaries such as science, defense, early warning, security, and surveillance. Simplistically, the sensorweb concept from the technological point of view alone has a great appeal in the defense, early warning and security applications. In fact, it can be relatively less expensive in per unit cost as opposed to building and deploying it for the scientific use. However, overall observing approach should not be singled out and aligned somewhat orthogonally to serve a particular need. On the other hand, the sensorweb should be designed and deployed to serve multiple subject areas and customers simultaneously; and can behave as directed measuring systems for both science and operational entities. Sensorweb can be designed to act as expert systems, and/or also provide a dedicated integrated surveillance network. Today, there is no system in the world that is fully integrated in terms of reporting timely multiple hazards warnings, computing the loss of life and property damage estimates, and is also designed to cater to everyone's needs. It is not an easier problem to undertake and more so is not practically solvable. At this time due to some recent events in the world, the scientific community, social scientists, and operational agencies are more cognizant and getting together to address such colossal problems. Increasing our knowledge of the home planet, via amplified set of observations, is certainly a right step in a right direction. Furthermore, this is a pre-requisite in understanding multiple hazard phenomena's. This paper examines various sensorweb options and observing architectures that can be useful specifically in addressing some of these complex issues. The ultimate goal is to serve the society by providing potential natural hazards information to the decision makers in the most expeditious manner so they can prepare themselves to mitigate potential risks to human life, livestock and property.

Habib, Shahid↗

NASA NTRS2007

Solutions Network Formulation Report. The Potential Contribution of the Ocean Surface Topography Mission to the General NOAA Oil Monitoring Environment

Data collected by the OSTM could be used to provide a solution for the GNOME DST. GNOME, developed by NOAA?s Office of Response and Restoration Hazardous Materials Response Division, geospatially models oil spill trajectories using wind, current, river flow, and tidal data. Data collected by the OSTM would supply information about ocean currents and wind speeds. This Candidate Solution is in alignment with the Coastal Management, Water Management, Disaster Management, Public Health, Ecological Forecasting, and Homeland Security National Applications and will benefit society by improving the capabilities of emergency responders who evaluate an oil spill?s probable threat.

Hilbert, Kent↗

DOE OSTI2022

Impact of Concurrent Solubilization and Fines Migration on Fracture Aperture Growth in Shales during Acidized Brine Injection

Acidic hydraulic fracturing fluid chemically and physically alters shale rock fabric during injection and shut-in, creating a “reaction-altered zone” along the fracture faces. To better characterize the variable thickness and composition of this reaction-altered zone under advective flow, we take a coupled experimental and modeling approach. A fluidic cell, with six fiducial markers, is first fabricated to keep the rock sample in place during the core floods and to allow image alignment of acquired images. Then, we conduct a series of reactive core floods in a clay-rich siliceous Wolfcamp shale sample with 10 wt % carbonate, using a synthetic fracturing fluid under no confining stress and at room temperature. High-resolution computed tomography (CT) scans are periodically conducted to observe the spatial alteration of the fracture network. We then perform scanning electron microscopy (SEM-EDS) on the two orthogonal surfaces (fracture surface and freshly cut profile face) to generate high-resolution elemental maps that show the change in mineralogy, both with distance along a given flow path along a fracture surface and with depth from the fracture surface into the shale matrix. These results are contrasted against a two-dimensional (2D) advection-diffusion reaction model developed previously for batch reactions between shale and synthetic fracturing fluids. The model simulates the geochemical interaction occurring at the fracture/matrix interface and penetrating into the shale matrix during the reactive core flood. Both model and experimental results show that the acidic brine is neutralized during the core flood, corresponding to an increase in fracture aperture as a function of fluid volume injected with the greatest change near the inlet. SEM-EDS scans reveal significant dissolution of carbonates on the fracture surface without pyrite oxidation. The reactive transport model indicates that carbonate depletion into the shale interior should be observable, yet SEM-EDS shows no discernible loss of carbonate in the orthogonal profile face. The combination of these observations suggests an additional fracture evolution mechanism in the reactive system, i.e., fines migration. We show that fines migration enhances the access of fracturing fluid to the matrix resulting in a more pronounced fracture widening. Finally, we conclude that coupled mineral dissolution and fines migration govern fracture aperture growth during acidized brine injection. In this work, we effectively show the underlying risk of relying solely on models that do not include an important (transport) process that can alter the system significantly and propose a combined chemomechanical mechanism for fracture evolution appropriate for this shale mineralogy.

58 GEOSCIENCES↗

DOE OSTI2026

Commutative Algebra Modeling in Materials Science – A Case Study on Metal–Organic Frameworks (MOFs)

Metal-organic frameworks (MOFs) are a class of important crystalline and highly porous materials whose hierarchical geometry and chemistry hinder interpretable predictions in materials properties. Commutative algebra is a branch of abstract algebra that has been rarely applied in data and material sciences. We introduce the first ever commutative algebra modeling and prediction in materials science. Specifically, category-specific commutative algebra (CSCA) is proposed as a new framework for MOF representation and learning. It integrates element-based categorization with multiscale algebraic invariants to encode both local coordination motifs and global network organization of MOFs. These algebraically consistent, chemically aware representations enable compact, interpretable, and data efficient modeling of MOF properties such as Henry’s constants and uptake capacities for common gases. Compared to traditional geometric and graph-based approaches, CSCA achieves comparable or superior predictive accuracy while substantially improving interpretability and stability across data sets. By aligning commutative algebra with the chemical hierarchy, the CSCA establishes a rigorous and generalizable paradigm for understanding structure and property relationships in porous materials and provides a nonlinear algebra-based framework for data-driven material discovery.

Khaemba, Caleb S.↗

NASA NTRS1982

The fabrication and surface tolerance measurements of the JPL clear aperture microwave antenna

Present ground station microwave antennas of the Deep Space Network are of the symmetric dual reflector (cassegrainian) type. An investigation is being made of alternative high-performance offset antenna designs which have a clear aperture (no reflector or structural blockage) with shaped reflector surfaces. A 1.5-m, 32-GHz clear aperture model was built for experimental studies. The unique processes of fabrication, surface measurement, and alignment are described.

Carpenter, J.↗

DOE OSTI2025

Synthetic Scientific Image Generation with VAE, GAN, and Diffusion Model Architectures

Generative AI (genAI) has emerged as a powerful tool for synthesizing diverse and complex image data, offering new possibilities for scientific imaging applications. This review presents a comprehensive comparative analysis of leading generative architectures, ranging from Variational Autoencoders (VAEs) to Generative Adversarial Networks (GANs) on through to Diffusion Models, in the context of scientific image synthesis. We examine each model's foundational principles, recent architectural advancements, and practical trade-offs. Our evaluation, conducted on domain-specific datasets including microCT scans of rocks and composite fibers, as well as high-resolution images of plant roots, integrates both quantitative metrics (SSIM, LPIPS, FID, CLIPScore) and expert-driven qualitative assessments. Results show that GANs, particularly StyleGAN, produce images with high perceptual quality and structural coherence. Diffusion-based models for inpainting and image variation, such as DALL-E 2, delivered high realism and semantic alignment but generally struggled in balancing visual fidelity with scientific accuracy. Importantly, our findings reveal limitations of standard quantitative metrics in capturing scientific relevance, underscoring the need for domain-expert validation. We conclude by discussing key challenges such as model interpretability, computational cost, and verification protocols, and discuss future directions where generative AI can drive innovation in data augmentation, simulation, and hypothesis generation in scientific research.

Generative Adversarial Networks↗

DOE OSTI2015

Rhodopseudomonas palustris CGA010 Proteome Implicates Extracytoplasmic Function Sigma Factor in Stress Response

Rhodopseudomonas palustris encodes 16 extracytoplasmic function (ECF) σ factors. In this paper, to begin to investigate the regulatory network of one of these ECF σ factors, the whole proteome of R. palustris CGA010 was quantitatively analyzed by tandem mass spectrometry from cultures episomally expressing the ECF σ RPA4225 (ecfT) versus a WT control. Among the proteins with the greatest increase in abundance were catalase KatE, trehalose synthase, a DPS-like protein, and several regulatory proteins. Alignment of the cognate promoter regions driving expression of several upregulated proteins suggested a conserved binding motif in the -35 and -10 regions with the consensus sequence GGAAC-18N-TT. Additionally, the putative anti-σ factor RPA4224, whose gene is contained in the same predicted operon as RPA4225, was identified as interacting directly with the predicted response regulator RPA4223 by mass spectrometry of affinity-isolated protein complexes. Furthermore, another gene (RPA4226) coding for a protein that contains a cytoplasmic histidine kinase domain is located immediately upstream of RPA4225. The genomic organization of orthologs for these four genes is conserved in several other strains of R. palustris as well as in closely related α-Proteobacteria. Finally, taken together, these data suggest that ECF σ RPA4225 and the three additional genes make up a sigma factor mimicry system in R. palustris.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Candidate cosmic filament in the GJ526 field, mapped with the NIKA2 camera

Distinctive large-scale structures have been identified in the spatial distribution of optical galaxies up to redshift z ~ 1. In the more distant universe, the relationship between the dust-obscured population of star-forming galaxies observed at millimetre wavelengths and the network of cosmic filaments of dark matter apparent in all cosmological hydrodynamical simulations is still under study. Using the NIKA2 dual-band millimetre camera, we mapped a field of ~90 arcmin 2 in the direction of the star GJ526 simultaneously in its 1.15-mm and 2.0-mm continuum wavebands to investigate the nature of the quasi-alignment of five sources found ten years earlier with the MAMBO camera at 1.2 mm. We find that these sources are not clumps of a circumstellar debris disc around this star as initially hypothesized. Rather, they must be dust-obscured star-forming galaxies, or sub-millimetre galaxies (SMGs), in the distant background. The new NIKA2 map at 1.15 mm reveals a total of seven SMGs distributed in projection on the sky along a filament-like structure crossing the whole observed field. Furthermore, we show that the NIKA2 and supplemental Herschel photometric data are compatible with a model of the spectral energy distributions (SEDs) of these sources when a common redshift of 2.5 and typical values of the dust parameters for SMGs are adopted. Hence, we speculate that these SMGs might be located in a filament of the distant ‘cosmic web’. The length of this candidate cosmic filament crossing the whole map is at least 4 cMpc (comoving), and the separations between sources are between 0.25 cMpc and 1.25 cMpc at this redshift, in line with expectations from cosmological simulations. Nonetheless, further observations to determine the precise spectroscopic redshifts of these sources are required to definitively support this hypothesis of SMGs embedded in a cosmic filament of dark matter.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2024

A Suppression-based STDP Rule Resilient to Jitter Noise in Spike Patterns for Neuromorphic Computing

Multi-spike models of synaptic plasticity, such as the triplet and suppression spike-timing-dependent plasticity (STDP) rules, exhibit better alignment with neurophysiological data in the brain compared to the pair-based STDP rule. Previous studies have empirically shown that the pair-based STDP rule can detect spatiotemporal spike patterns hidden in equally dense distractor spike trains in an unsupervised manner. However, it fails to detect spike patterns influenced by jitter noise. Given that spiking neural networks (SNNs) exhibit variability in generated spike trains in response to the same inputs, it becomes imperative to have learning rules capable of detecting spike patterns even in the presence of jitter noise. In this study, we introduce a simplified suppression-based STDP rule that demonstrates significantly enhanced tolerance to jitter in spike patterns compared to the pair-based STDP rule. Unlike the ideal suppression STDP rule, characterized by an exponential learning window and requiring high-resolution synapses, the simplified rule limits the synaptic efficacy update to a single bit at any given instant. Moreover, it employs 4-bit fixed-point synapses, facilitating straightforward implementation in neuromorphic hardware.

Gautam, Ashish [ORNL]↗

DOE OSTI2026

Energy–Performance Trade-offs in Privacy-Preserving Federated Learning on SmartNIC-Enabled HPC Systems

Federated learning (FL) is increasingly deployed on accelerator-rich high-performance computing (HPC) systems, yet the system-level energy cost of privacy-aware FL remains poorly understood, particularly across heterogeneous networking and server-placement options. We present a measurement-driven study of energy–performance trade-offs for FL on GH200-class nodes across three deployment configurations: CPU-Ethernet, CPU-InfiniBand (RDMA-capable), and a DPU-hosted FL server over InfiniBand using a BlueField-3 SmartNIC/DPU. Using NVIDIA FLARE (NVFLARE), we align node-level power telemetry with per-round timing extracted from NVFLARE logs to quantify time-to-solution (TTS), energy-to-solution (ETS), energy-delay product (EDP), and synchronization behavior for three transformer models (ALBERT, DistilBERT, BERT), trained with and without differential privacy (DP). We find that interconnect choice is the dominant driver of runtime and energy: host-managed InfiniBand consistently reduces communication overhead versus Ethernet, yielding lower TTS/ETS/EDP. In contrast, in our NVFLARE deployment, placing the FL server on the DPU does not consistently match CPU-InfiniBand performance and can be slower—especially for larger models—highlighting that server placement alone is not sufficient to guarantee end-to-end gains. Finally, under our fixed-round protocol, DP increases per-round cost and runtime variance; ETS increases largely in proportion to TTS because average node power remains relatively stable across configurations.

Kotevska, Olivera [ORNL] (ORCID:0000000316772243)↗

NASA NTRS1989

Optical communications systems and technology for deep-space exploration

An account is given of architectural and implementational strategies for the creation of planetary and other deep-space optical communications networks, with a view to the developmental requirements of both planetary spacecraft subsystems and an earth-vicinity reception system. Attention is given to prospective technology-development challenges. An open-loop spatial acquisition process is defined, in conjunction with a terrestrial, large-aperture/low-cost 'photon bucket' optical reception telescopic system having an integral, axially-aligned tube-bundle sunshield. An efficient diode-pumped Nd:YAG laser is envisioned as the transmitter.

Lesh, James R.↗