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At least 955 records · Page 53

Expert Text Analysis in the Inclusion of History and Philosophy of Science in Higher Education

The history and philosophy of science (HPS) plays a special role in education. An elective HPS course onthe philosophy of scientific experimentation for young scientists and graduate students of natural scienceis presented. The course bears a pragmatic character, and its main aims include the development of criticalthinking (CT), familiarization with philosophical problems in the relevant areas of knowledge, and thecultivation of a taste for reflective, critical analysis, both individual and group-based, which contributes todeeper understanding of the features of scientific practice in the context of modern complex groupcooperation. Students are offered a classical HPS program that included debates on the relationship betweenempiricism and rationalism, the role of Kant’s transcendental philosophy, modern topics associated withthe practical success of rationalism in the emergence of modern natural science, and the theory-ladennessof experimentation. Particular attention during the course is paid to the problems of megascience, theinclusion of which is justified by the specifics of the students’ engagement with science, technology,engineering, and mathematics (STEM). Emphasis is placed on the structure and typology of the collectivesubject in the modern educational process as well as in experimental practice. Lessons on the methodologyof expert text analysis (META), which are aimed at the development of critical thinking skills and thecreation of an interdisciplinary discussion space, are included in the course and relied on the example ofthe history and philosophy of high energy physics to motivate professional reflection. META classesincluded in the course prepare graduate students for teamwork in big science, proto-megascience, andmegascience. The course offers practical recommendations that could be applied to students’ own researchand could be useful for practitioners.

99 GENERAL AND MISCELLANEOUS↗

Characterization of a collimated neutron imager for low-rate fast neutron imaging

Spatial localization of special nuclear materials (SNM) via their neutron signatures amidst background requires knowledge of the background neutron environment or a means of separating a source from background based on low amounts of information. This requirement has created the need for characterizing the spatial distribution of the cosmogenic neutron background. Neutron scatter cameras have been developed and optimized for rapid detection of high activity sources, but have low imaging efficiency, making it difficult to use them to characterize low rate diffuse sources, such as the neutron background. The Low Intensity Neutron Imaging System (LINIS) is a collimated neutron imager that has been designed and optimized for imaging diffuse cosmogenic neutron background in the energy range of 0.5–15 MeV. LINIS operates using 16 liquid scintillation detectors shielded by ultra-high molecular weight polyethylene cylindrical collimators in a staggered orientation and rotates to 7 discrete positions, giving it roughly 2π sensitivity. Finally, LINIS has been characterized using (α, n) and fission neutron sources using two imaging techniques for neutron source localization, simple backprojection and Maximum Likelihood Expectation Maximization.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Curating a comprehensive set of enzymatic reaction rules for efficient novel biosynthetic pathway design

Enzyme substrate promiscuity has significant implications for metabolic engineering. The ability to predict the space of possible enzymatic side reactions is crucial for elucidating underground metabolic networks in microorganisms, as well as harnessing novel biosynthetic capabilities of enzymes to produce desired chemicals. Reaction rule-based cheminformatics platforms have been implemented to computationally enumerate possible promiscuous reactions, relying on existing knowledge of enzymatic transformations to inform novel reactions. However, past versions of curated reaction rules have been limited by a lack of comprehensiveness in representing all possible transformations, as well as the need to prune rules to enhance computational efficiency in pathway expansion. To this end, we curated a set of 1224 most generalized reaction rules, automatically abstracted from atom-mapped MetaCyc reactions and verified to uniquely cover all common enzymatic transformations. Additionally, we developed a framework to systematically identify and correct redundancies and errors in the curation process, resulting in a minimal, yet comprehensive, rule set. These reaction rules were capable of reproducing more than 85% of all reactions in the KEGG and BRENDA databases, for which a large fraction of reactions is not present in MetaCyc. Our rules exceed all previously published rule sets for which reproduction was possible in this coverage analysis, which allows for the exploration of a larger space of known enzymatic transformations. By leveraging the entire knowledge of possible metabolic reactions through generalized enzymatic reaction rules, we are able to better utilize underground metabolic pathways and accelerate novel biosynthetic pathway design to enable bioproduction towards a wider range of new molecules.

59 BASIC BIOLOGICAL SCIENCES↗

Path sampling of recurrent neural networks by incorporating known physics

Recurrent neural networks have seen widespread use in modeling dynamical systems in varied domains such as weather prediction, text prediction and several others. Often one wishes to supplement the experimentally observed dynamics with prior knowledge or intuition about the system. While the recurrent nature of these networks allows them to model arbitrarily long memories in the time series used in training, it makes it harder to impose prior knowledge or intuition through generic constraints. In this work, we present a path sampling approach based on principle of Maximum Caliber that allows us to include generic thermodynamic or kinetic constraints into recurrent neural networks. We show the method here for a widely used type of recurrent neural network known as long short-term memory network in the context of supplementing time series collected from different application domains. These include classical Molecular Dynamics of a protein and Monte Carlo simulations of an open quantum system continuously losing photons to the environment and displaying Rabi oscillations. Our method can be easily generalized to other generative artificial intelligence models and to generic time series in different areas of physical and social sciences, where one wishes to supplement limited data with intuition or theory based corrections.

59 BASIC BIOLOGICAL SCIENCES↗

Mechanics of Dynamic and Deformable DNA Nanostructures

In DNA nanotechnology, DNA molecules are designed, engineered, and assembled into arbitrary-shaped architectures with predesigned functions. Static DNA assemblies often have delicate designs with structural rigidity to overcome thermal fluctuations. Dynamic structures reconfigure in response to external cues, which have been explored to create functional nanodevices for environmental sensing and other applications. However, the precise control of reconfiguration dynamics has been a challenge due partly to flexible single-stranded DNA connections between moving parts. Deformable structures are special dynamic constructs with deformation on double-stranded parts and single-stranded hinges during transformation. These structures often have better control in programmed deformation. However, related deformability and mechanics including transformation mechanisms are not well understood or documented. In this review, we summarize the development of dynamic and deformable DNA nanostructures from a mechanical perspective. We present deformation mechanisms such as single-stranded DNA hinges with lock-and-release pairs, jack edges, helicity modulation, and external loading. Theoretical and computational models are discussed for understanding their associated deformations and mechanics. We elucidate the pros and cons of each model and recommend design processes based on the models. The design guidelines should be useful for those who have limited knowledge in mechanics as well as expert DNA designers.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Reduced Model of Ionization Lag in Intense Laser-Produced Plasmas

A physics-based empirical formula is derived to predict the ionization lag in underdense plasmas generated by an intense laser. Time-dependent nonlocal thermodynamic equilibrium calculations demonstrate significantly delayed ionization, due to rapid changes in plasma conditions, which critically impacts plasma properties such as opacity, emissivity, and heat transport. The reduced model, based on these calculations, enables the estimation of ionization lag without requiring in-depth knowledge of nonlocal thermodynamic equilibrium modeling. Furthermore, modeling reveals that the two-step ionization process—collisional excitation followed by photoionization—plays a crucial role in this ionization delay, with collisional excitation setting the timescale for ionization. Simulations across a range of elements, from beryllium to germanium, demonstrate that ionization lag is a widespread phenomenon, underscoring the importance of incorporating such processes into ionization modeling in radiation hydrodynamic simulations for various laser-plasma experiments.

direct drive↗

Data-Driven Cyber-Attack Detection for PV Farms via Time-Frequency Domain Features

The internetworking of grid-connected power electronics converters (PECs) in photovoltaic (PV) farms has inevitably expanded the cyber-attack surfaces. Here this paper presents a comprehensive study on cyber-attack detection and diagnosis for PEC-enabled PV farms via single waveform sensor to distinguish between normal conditions, open-circuit faults, short-circuit faults, and cyber-attacks. To our knowledge, this has not been attempted before. Firstly, we propose frequency-domain magnitude-based residuals to identify short-circuit faults and a time-domain mean current vector-based feature to distinguish open-circuit faults from other threats. These features can fully reflect the specific physical characteristics of PV farms during threat duration. Secondly, unlike micro phasor measurement units (µPMU) and raw electric waveform-based methods, the proposed innovative features can address novel cyber-attacks that are excluded from the training process. Thirdly, an online hardware-in-the-loop (HIL) testbed using the OPAL-RT real-time digital simulator has verified the effectiveness. The monitoring system runs in real-time while using HIL as an operational solar farm and a National Instruments (NI) data acquisition card as the electric waveform sensor at the point of coupling.

42 ENGINEERING↗

SEED: Semantic Energy Exploration and Discovery

The Bioenergy Knowledge Discovery Framework (KDF) hosts a vast repository of specialized data, yet traditional keyword-based search methods often struggle to provide direct answers, requiring significant domain expertise and manual effort to filter through raw documents. To overcome these barriers, this software introduces a semantic search engine that enables both specialists and non-specialists to query the KDF using natural language. By shifting from rigid keyword matching to intent-based retrieval, the tool automatically identifies and ranks the most relevant sources within the database. The system functions by processing natural language queries to extract the most pertinent information, delivering an AI-generated plain-language summary alongside exact supporting quotes from retrieved documents. This integrated approach provides users with immediate, evidence-based answers while eliminating the need for exhaustive manual review. By surfacing direct insights and contextual evidence, the software enhances the usability of existing KDF resources and democratizes access to complex bioenergy data. Ultimately, this semantic search solution accelerates the discovery process and supports faster, more informed decision-making across the bioenergy sector.

Pan, Meiyu (Melrose) [Oak Ridge National Laborator↗

A numerical approach for detecting switch-like bistability in mass action chemical reaction networks with conservation laws

Theoretical analysis of signaling pathways can provide a substantial amount of insight into their function. One particular area of research considers signaling pathways capable of assuming two or more stable states given the same amount of signaling ligand. This phenomenon of bistability can give rise to switch-like behavior, a mechanism that governs cellular decision making. Investigation of whether or not a signaling pathway can confer bistability and switch-like behavior, without knowledge of specific kinetic rate constant values, is a mathematically challenging problem. Recently a technique based on optimization has been introduced, which is capable of finding example parameter values that confer switch-like behavior for a given pathway. Although this approach has made it possible to analyze moderately sized pathways, it is limited to reaction networks that presume a uniterminal structure. It is this limited structure we address by developing a general technique that applies to any mass action reaction network with conservation laws. In this paper we developed a generalized method for detecting switch-like bistable behavior in any mass action reaction network with conservation laws. The method involves (1) construction of a constrained optimization problem using the determinant of the Jacobian of the underlying rate equations, (2) minimization of the objective function to search for conditions resulting in a zero eigenvalue, (3) computation of a confidence level that describes if the global minimum has been found and (4) evaluation of optimization values, using either numerical continuation or directly simulating the ODE system, to verify that a bistability region exists. The generalized method has been tested on three motifs known to be capable of bistability. We have developed a variation of an optimization-based method for the discovery of bistability, which is not limited to uniterminal chemical reaction networks. Successful completion of the method provides an S-shaped bifurcation diagram, which indicates that the network acts as a bistable switch for the given optimization parameters.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Sensitivity Analysis of Particle-In-Cell Modeling Parameters in Settling Bed, Bubbling Fluidized Bed and Circulating Fluidized Bed

The objective of the work presented is to perform a preliminary sensitivity analysis of particle-in-cell (PIC) model parameters when applied to settling bed, bubbling fluidized bed, and circulating fluidized bed simulations. These examples correspond to widely different flow conditions commonly seen in chemical engineering applications. Simulations were performed using the PIC method in the open-source software Multiphase Flow with Interphase eXchanges (MFiX) developed by the National Energy Technology Laboratory (NETL). As part of the non-intrusive uncertainty quantification (UQ) analysis, simulation campaigns were generated using Nodeworks. Sampling locations or settings for PIC model parameters were determined using the Latin Hypercube method. Response surfaces were created using radial basis functions (RBF), and Sobol’ indices were estimated to quantify the influence of model parameters on the quantities of interest (QoI). This study marks a first step towards systematically determining optimal ranges for model parameters used in MFiX-PIC. Based on limited experience, it is expected that these values would depend strongly on flow conditions. Given the complexity of the multiphase flow systems under analysis, a non-intrusive UQ based approach is used to identify the most influential parameters in each case. This prior knowledge will help in proposing an effective design of experiments (DoE) and determine optimal parameters through techniques such as deterministic or Bayesian calibration, which will be pursued in the future.

42 ENGINEERING↗

Deep Learning for Hydro-Biogeochemistry Processes

Focal Area(s): The white paper focuses on areas 2 and 3. The proposed deep learning modeling approach can provide forecasting capabilities and mechanism-based understanding of terrestrial and aquatic hydro- biogeochemical processes at watershed and river basin scales. Knowledge gleaned here can also provide insights for Earth System Models.

54 ENVIRONMENTAL SCIENCES↗

PurpleAir Sensors as Effective Indicators of PM Exposure in Urban Areas

Particulate matter that is 2.5 microns or less in diameter (PM 2.5 ) is a biproduct of combustion reactions used for energy production. Populations that are exposed to consistently high levels of aerosolized PM 2.5 face serious health risks. This project compared low-cost PM 2.5 sensors with federally recognized methods to look for a cost-effective way to expand the air quality monitor network. Within metropolitan areas that face inconsistent spatial distribution of PM 2.5 , there may not be the necessary network density to indicate neighborhood-levels of PM 2.5 . This project aimed to examine the sensitivity of low-cost PM 2.5 sensor measurements on a neighborhood scale (< 4 km diameter) in an urban area to prevent citizens from being exposed to unsafe levels of PM 2.5 without their knowledge. Using publicly available sensor data from Livermore, CA and Bakersfield, CA, it was determined, based on the revealed patterns, that the analyzed low-cost sensors were able to display representative PM 2.5 levels for neighborhoodscale areas exposed to pollution from PM 2.5 sources.

63 RADIATION, THERMAL, AND OTHER ENVIRON. POLLUTAN↗

Journey Over Destination: Differentiable Sensor Placement Enhances Generalization [Poster]

The challenge of reconstructing spatial fields that change over time from limited sensor data has been a focal point for many research studies. Various machine learning methods have been used in attempts to address this complex issue, including convolutional neural networks. All of the proposed methods share a common requirement that the user needs to manually determine the sensor positions. This requirement remains a limiting factor in the ongoing quest for efficient learning and accurate field reconstruction. This study aims to present a method that enables a model to optimize sensor positions via backpropagation, thereby facilitating the model’s exploration of the spatial domain and enhancing sensor positioning effectively. Indexing naturally incorporates discrete decisions. This operation is nondifferentiable which is a requirement for the application of gradient-based optimization methods. We showcased its effectiveness by training an attention-based neural network, which achieved top-tier performance on two separate datasets. To our knowledge, this represents the first fully end-to-end differentiable workflow for enhancing sensor placement within a neural network model.

58 GEOSCIENCES↗

Development of Transformative Preparation Methods to Push up High Q&G Performance of FRIB Spare HWR Cryomodule Cavities

The FRIB accelerator project construction, a top priority of US nuclear science, was completed in January 2022, and is now moving to user operation. The stable and reliable operation of the accelerating cryomodules is essential in achieving/fulfilling DOE and user expectations. So far, FRIB cryomodules meet all FRIB specifications for cavity performance. However, during the lifetime of machine operation, degradation of cryomodule performance is possible, as reported in similar operating facilities (CEBAF, SNS). If cryomodule degradation is observed at FRIB, the under-performing cryomodule will require replacement/maintenance. In effort to manage operational reliability, FRIB plans to construct a 0.53 half-wave cryomodule to serve as an active spare. In a parallel effort, FRIB will also work toward increasing operational Q and gradient of spare cryomodule cavities to gain an overall performance margin to support future operational reliability. The current FRIB cavity designs have a potential to operate at gradients higher than 8 MV/m, but are currently limited by field emission (FE) and/or high field Q slope (HFQS); known issue in buffered chemical polished (BCP) treated cavities. The proposal looks to develop transformative surface preparation treatments to improve the operational gradient of spare cryomodules higher than 10 MV/m while maintaining high Q. Thus, increasing operational margin by 30 - 50%. With the goal to improve operational reliability set, the proposal will investigate multiple objectives as possible paths forward to achieve an overall increase in cavity performance and gain a better understanding of SRF limiting mechanisms. The proposal will study the application of different chemical surface treatments to 0.53 half-wave cavities, with the addition of low temperature bakes (LTB), and measure their effects on accelerating performance. Proposed chemical treatments to be explored in this proposal include conventional EP acid mixtures, as well as innovated EP and BCP acid mixtures designed to simplify processing paths in migrating FE and HFQS. The proposed transformative treatment wet N-doping also has the potential to replicate recent advancements in SRF technology relating to nitrogen doping and high Q operation without the requirement for an ultra-high vacuum annealing furnace; currently being developed at FNAL and JLAB. In parallel, high Q performance relating to flux trapping will be investigated with the installation of a second layer of magnetic shielding in the vertical test Dewar. The research objectives presented in the proposal, and their corresponding effects on cavity performance, will provide essential knowledge and future guidance to the SRF community and provide possible paths for future SRF based projects and applications.

43 PARTICLE ACCELERATORS↗

Identification of Faults Susceptible to Induced Seismicity (Final Report)

Central to the work documented in this report is the capability of geocellular models to represent the geologic conceptual model updated with fault identification from machine learning and joint inversion modeling of microseismic data measured and recorded as a consequence of CO 2 injection at a field demonstration site: the Illinois Basin - Decatur Project (IBDP). This work required seven unique geocellular models with 100s of simulated variations to gain a very high degree of confidence in the identification of geologic features present that contributed to induced microseismicity at IBDP. All forward modeling: pressure modeling, stress modeling, and seismic modeling used the same geologic conceptual model and representations of that model at different scales. The pressure modeling and poroelastic modeling created “snapshots” of pore pressure and stress field changes at different times during CO 2 injection, in which microseismic events were clustered (in time). These pressure and stress snapshots, within the framework and architecture of the geologic conceptual model via the geocellular model, informed the single fault and fault network models to ascertain the likelihood of fault movement (seismic or aseismic). The outcomes of the pressure, stress, and fault/fault network (seismic) modeling confirmed that the faults in the geologic conceptual model in Task 2 were likely the source of microseismic events measured at IBDP and acted as conduits for pressure to be transmitted from the injection interval into the Precambrian crystalline basement rock. This closely coordinated and integrated unique modeling approach was conducted to prove the viability of our proposed workflow 1) to better resolve crystalline basement faults, 2) detect subseismic faults that could be activated by injection, 3) increase the certainty in fault detection and their susceptibility to release seismic energy, and 4) understand transmission of pressure vertically from the well to the underlying fractured crystalline basement. The proposed methodology was effective in guiding an iterative process of calibrating forward modeling results based on similar geocellular models while honoring the geologic conceptual model (i.e., characterization data and knowledge of regional geology); this led to higher level of certainty in the identification of fault/faults zones to control seismicity and transmission of pressure to the regions of recorded and located injection induced seismicity.

58 GEOSCIENCES↗

A Defined Medium for Cultivation and Exometabolite Profiling of Soil Bacteria

Exometabolomics is an approach to assess how microorganisms alter, or react to their environments through the depletion and production of metabolites. It allows the examination of how soil microbes transform the small molecule metabolites within their environment, which can be used to study resource competition and cross-feeding. This approach is most powerful when used with defined media that enable tracking of all metabolites. However, microbial growth media have traditionally been developed for the isolation and growth of microorganisms but not metabolite utilization profiling through Liquid Chromatography Tandem Mass Spectrometry (LC-MS/MS). Here, we describe the construction of a defined medium, the Northen Lab Defined Medium (NLDM), that not only supports the growth of diverse soil bacteria but also is defined and therefore suited for exometabolomic experiments. Metabolites included in NLDM were selected based on their presence in R2A medium and soil, elemental stoichiometry requirements, as well as knowledge of metabolite usage by different bacteria. We found that NLDM supported the growth of 108 of the 110 phylogenetically diverse (spanning 36 different families) soil bacterial isolates tested and all of its metabolites were trackable through LC–MS/MS analysis. These results demonstrate the viability and utility of the constructed NLDM medium for growing and characterizing diverse microbial isolates and communities.

59 BASIC BIOLOGICAL SCIENCES↗

Ethane-CO2 Mixture Adsorption in Silicalite: Influence of Tortuosity and Connectivity of Pores on Selectivity

Selective adsorption using nanoporous materials is an efficient strategy for separating gas mixtures. In a nanoporous material, pores can exist in different shapes and can have different degrees of inter-connectivity. In recent studies, both pore connectivity and tortuosity have been found to affect the adsorption and dynamical properties of ethane and CO2 in silicalite differently. Here, using Monte Carlo simulations, we investigate if these two attributes can affect the selective adsorption of one component from a mixture of ethane and CO2 in silicalite. For this, the adsorption of an equimolar mixture of ethane and CO2 is simulated in 12 models of silicalite—SnZm (n, m = 0, 1, 2, 3 or 4; with n and m denoting, respectively, the fraction (out of 4) of straight and zigzag channels of silicalite that are available for adsorption)—differing in degrees of pore connectivity and tortuosity. The adsorption selectivity in this system is found to exhibit a reversal with the adsorption dominated by ethane at low pressures (below ~1 atm) and by CO2 at higher pressures (above ~10 atm). Pore connectivity is found to suppress the selective adsorption of CO2 at higher pressures and also shifts the selectivity reversal to higher pressures. The selectivity reversal results from a competition between the polarizability-affected adsorption at lower pressures and efficient packing at higher pressures. The efficient packing of CO2 is a compounded effect resulting from the larger effective pore volume available for CO2 due to its stronger interaction with the pore surface and smaller molecular volume. CO2 molecules show a preference to adsorb in non-tortuous pores, and this preference is found to be stronger in the presence of ethane. The effects of pore connectivity and tortuosity elucidated here should be applicable to a wide range of natural and engineered nanoporous materials, and this knowledge could be used to identify materials with better capability for separating and storing CO2 based on their pore attributes.

Gautam, Siddharth (ORCID:0000000314435382)↗

Origins of Electrostriction in Poly(vinylidene fluoride)-Based Ferroelectric Polymers

Although electrostriction is ubiquitous for dielectric polymers, giant electrostriction has not been observed until relaxor ferroelectric (RFE) poly(vinylidene fluoride) (PVDF)-based polymers are achieved. However, the exact origin for giant electrostriction in these polymers has not been fully understood. By studying the electrostriction in the uniaxially stretched films of a ferroelectric poly(VDF-co-trifluoroethylene) [P(VDF-TrFE)] random copolymer and an RFE poly(VDF-co-TrFE-co-chlorotrifluoroethylene) [P(VDF-TrFE-CTFE)] random terpolymer in this work, we confirmed that ferroelectric switching with large hysteresis, such as in the case of P(VDF-TrFE), was not genuine electrostriction. By decreasing large ferroelectric domains to the nanometer scale (i.e., 2–3 nm), such as in the case of the P(VDF-TrFE-CTFE) terpolymer, electrostriction with low hysteresis could be achieved. Here, two origins of the large electrostriction in these polymers were identified. The first was the mechano-electrostriction due to the poling field-induced conformation transformation of oriented polymer chains. The second was the electric repulsion of electrically aligned nanodomains. These effects could occur in both crystals and the oriented amorphous fraction, which links between the nanocrystals and the isotropic amorphous fraction. When the poling field was relatively low (e.g., <40 MV/m), the mechano-electrostriction was the major contribution and the electric repulsion effect was a minor contribution to electrostriction. Meanwhile, a strong temperature dependence of the low-field electrostriction coefficient was observed. Finally, we found an empirical inverse relationship between the electrostriction coefficient and the product of Young’s modulus and dielectric constant. The knowledge obtained from this study provides an insightful understanding of the electrostriction mechanism in PVDF-based electroactive polymers, which will find potential applications in sensors and actuators for wearable electronics and soft robotics.

36 MATERIALS SCIENCE↗