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At least 1,765 records · Page 98

An Autonomous MCP Bridge to Rucio: Enhancing Data Management Accessibility for High Energy Physics

The Rucio Data Management System [1] is an important tool used by High Energy Physics experiments, including those at Fermi National Accelerator Laboratory, to store and manage exabyte-scale scientific datasets. Despite its central role in coordinating data across globally distributed storage sites, Rucio's command line interface (CLI) presents a steep learning curve, and makes it difficult for scientists to navigate through. To solve this issue, a containerized Model Context Protocol (MCP) [2] server was built that connects Large Language Models directly to Rucio, allowing AI agents to handle data tasks by using simple, natural language rather than memorized terminal commands. The core engineering focus of this project was moving the server away from slow terminal commands that require text parsing and replacing them with a native Python Client API toolset and a planned REST API framework. Moving to the Python API handles data operations directly in memory, which helps clear up formatting errors, provides the AI with clean, structured JSON data and speeds up tool execution. To prove that the system actually works, a benchmarking pipeline was also built with various questions to test the AI across four different model configurations. The questions included finding data scopes, tracking down specific datasets, and checking replication rules. Through benchmarking, early runs showed that with raw terminal text, the model would get confused and stuck, whereas switching to the Python API to feed the AI clean, structured data yielded massive improvement. By creating an intelligent and autonomous bridge to a storage network, this project shows how AI can be implemented in scientific data management, which ultimately helps scientists at Fermilab spend less time sorting through data and more time focusing on their experiments and analysis.

Akella, Kashyap [William Rainey Harper Coll.]↗

In situ Stripline Electrochemical NMR for Batteries

Here, there exist some long outstanding technical challenges that continue to be of hindrance to fully harnessing the unique investigative advantages of nuclear magnetic resonance (NMR) spectroscopy in the in situ investigation of rechargeable battery chemistry. For instance, the conducting materials and circuitry necessary for an operational battery always deteriorate the coil–based NMR sensitivity when placed inside the coil, and the shape mismatch between them leads to low sample filling factors and even higher detection limits. We report herein a novel and successful adaptation of stripline NMR detection that integrates seamlessly the NMR detection with construction of an electro–chemical device in general (or a battery in particular) which leads to a technique with much higher detection sensitivity, higher sample filling factors, and which is particularly suitable for mass–limited samples.

25 ENERGY STORAGE↗

Using pollen in turbidites for vegetation reconstructions

Turbidites, deposited by sub-aqueous gravity flows, are common in sedimentary archives worldwide and present a unique challenge and opportunity when reconstructing past vegetation through pollen analysis. When sampling pollen from a sediment core for palaeovegetation records, it is common practice to target background sediments (i.e. pelagic sediment) and avoid sampling turbidites, as they are presumed to portray a misleading picture of past vegetation. This assumption stems from our limited understanding of pollen abundance and distribution through turbidites, meaning that palynologists overlook deposits that could potentially be used to reconstruct past vegetation and climate. We present pollen assemblage and sedimentological data from four recent (<150 years) deep marine turbidite deposits from the Hikurangi Subduction Margin, Aotearoa-New Zealand, with the aim of understanding the abundance and distribution of pollen in fine-grained turbidites. We find that pollen is diluted in the bases of turbidites, but despite this dilution, the proportions of different pollen taxa remain consistent through each turbidite. These results confirm that pollen can be sampled from turbidites for palaeovegetation reconstructions and that sampling the fine-grained upper parts of turbidites will provide the best pollen recovery.

59 BASIC BIOLOGICAL SCIENCES↗

1 H- 19 F REDOR-filtered NMR spin diffusion measurements of domain size in heterogeneous polymers

Solid state NMR spectroscopy is inherently sensitive to chemical structure and composition, and thus makes an ideal method to probe the heterogeneity of multicomponent polymers. Specifically, NMR spin diffusion experiments can be used to extract reliable information about spatial domain sizes on multiple length scales, provided that magnetization selection of one domain can be achieved. In this paper, we demonstrate the preferential filtering of protons in fluorinated domains during NMR spin diffusion exper-iments using 1 H- 19 F heteronuclear dipolar dephasing based on rotational echo double resonance (REDOR) MAS NMR techniques. Three pulse sequence variations are demonstrated based on the different nuclei detected: direct 1 H detection, plus both 1 H→ 13 C cross polarization (CP) and 1 H→ 19 F CP detection schemes. This 1 H- 19 F REDOR-filtered spin diffusion method was used to measure fluorinated domain sizes for a complex polymer blend. The efficacy of the REDOR-based spin filter does not rely on spin relaxation behavior or chemical shift differences, and thus is applicable for performing NMR spin diffu-sion experiments in samples where traditional magnetization filters may prove unsuccessful. This REDOR-filtered NMR spin diffusion method can also be extended to other samples where a heteronuclear spin pair exists that is unique to the domain of interest.

36 MATERIALS SCIENCE↗

Hydrophilic domain structure in polymer exchange membranes: Simulations of NMR spin diffusion experiments to address ability for model discrimination

Here, we detail the development of a flexible simulation program (NMR_DIFFSIM) that solves the nuclear magnetic resonance (NMR) spin diffusion equation for arbitrary polymer architectures. The program was used to explore the proton ( 1 H) NMR spin diffusion behavior predicted for a range of geometrical models describing polymer exchange membranes. These results were also directly compared with the NMR spin diffusion behavior predicted for more complex domain structures obtained from molecular dynamics (MD) simulations. The numerical implementation and capabilities of NMR_DIFFSIM were demonstrated by evaluating the experimental NMR spin diffusion behavior for the hydrophilic domain structure in sulfonated Diels-Alder Poly(Phenylene) (SDAPP) polymer membranes. The impact of morphology variations as a function of sulfonation and hydration level on the resulting NMR spin diffusion behavior were determined. These simulations allowed us to critically address the ability of NMR spin diffusion to discriminate between different structural models, and to highlight the extremely high fidelity experimental data required to accomplish this. A direct comparison of experimental double-quantum-filtered 1 H NMR spin diffusion in SDAPP membranes to the spin diffusion behavior predicted for MD-proposed morphologies revealed excellent agreement, providing experimental support for the MD structures at low to moderate hydration levels.

36 MATERIALS SCIENCE↗

Autonomous Magnetic Microrobots by Navigating Gates for Multiple Biomolecules Delivery

The precise delivery of biofunctionalized matters is of great interest from the fundamental and applied viewpoints. In spite of significant progress achieved during the last decade, a parallel and automated isolation and manipulation of rare analyte, and their simultaneous on-chip separation and trapping, still remain challenging. In this work, a universal micromagnet junction for self-navigating gates of microrobotic particles to deliver the biomolecules to specific sites using a remote magnetic field is described. In the proposed concept, the nonmagnetic gap between the lithographically defined donor and acceptor micromagnets creates a crucial energy barrier to restrict particle gating. It is shown that by carefully designing the geometry of the junctions, it becomes possible to deliver multiple protein-functionalized carriers in high resolution, as well as MCF-7 and THP-1 cells from the mixture, with high fidelity and trap them in individual apartments. Integration of such junctions with magnetophoretic circuitry elements could lead to novel platforms without retrieving for the synchronous digital manipulation of particles/biomolecules in microfluidic multiplex arrays for next-generation biochips.

36 MATERIALS SCIENCE↗

Decontamination Strategies to Increase Fuel and Product Conversion Yields of Municipal Solid Waste

Since the implementation of China’s Green Fence and National Sword policies, many areas lost a market for heavily contaminated municipal solid waste (MSW). Approximately 17.2 million tons of paper and 26.9 million tons of plastic were landfilled in the United States in 2018. This non-recyclable waste that would normally be landfilled can be converted into fuels and chemicals, but common contaminants that are present in non-recyclable waste can negatively affect low and high-temperature conversion yields. In addition, MSW is a heterogeneous feedstock whose composition can vary widely across geographical areas and socio-economic statuses. This presents a unique challenge for providing a consistent feedstock to biorefineries around the world. Techniques that are commonly used in other industries, in addition to pre-processing methods used for traditional biomass, can be used to increase conversion yields. Drawing on established techniques, as well as experimental decontamination strategies, non-recyclable MSW could represent a viable alternative to agricultural residues for biofuel production. Although many of the techniques explored in this chapter have been used extensively in other industries, the feedstock composition needs to be carefully considered when choosing prospective decontamination methods. It is likely that there is not a “one-size-fits-all” decontamination method for MSW. In conclusion, a pre-processing and decontamination plan will rely heavily on the composition of the individual waste stream.

09 BIOMASS FUELS↗

Zigzag search for multi-objective optimization considering generation cost and emission

The zigzag search algorithm has been applied in engineering fields, such as oil well placement, with satisfactory results. Here, the zigzag search algorithm is introduced, modified with enhancement, and effectively applied to solve an economic emission dispatch problem and to demonstrate its practicability in power systems. The problem is formulated as a non-linear multi-objective optimization model taking energy constraints, generation limits, and transmission constraints into consideration. A set of non-dominant solutions can be obtained to form the Pareto front. Case studies are carried out with the IEEE 30-bus system and IEEE 118-bus system. The results indicate that the proposed zigzag search algorithms have the ability to deal with relevant power system problems. Comparisons are made with algorithms which have been widely used in literatures, such as the genetic algorithm (GA) and particle swarm optimization (PSO). Finally, this demonstrates that the zigzag search is easy to implement and is superior to other multi-objective (MO) techniques in both accuracy and efficiency.

54 ENVIRONMENTAL SCIENCES↗

Assessing the predictive impact of factor fixing with an adaptive uncertainty-based approach .

Despite widespread use of factor fixing in environmental modeling, its effect on model predictions has received little attention and is instead commonly presumed to be negligible. We propose a proof-of-concept adaptive method for systematically investigating the impact of factor fixing. The method uses Global Sensitivity Analysis methods to identify groups of sensitive parameters, then quantifies which groups can be safely fixed at nominal values without exceeding a maximum acceptable error, demonstrated using the 21-dimensional Sobol’ G-function. Furthermore, three error measures are considered for quantities of interest, namely Relative Mean Absolute Error, Pearson Product-Moment Correlation and Relative Variance. Results demonstrate that factor fixing may cause large errors in the model results unexpectedly, when preliminary analysis suggests otherwise, and that the default value selected affects the number of factors to fix. To improve the applicability and methodological development of factor fixing, a new research agenda encompassing five opportunities is discussed for further attention.

54 ENVIRONMENTAL SCIENCES↗

Two-level main memory co-design: Multi-threaded algorithmic primitives, analysis, and simulation

A challenge in computer architecture is that processors often cannot be fed data from DRAM as fast as CPUs can consume it. Therefore, many applications are memory-bandwidth bound. With this motivation and the realization that traditional architectures (with all DRAM reachable only via bus) are insufficient to feed groups of modern processing units, vendors have introduced a variety of non-DDR 3D memory technologies (Hybrid Memory Cube (HMC),Wide I/O 2, High Bandwidth Memory (HBM)). These offer higher bandwidth and lower power by stacking DRAM chips on the processor or nearby on a silicon interposer. We will call these solutions “near-memory,” and if user-addressable, “scratchpad.” High-performance systems on the market now offer two levels of main memory: near-memory on package and traditional DRAM further away. In the near term we expect the latencies near-memory and DRAM to be similar. Here, it is natural to think of near-memory as another module on the DRAM level of the memory hierarchy. Vendors are expected to offer modes in which the near memory is used as cache, but we believe that this will be inefficient.

97 MATHEMATICS AND COMPUTING↗

Unexpected effects of inorganic phosphate glass on crystallization and thermo-rheological behavior of polyethylene terephthalate

The effects of ultra-low glass transition temperature (T g ) phosphate glass (Pglass) on the thermal, morphological, rheological, mechanical, and crystallization properties of hybrid Pglass/poly(eththylene terephthalate)(PET) were investigated. Nano- and micro-scale distribution of the Pglass in the PET polymer matrix was observed. The polydispersed Pglass in the PET matrix functioned as a nucleation agent, resulting in increasing crystallization temperature. The Pglass in the PET matrix decreased the T g , indicating a plasticizing effect of the Pglass in the hybrids that was confirmed by the significantly decreased complex viscosity of the PET matrix. In addition, with increasing temperature, a non-terminal behavior of the viscoelastic properties occurred due to the hybrid structural changes and improved miscibility of the hybrid components. In conclusion, the obtained solid-state variable temperature 31 P and 1 H NMR spectroscopy results showed strong Pglass concentration dependency of the interactions at the PET-Pglass interface.

36 MATERIALS SCIENCE↗

Acid-catalyzed benzoylation reactions of Diels-Alder polyphenylenes

In this work, post-polymerization reactions of Diels-Alder polyphenylene with ring-substituted benzoyl chloride derivatives using triflic acid as the catalyst, effected selective Friedel-Crafts acylation of the lateral phenyl groups attached to the polyphenylene backbone. Using 4-(trifluoromethyl) benzoyl chloride gave a polymer with increased hydrophobicity. Using 4-fluorobenzoyl chloride afforded lateral 4-(fluorobenzoyl)phenyl substituents, which were further functionalized by nucleophilic aromatic substitution of the reactive fluoro substituent by 4-methoxyphenol.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

β‐Taxilin participates in differentiation of C2C12 myoblasts into myotubes

Myogenesis is required for the development of skeletal muscle. Accumulating evidence indicates that the expression of several genes are upregulated during myogenesis and these genes play pivotal roles in myogenesis. However, the molecular mechanism underlying myogenesis is not fully understood. In this study, we found that β-taxilin, which is specifically expressed in the skeletal muscle and heart tissues, was progressively expressed during differentiation of C2C12 myoblasts into myotubes, prompting us to investigate the role of β-taxilin in myogenesis. In C2C12 cells, knockdown of β-taxilin impaired the fusion of myoblasts into myotubes, and decreased the diameter of myotubes. We also found that β-taxilin interacted with dysbindin, a coiled-coil-containing protein. Knockdown of dysbindin conversely promoted the fusion of myoblasts into myotubes and increased the diameter of myotubes in C2C12 cells. Furthermore, knockdown of dysbindin attenuated the inhibitory effect of β-taxilin depletion on myotube formation of C2C12 cells. These results demonstrate that β-taxilin participates in myogenesis through suppressing the function of dysbindin to inhibit the differentiation of C2C12 myoblasts into myotubes. - Highlights: • β‐Taxilin is progressively expressed during differentiation of C2C12 cell. • Knockdown of β-taxilin impaired C2C12 myotube formation. • β‐Taxilin interacted with dysbindin. • Knockdown of dysbindin promoted C2C12 myotube formation. • The function of β-taxilin in C2C12 myotube formation depends on dysbindin.

60 APPLIED LIFE SCIENCES↗

Impact of Hydration and Sulfonation on the Morphology and Ionic Conductivity of Sulfonated Poly(phenylene) Proton Exchange Membranes

Multiple computational and experimental techniques are used here to understand the nanoscale morphology and water/proton transport properties in a series of sulfonated Diels–Alder poly(phenylene) (SDAPP) membranes over a wide range of temperature, hydration, and sulfonation conditions. New synthetic methods allow us to sulfonate the SDAPP membranes to much higher ion exchange capacity levels than has been previously possible. Nanoscale phase separation between the hydrophobic polymer backbone and the hydrophilic water/sulfonic acid groups was observed for all membranes studied. We find good agreement between structure factors calculated from atomistic molecular dynamics (MD) simulations and those measured by X-ray scattering. With increasing hydration, the scattering ionomer peak in SDAPP is found to decrease in intensity. This intensity decrease is shown to be due to a reduction of scattering contrast between the water and polymer and is not indicative of any loss of nanoscale phase separation. Both MD simulations and density functional theory (DFT) calculations show that as hydration levels are increased, the nanostructure morphology in SDAPP evolves from isolated ionic domains to fully percolated water networks containing progressively weaker hydrogen bond strengths. The conductivity of the membranes is measured by electrical impedance spectroscopy and the equivalent proton conductivity calculated from pulsed-field-gradient (PFG) NMR diffusometry measurements of the hydration waters. Comparison of the measured and calculated conductivity reveals that in SDAPP the proton conduction mechanism evolves from being dominated by vehicular transport at low hydration and sulfonation levels to including a significant contribution from the Grötthuss mechanism (also known as structural diffusion) at higher hydration and sulfonation levels. The observed increase in conductivity reflects the impact that changing hydration and sulfonation have on the morphology and hydrogen bond network and ultimately on the membrane performance.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗