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At least 901 records · Page 50

GrAMME: Semisupervised Learning Using Multilayered Graph Attention Models

Modern data analysis pipelines are becoming increasingly complex due to the presence of multiview information sources. While graphs are effective in modeling complex relationships, in many scenarios, a single graph is rarely sufficient to succinctly represent all interactions, and hence, multilayered graphs have become popular. Though this leads to richer representations, extending solutions from the single-graph case is not straightforward. Consequently, there is a strong need for novel solutions to solve classical problems, such as node classification, in the multilayered case. In this article, we consider the problem of semisupervised learning with multilayered graphs. Though deep network embeddings, e.g., DeepWalk, are widely adopted for community discovery, we argue that feature learning with random node attributes, using graph neural networks, can be more effective. To this end, we propose to use attention models for effective feature learning and develop two novel architectures, GrAMME-SG and GrAMME-Fusion, that exploit the interlayer dependences for building multilayered graph embeddings. Using empirical studies on several benchmark data sets, we evaluate the proposed approaches and demonstrate significant performance improvements in comparison with the state-of-the-art network embedding strategies. The results also show that using simple random features is an effective choice, even in cases where explicit node attributes are not available.

97 MATHEMATICS AND COMPUTING↗

Two distinct rotations of bithiazole DNA intercalation revealed by direct comparison of crystal structures of Co(III)•bleomycin A 2 and B 2 bound to duplex 5'-TAGTT sites

Bleomycins constitute a family of anticancer natural products that bind DNA through intercalation of a C-terminal tail/bithiazole moiety and hydrogen-bonding interactions between the remainder of the drug and the minor groove. The clinical utility of the bleomycins is believed to result from single- and double-strand DNA cleavage mediated by the HOO-Fe(III) form of the drug. The bleomycins also serve as a model system to understand the nature of complex drug-DNA interactions that may guide future DNA-targeted drug discovery. In this study, the impact of the C-terminal tail on bleomycin-DNA interactions was investigated. Toward this goal, we determined two crystal structures of HOO-Co(III)•BLMA 2 “green” (a stable structural analogue of the active HOO-Fe(III) drug) bound to duplex DNA containing 5'-TAGTT, one in which the entire drug is bound (fully bound) and a second with only the C-terminal tail/bithiazole bound (partially bound). The structures reported here were captured by soaking HOO-Co(III)•BLMA 2 into preformed host–guest crystals including a preferred DNA-binding site. While the overall structure of DNA-bound BLMA 2 was found to be similar to those reported earlier at the same DNA site for BLMB 2 , the intercalated bithiazole of BLMB 2 is “flipped” 180° relative to DNA-bound BLMA 2 . Further, this finding highlights an unidentified role for the C-terminal tail in directing the intercalation of the bithiazole. In addition, these analyses identified specific bond rotations within the C-terminal domain of the drug that may be relevant for its reorganization and ability to carry out a double-strand DNA cleavage event.

59 BASIC BIOLOGICAL SCIENCES↗

MtrA modulates Mycobacterium tuberculosis cell division in host microenvironments to mediate intrinsic resistance and drug tolerance

The success of Mycobacterium tuberculosis (Mtb) is largely attributed to its ability to physiologically adapt and withstand diverse localized stresses within host microenvironments. Here, we present a data-driven model (EGRIN 2.0) that captures the dynamic interplay of environmental cues and genome-encoded regulatory programs in Mtb. Analysis of EGRIN 2.0 shows how modulation of the MtrAB two-component signaling system tunes Mtb growth in response to related host microenvironmental cues. Disruption of MtrAB by tunable CRISPR interference confirms that the signaling system regulates multiple peptidoglycan hydrolases, among other targets, that are important for cell division. Further, MtrA decreases the effectiveness of antibiotics by mechanisms of both intrinsic resistance and drug tolerance. Together, the model-enabled dissection of complex MtrA regulation highlights its importance as a drug target and illustrates how EGRIN 2.0 facilitates discovery and mechanistic characterization of Mtb adaptation to specific host microenvironments within the host.

59 BASIC BIOLOGICAL SCIENCES↗

Discovering hidden geothermal signatures using non-negative matrix factorization with customized k-means clustering

Discovery of hidden geothermal resources is challenging. It requires the mining of large datasets with diverse data attributes representing subsurface hydrogeological and geothermal conditions. The commonly used play fairway analysis approach typically incorporates subject-matter expertise to analyze regional data to estimate geothermal characteristics and favorability. We demonstrate an alternative approach based on machine learning (ML) to process a geothermal dataset from southwest New Mexico (SWNM). The study region includes low- and medium-temperature hydrothermal systems. Several of these systems are not well characterized because of insufficient existing data and limited past explorative work. This study discovers hidden patterns and relations in the SWNM geothermal dataset to improve our understanding of the regional hydrothermal conditions and energy-production favorability. This understanding is obtained by applying an unsupervised ML algorithm based on non-negative matrix factorization coupled with customized k-means clustering (NMFk). NMFk can automatically identify (1) hidden signatures characterizing analyzed datasets, (2) the optimal number of these signatures, (3) the dominant data attributes associated with each signature, and (4) the spatial distribution of the extracted signatures. Here, in this study, NMFk is applied to analyze 18 geological, geophysical, hydrogeological, and geothermal attributes at 44 locations in SWNM. Using NMFk, we find data patterns and identify the spatial associations of hydrothermal signatures within two physiographic provinces (Colorado Plateau and Basin and Range) and two sub-regions of these provinces (the Mogollon-Datil volcanic field and the Rio Grande rift) in SWNM. The ML algorithm extracted five hydrothermal signatures in the SWNM datasets that differentiate between low (<90°C) and medium (90-150°C)-temperature hydrothermal systems. The algorithm also suggests that the Rio Grande rift and northern Mogollon-Datil volcanic field are the most favorable regions for future geothermal resource discovery. NMFk also identified critical attributes to identify medium-temperature hydrothermal systems in the study area. The resulting NMFk model can be applied to predict geothermal conditions and their uncertainties at new SWNM locations based on limited data from unexplored regions. The code to execute the performed analyses as well as the corresponding data can be found at https://github.com/SmartTensors/GeoThermalCloud.jl.

15 GEOTHERMAL ENERGY↗

Active- and transfer-learning applied to microscale-macroscale coupling to simulate viscoelastic flows

Active- and transfer-learning are applied to microscale dynamics of polymer flows for the multiscale discovery of effective constitutive approximations required in viscoelastic flow simulation. The result is macroscopic rheology directly connected to a microstructural model. Micro and macroscale simulations are adaptively coupled by means of Gaussian process regression (GPR) to run the expensive microscale computations only as necessary. This multiscale method is demonstrated with flows of a polymer solution as a model system. At the microscale level dissipative particle dynamics (DPD) is employed to model the fluid as a suspension of bead-spring micro-structures subjected to steady shear flow. The results yield the non-Newtonian viscosity and the first normal stress difference at strain rates as training data used in a GPR model. DPD parameters are calibrated with respect to experimental data for a real polymer solution. Compliance with these data requires adjustment of the DPD model's cutoff radius, which then becomes a function of the second invariant of the strain rate tensor. The FENE-P model is chosen for the macroscale description using the spectral element method (SEM) to simulate channel flow and flow past a circular cylinder. The DPD results at the lowest possible shear strain rate yield an estimate of the zero-shear rate viscosity, which allows the initiation of the macroscale flow by SEM as a Newtonian fluid. The resulting strain-rate field is surveyed to determine additional shear strain rate sampling points for the DPD system. This new information allows an initial fitting of parameters of the constitutive equation followed by new SEM simulations at the macroscale. Additionally, guided by active-learning GPR to select new sampling points, this process continues until convergence is achieved. The effectiveness of this new simulation paradigm for viscoelastic flows is tested with different macroscale operating conditions. The effective closure learned in the channel simulation is then transferred directly to the flow past a circular cylinder at low Reynolds number, where the results show that only two additional DPD simulations are required to achieve a satisfactory constitutive model. With an increase of the Reynolds number, the active-learning scheme automatically detects the inaccuracy of the learned constitutive model, and initiates additional DPD simulations for the extra data needed to once again close the microscale-macroscale coupled system. This new paradigm of active- and transfer-learning for multiscale modeling is readily applicable to other microscale-macroscale coupled simulations of complex fluids and other materials. Furthermore, the coupling between microscale and macroscale solvers can be seamlessly implemented with our open source multiscale universal interface (MUI) library.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Tuning the Functionalities of Porous Liquids for Emergent Gas-Capture Properties

Type 3 Porous Liquids (PLs) are a class of materials with the potential to revolutionize gas capture, storage, and utilization. These PLs are formed by suspending sorbent nanoparticles (e.g., metal−organic frameworks) in sterically excluded solvents, creating permanent porosity for gas capture in a processable, low-viscosity phase. Herein, a computational study revealed sorbent surface functionalization strategies to enhance CO 2 sorption, and the molecular structural signatures underpinning the enhancements in gas uptake. PLs composed of a ZIF-8 surface functionalized with 3-amino-1,2,4-triazole (Atz) in glyceryl triacetate were targeted for emergent CO 2 capture, exceeding that of the unfunctionalized ZIF-8 PL. ZIF-8 was surface functionalized with Atz at various surface coverage fractions (f), and classical molecular dynamics simulations predicted an increase in CO 2 sorption capacity with increasing f, up to f = 0.75. Additionally, detailed structural analyses revealed that solvent orientational order, derived from the solvent triplet-angle distribution, can identify the gas-capture potential of a PL without requiring computationally expensive direct modeling of the CO 2 sorption. Combined with experimental validation, initial computational screening of PL compositions promises to accelerate the discovery of PL compositions for novel gas separation materials platforms.

gas capture↗

Phosphorus-rich stars with unusual abundances are challenging theoretical predictions

Almost all chemical elements have been made by nucleosynthetic reactions in various kind of stars and have been accumulated along our cosmic history. Among those elements, the origin of phosphorus is of extreme interest because it is known to be essential for life such as we know on Earth. However, current models of (Galactic) chemical evolution under-predict the phosphorus we observe in our Solar System. Here we report the discovery of 15 phosphorus-rich stars with unusual overabundances of O, Mg, Si, Al, and Ce. Phosphorus-rich stars likely inherit their peculiar chemistry from another nearby stellar source but their intriguing chemical abundance pattern challenge the present stellar nucleosynthesis theoretical predictions. Specific effects such as rotation or advanced nucleosynthesis in convective-reactive regions in massive stars represent the most promising alternatives to explain the existence of phosphorus-rich stars. The phosphorus-rich stars progenitors may significantly contribute to the phosphorus present on Earth today.

79 ASTRONOMY AND ASTROPHYSICS↗

Highly transferable atomistic machine-learning potentials from curated and compact datasets across the periodic table

Machine learning atomistic potentials trained using density functional theory (DFT) datasets allow for the modeling of complex material properties with near-DFT accuracy while imposing a fraction of its computational cost. The curation of the DFT datasets can be extensive in size and time-consuming to train and refine. In this study, we focus on addressing these barriers by developing minimalistic and flexible datasets for many elements in the periodic table regardless of their mass, electronic configuration, and ground state lattice. These DFT datasets have on average, ~4000 different structures and 27 atoms per structure, which we found sufficient to maintain the predictive accuracy of DFT properties and notably with high transferability. We envision these highly curated training sets as starting points for the community to expand, modify, or use with other machine learning atomistic potential models, whatever may suit individual needs, further accelerating the utilization of machine learning as a tool for material design and discovery.

42 ENGINEERING↗

Electron scattering and neutrino physics

Abstract A thorough understanding of neutrino–nucleus scattering physics is crucial for the successful execution of the entire US neutrino physics program. Neutrino–nucleus interaction constitutes one of the biggest systematic uncertainties in neutrino experiments—both at intermediate energies affecting long-baseline deep underground neutrino experiment, as well as at low energies affecting coherent scattering neutrino program—and could well be the difference between achieving or missing discovery level precision. To this end, electron–nucleus scattering experiments provide vital information to test, assess and validate different nuclear models and event generators intended to test, assess and validate different nuclear models and event generators intended to be used in neutrino experiments. Similarly, for the low-energy neutrino program revolving around the coherent elastic neutrino–nucleus scattering (CEvNS) physics at stopped pion sources, such as at ORNL, the main source of uncertainty in the evaluation of the CEvNS cross section is driven by the underlying nuclear structure, embedded in the weak form factor, of the target nucleus. To this end, parity-violating electron scattering (PVES) experiments, utilizing polarized electron beams, provide vital model-independent information in determining weak form factors. This information is vital in achieving a percent level precision needed to disentangle new physics signals from the standard model expected CEvNS rate. In this white paper, we highlight connections between electron- and neutrino–nucleus scattering physics at energies ranging from 10 s of MeV to a few GeV, review the status of ongoing and planned electron scattering experiments, identify gaps, and lay out a path forward that benefits the neutrino community. We also highlight the systemic challenges with respect to the divide between the nuclear and high-energy physics communities and funding that presents additional hurdles in mobilizing these connections to the benefit of neutrino programs.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

To TDE or not to TDE: the luminous transient ASASSN-18jd with TDE-like and AGN-like qualities

ABSTRACT We present the discovery of ASASSN-18jd (AT 2018bcb), a luminous optical/ultraviolet(UV)/X-ray transient located in the nucleus of the galaxy 2MASX J22434289–1659083 at z = 0.1192. Over the year after discovery, Swift UltraViolet and Optical Telescope (UVOT) photometry shows the UV spectral energy distribution of the transient to be well modelled by a slowly shrinking blackbody with temperature $T \sim 2.5 \times 10^{4} \, {\rm K}$, a maximum observed luminosity of $L_{\rm max} = 4.5^{+0.6}_{-0.3}\times 10^{44} \, {\rm erg \,s}^{-1}$, and a radiated energy of $E = 9.6^{+1.1}_{-0.6} \times 10^{51} \, {\rm erg}$. X-ray data from Swift X-Ray Telescope (XRT) and XMM–Newton show a transient, variable X-ray flux with blackbody and power-law components that fade by nearly an order of magnitude over the following year. Optical spectra show strong, roughly constant broad Balmer emission and transient features attributable to He ii, N iii–v, O iii, and coronal Fe. While ASASSN-18jd shares similarities with tidal disruption events (TDEs), it is also similar to the newly discovered nuclear transients seen in quiescent galaxies and faint active galactic nuclei (AGNs).

79 ASTRONOMY AND ASTROPHYSICS↗

Mitigating Catastrophic Forgetting in Deep Learning in a Streaming Setting Using Historical Summary

Recent advancements in scientific equipment and the adaptation of electronics and the Internet of Things (IoT) in our everyday lives resulted in large and complex data production at a high rate. Making meaningful and timely knowledge discovery at a modest cost from this big data is difficult for computing power and storage limitations. Training deep learning models incrementally in a streaming setting can help us with overcoming these limitations. However, in a well-known phenomenon named catastrophic forgetting, incrementally trained models increasingly perform poorly on the past data. To mitigate catastrophic forgetting in training in a streaming setting, we propose constructing a historical summary over time and use the summary with newly arrived data during incremental training. We propose various data summarization techniques such as random sampling, micro clustering, coreset computation, and Auto Encoders to counteract catastrophic forgetting. We built a pipeline for incremental training with a historical summary for training deep learning models for streaming data. We demonstrate the effectiveness of historical summary in mitigating catastrophic forgetting using three case studies involving three different deep learning applications: an Artificial Neural Network (ANN) for classification task on MNIST dataset, a language model (RNN-LM) on the WikiText2 dataset, and a Convolutional Neural Network (CNN), ResNet50 to classify the ImageNet dataset. Through the training of the models, we observe that catastrophic forgetting is evident in ANN and CNN but not in an RNN. For the first task, our method recovers up to 47.9% lost accuracy due to catastrophic forgetting. For the third task, the historical summary recovers classification accuracy by up to 25%. For the second task, though there is not proof of catastrophic forgetting, the training performance (PPL) improves by up to 26% with historical summary.

Dash, Sajal↗

Foundation Models for Zero-Shot Segmentation of Scientific Images without AI-Ready Data

Zero-shot and prompt-based models have excelled at visual reasoning tasks by leveraging large-scale natural image corpora, but they often fail on sparse and domain-specific scientific image data. We introduce Zenesis, a no-code interactive computer vision platform designed to reduce data readiness bottlenecks in scientific imaging workflows. Zenesis integrates lightweight multimodal adaptation for zero-shot inference on raw scientific data, human-in-the-loop refinement, and heuristic-based temporal enhancement. We validate our approach on Focused Ion Beam Scanning Electron Microscopy (FIB-SEM) datasets of catalyst-loaded membranes. Zenesis outperforms baselines, achieving an average accuracy of 0.947, Intersection over Union (IoU) of 0.858, and Dice score of 0.923 on amorphous catalyst samples; and 0.987 accuracy, 0.857 IoU, and 0.923 Dice on crystalline samples. These results represent a significant performance gain over conventional methods such as Otsu thresholding and standalone models like the Segment Anything Model (SAM). Zenesis enables effective image segmentation in domains where annotated datasets are limited, offering a scalable solution for scientific discovery.

Mukherjee, Shubhabrata↗

Grid Topology Discovery Algorithm Evaluation of Suitability for Utility Deployment (CRADA 606 Final Report)

This work presents the results of a field-informed demonstration aimed at evaluating the practical suitability of a topology discovery algorithm for utility environments. We demonstrated an algorithm that uses a graph-theory-informed state estimation approach for model selection. In collaboration with Survalent and Peninsula Light Co., the algorithm was applied to real feeder models and field measurements from supervisory control and data acquisition (SCADA) and advanced metering infrastructure (AMI) systems to identify the operational topology of a power distribution system. The demonstration assessed the algorithm’s performance under realistic data conditions, including sparse and noisy measurements, and examined its ability to identify the most likely network configurations. The results confirmed that the approach can effectively narrow down feasible topologies, providing operators with improved situational awareness of network status. Key lessons learned emphasize the need for systematic data validation and strategic sensor placement to enhance observability. These insights inform future deployment strategies and guide refinements for broader adoption in utility operations.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Gamma-Ray Bursts: An Overview

A history and overview of the observed properties of gamma-ray bursts are presented. The phenomenon of gamma-ray bursts is without precedent in astronomy, having no observed property that would be a direct indicator of their distance and no counterpart object in another wavelength region. Their brief, random appearance only in the gamma-ray region has made their study difficult. The observed time profiles, spectral properties, and durations of gamma-ray bursts cover a wide range. All proposed models for their origin must be considered speculative. It is humbling to think that even after 25 years since their discovery, the distance scale of gamma-ray bursts is still very much debatable.

Fishman, Gerald J.↗

A Study of Ion Outflow as a Source of Plasma for the Magnetosphere

Spacecraft measurements beginning in the early 1970 s gave indications that the ionosphere was a contributor to the energetic particle population of the Earth s magnetosphere This surprising result ran counter to the previously accepted model that the magnetospheric plasmas, because of their higher energies, must have come from the solar wind. Indeed, the original discovery of the Van Allen radiation belts, with energies of millions of electron volts, set a strong community belief in the sun as the plasma source because of the dramatic difference in the radiation belt energy and that of the Earth s ionospheric source.

Chappell, Charles R.↗

Data Assimilation Technology Transfer from Planetary Exploration to Terrestrial Applications

Data assimilation can be a valuable tool for discovery and exploration. Planetary missions--principally polar orbiting spacecraft--are now capable of returning enough information to constrain global dynamical models. However, such missions operate under a number of severe constraints: there is no ground truth to calibrate and validate either the models or the data: and there are limited computational resources available, particularly onboard the spacecraft, for the near real-time processing that is required for aerobraking and other semi-autonomous maneuvers. A modified data assimilation approach, in which the prime analysis variable is the observed quantity (i.e., infrared radiances), has been found to be effective in deriving global meteorology from Mars Global Surveyor Thermal Emission Spectrometer data. It may also be useful in a number of terrestrial applications (e.g. aerosol assimilation).

Houben, Howard↗

Neutron Stars and Black Holes Seen with the Rossi X-Ray Timing Explorer (RXTE)

Astrophysical X-rays bring information about location, energy, time, and polarization. X-rays from compact objects were seen in the first explorations to vary in time. Eclipses and pulsations have simple explanations that identified the importance of X-ray binaries and magnetic neutron stars in the first decade of X-ray astronomy. The dynamics of accretion onto stellar and supermassive black holes and onto neutron stars with relatively low magnetic fields shows up as more complex variations, quasi-periodic oscillations, noise with characteristic frequency spectra, broad-band changes in the energy spectra. To study these variations, RXTE instruments needed to have large area and operational flexibility to find transient activity and observe when it was present. Proportional counters and Phoswich scintillators provided it in a modest mission that has made textbook level contributions to understanding of compact objects. The first seen, and the brightest known, X-ray binary, Sco X-1 is one of a class of neutron stars with low mass companions. Before RXTE, none of these had been seen to show pulsations, though they were hypothesized to be the precursors of radio pulsars with millisecond periods and low magnetic fields. RXTE's large area led to identifying coherent millisecond pulsars in a subset which are relatively faint transients. It also led to identifying short episodes of pulsation during thermonuclear bursts, in sources where a steady signal is not seen. The X-ray stage verifies the evolution that produces millisecond radio pulsars.Masses and radii of neutron stars are being determined by various techniques, constraining the equation of state of matter at nuclear densities. Accretion should lead to a range of neutron star masses. An early stage of superstrong magnetic field neutron stars is now known to produce X-ray and gamma-ray bursts in crust quakes and magnetic field reconnection releases of energy. Soft Gamma Repeaters, Anomolous X-ray Pulsars, and high magnetic field rotation-powered pulsars are all now called magnetars, because they have pulse periods indicating they are slowing down as they would with magnetic dipole radiation for a surface field above 5x1013 gauss. The accretion disk has been connected to the launching of radio jets from black holes, and even from neutron stars. Estimates of the angular momenta of black holes are being made from different approaches, modelling a high frequency oscillation that may be related to how close the inner part of the accretion disk is to the black hole, modelling the continua spectra of the X-ray emission, and modeling the emission of red-shifted iron that may be emitted from the accretion disk. These investigations require early discovery of the black hole transient with the All Sky Monitor on RXTE or other monitoring information, frequent extended observations, and coordinated observations with missions that give higher energy resolution, or radio and infrared information.

Swank, Jean↗

An Analytic Collaborative Framework for the Earth System Observatory

NASA's Earth System Observatory groundbreaking observations will provide critical measurements to address societal relevant problems in climate change, natural hazard mitigation, fighting forest fires, and improving real-time agricultural processes. Central to the ESO vision is the notion of Open-Source Science (OSS), a collaborative culture enabled by technology that promotes the open sharing of data, information, and knowledge aiming to facilitate and accelerate scientific understanding, and the agile development of applications for the benefit of society. The larger vision of an Earth System Digital Twin (ESDT) calls for integrated Earth science frameworks that mirror the Earth by a proxy digital construct that includes km-scale resolution Earth system models and data assimilation systems along with an integrated set of analytic tools to enable the next generation of science discoveries and evidence-based decision making. The goal of this project is to develop an Analytic Collaborative Framework for ESO missions, based on realistic, science-based observing system simulations and the Program of Record (PoR). Tying it all together is a cloud-based cyberinfrastructure that will enable each uniquely designed satellite in the Earth System Observatory to work in tandem to create a 3D, holistic view of Earth. In this presentation, we lay the technological groundwork for enabling such a vision. Our approach consists of the 3 main interconnected building blocks: 1. Cloud-optimized representative datasets for ESO missions and the PoR to serve as basis for developing and prototyping an Analytic Collaborative Framework. 2. An Algorithm Workbench for enabling experimentation and exploration of synergistic algorithms not only for instruments within a mission, but also including the PoR and other ESO missions. 3. A series of concrete Open-Source Science demonstrations including use cases that span science discovery and end-user applications with direct societal impact. While our ultimate goal is to include all of the main missions comprising the Earth System Observatory, in our initial 2 years we will focus on AOS and SBG, two missions for which specific synergisms have been identified in a recent workshop. In this presentation we will describe our approach and discuss some illustrative examples of our framework.

Arlindo da SIlva↗