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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 433 records · Page 24
All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Role of pore dilation in molecular transport through the nuclear pore complex: Insights from polymer scaling theory

The nuclear pore complex (NPC), a channel within the nuclear envelope filled with intrinsically disordered proteins, regulates the transport of macromolecules between the nucleus and the cytoplasm. Recent studies have highlighted the NPC’s ability to adjust its diameter in response to the membrane tension, underscoring the importance of exploring how variations in pore size influence molecular transport through the NPC. In this study, we investigated the relationship between pore size and transport rate and proposed a mathematical model describing this connection. We began by theoretically analyzing how the pore size scales with the characteristic dimensions of the mesh-like structure within the pore. By introducing key assumptions about how the meshwork structure influences molecular diffusion, we derived a mathematical expression for the transport rate based on the size of the pore and the transported molecules. To validate our model, we conducted Brownian dynamics simulations using a coarse-grained representation of the NPC. These simulations, performed across a range of pore sizes, demonstrated strong agreement with our model’s predictions, confirming its accuracy and applicability. Our model is specifically tailored for small-to-medium-sized molecules, approximately 5 nanometers in size, making it relevant to a wide range of transcription factors and signaling molecules. It also extends to molecules with weak and transient interactions with FG-Nups, such as importin-β. By presenting this model formula, our study offers a quantitative framework for analyzing the effects of pore dilation on nucleocytoplasmic transport.

Biochemistry & Molecular Biology↗
DOE OSTI2025

Leveraging structure-informed machine learning for fast steric zipper propensity prediction across whole proteomes

Predicting the amyloid fold and the propensity of peptide segments to adopt amyloid-like structures remain a challenge. However, recent progress has facilitated structure-based prediction of steric zipper propensity and the use of machine learning to accelerate the calculation of predictive models across many scientific areas. Leveraging these advances, we have developed a new approach for rapid proteome-wide assessment of zipper profiles that is informed by four million steric zipper predictions collected over ten years. This collection is used to build a machine learning model capable of rapidly predicting steric zipper propensity, and allowing for the assessment of zippers at both the protein and proteome level. Our predictions show enrichment for zipper forming segments in proteins involved in cell wall reorganization in yeast, highlighting a potential category of interest for experimental characterization. Overall, our predictive model allows for the exploration of amyloid formation across the tree of life and provides a tool for assessment of both novel and designed sequences for zipper density.

Biochemistry & Molecular Biology↗
DOE OSTI2021

Reverse annealing for nonnegative/binary matrix factorization

It was recently shown that quantum annealing can be used as an effective, fast subroutine in certain types of matrix factorization algorithms. The quantum annealing algorithm performed best for quick, approximate answers, but performance rapidly plateaued. In this paper, we utilize reverse annealing instead of forward annealing in the quantum annealing subroutine for nonnegative/binary matrix factorization problems. After an initial global search with forward annealing, reverse annealing performs a series of local searches that refine existing solutions. The combination of forward and reverse annealing significantly improves performance compared to forward annealing alone for all but the shortest run times.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

The Potential of Quantum Annealing for Rapid Solution Structure Identification [Slides]

This presentation covers a framework for categorizing heuristics including neighborhood size, iterated local search, and performance metrics. The question, "How does Quantum Annealing stack up?" is addressed through Random with Fields (RANF-1), Biased Ferromagnet (BFM), and Corrupted Biased Ferromagnet (CBFM). Concluding thoughts are then given.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2021

Nonequilibrium Physics of Multiphase Flow in Porous Media: Wettability and Disorder

Carbon capture and geologic storage, dissociation of methane hydrates in permafrost, enhanced oil recovery, and water dropout in low-temperature fuel cells, all have something in common: two or more fluids flow simultaneously through a porous medium; and the displacement of one fluid by another is often unstable (either due to gravity or viscous forces). Yet, our ability to model multiphase flow in porous media has remained a challenge. The traditional equations are unable to predict, explain, or even reproduce, the formation of the complex patterns observed in experiments. The overarching goal of the project is to develop new physical understanding of the role of wettability and disorder in multiphase flow through permeable media, and to develop new mathematical and computational models at the pore scale and at the continuum scale.

58 GEOSCIENCES↗
DOE OSTI2023

Remapping of Data Between One-Dimensional Meshes

In this report we present two approaches to data remapping between one-dimensional meshes implemented with the c++ programming language. Our goal was to test the performance of two search algorithms, linear and binary, and verify the accuracy of our implementations of the two methods. We first introduce the concept of data remap and meshing components, as well as their various uses. We then delve into the differences between point-wise and conservative remap, the algorithms used in the implementations, and lastly confirm the implementations work as intended when given various inputs. We expect that, after profiling, the binary search algorithm will be more efficient than the linear algorithm for sorted sets of data, the point-wise remap implementation to accurately approximate the data transfer between two meshes, and the conservative remap implementation to conserve the area underneath the curve of two distinct meshes.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

Data Remapping Between One-Dimensional Meshes [Slides]

Two different remapping algorithms were implemented: point wise (node-to-node date remapping) and conservative (conserves the area under the curve. The performance of both linear and binary searches were studied and it was found that the binary search was more efficient.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

Probabilistic Evaluation of Geomechanical Risks in CO2 Storage: An Exploration of Caprock Integrity Metrics Using a Multilaminate Model

The probabilistic uncertainty assessment of geomechanical risk—specifically, caprock failure—attributable to CO2 injection, as presented in a simplified hypothetical geological model, was the focus of this study. Our approach amalgamates the implementation of a multilaminate model, the creation of a response surface model in conjunction with the Box–Behnken sampling design, the execution of associated numerical modeling experiments, and the utilization of Monte Carlo simulations. Probability distributions to encapsulate the inherent variability (elastic and mechanical properties of the caprock and reservoir) and uncertainty in prediction estimates (vertical displacement, total strain, and F value) were employed. Our findings reveal that the Young modulus of the caprock is a key factor controlling equivalent total strain but is insufficient as a stand-alone indicator of caprock integrity. It is confirmed that the caprock can accommodate significant deformation without failure, if it possesses a low Young’s modulus and high mechanical strength properties, such as the friction angle and uniaxial compressive strength. Similarly, vertical displacement was found to be an unreliable indicator for caprock integrity, as caprock failure can occur across a broad spectrum of vertical displacements, particularly when both the Young modulus and mechanical strength properties have wide ranges. This study introduces the F value as the most dependable indicator for caprock failure, although it is a theoretical attribute (the shortest distance between the Mohr circle and the nearest failure envelope used to measure the sensitivity to failure) and not physically measurable in the field. Deviatoric stress levels were found to vary based on stress regimes, with the maximum levels observed under extensive and compressive stress regimes. In conjunction with the use of the response surface method, this study demonstrates the efficacy of the multilaminate framework and the Mohr–Coulomb constitutive model in providing a simplified, yet effective, probabilistic model of the mechanical behavior of caprock failure, reducing mathematical and computational complexities.

Energy & Fuels↗
DOE OSTI2022

Algebraic Theory of Patterns as Generalized Symmetries

We generalize the exact predictive regularity of symmetry groups to give an algebraic theory of patterns, building from a core principle of future equivalence. For topological patterns in fully-discrete one-dimensional systems, future equivalence uniquely specifies a minimal semiautomaton. We demonstrate how the latter and its semigroup algebra generalizes translation symmetry to partial and hidden symmetries. This generalization is not as straightforward as previously considered. Here, though, we clarify the underlying challenges. A stochastic form of future equivalence, known as predictive equivalence, captures distinct statistical patterns supported on topological patterns. Finally, we show how local versions of future equivalence can be used to capture patterns in spacetime. As common when moving to higher dimensions, there is not a unique local approach, and we detail two local representations that capture different aspects of spacetime patterns. A previously developed local spacetime variant of future equivalence captures patterns as generalized symmetries in higher dimensions, but we show that this representation is not a faithful generator of its spacetime patterns. This motivates us to introduce a local representation that is a faithful generator, but we demonstrate that it no longer captures generalized spacetime symmetries. Taken altogether, building on future equivalence, the theory defines and quantifies patterns present in a wide range of classical field theories.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

Limits on Mode Coherence in Pulsating DA White Dwarfs Due to a Nonstatic Convection Zone

The standard theory of pulsations deals with the frequencies and growth rates of infinitesimal perturbations in a stellar model. Modes which are calculated to be linearly driven should increase their amplitudes exponentially with time; the fact that nearly constant amplitudes are usually observed is evidence that nonlinear mechanisms inhibit the growth of finite amplitude pulsations. Models predict that the mass of convection zones in pulsating hydrogen-atmosphere (DAV) white dwarfs is very sensitive to temperature (i.e., M CZ α T –90 eff ), leading to the possibility that even low-amplitude pulsators may experience significant nonlinear effects. In particular, the outer turning point of finite-amplitude g-mode pulsations can vary with the local surface temperature, producing a reflected wave that is out of phase with what is required for a standing wave. This can lead to a lack of coherence of the mode and a reduction in its global amplitude. In this paper we show that: (1) whether a mode is calculated to propagate to the base of the convection zone is an accurate predictor of its width in the Fourier spectrum, (2) the phase shifts produced by reflection from the outer turning point are large enough to produce significant damping, and (3) amplitudes and periods are predicted to increase from the blue edge to the middle of the instability strip, and subsequently decrease as the red edge is approached. Furthermore, this amplitude decrease is in agreement with the observational data while the period decrease has not yet been systematically studied.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2026

Data from: Coupled machine learning-ecosystem ensemble models substantially improve predictions of nitrous oxide (N 2 O) fluxes from US croplands

Nitrous oxide (N₂O) is a potent and persistent greenhouse gas, with rising atmospheric concentrations driven in part by inefficient use of synthetic nitrogen (N) fertilizers in agriculture. Predicting soil N₂O emissions is challenging due to high spatial and temporal variability arising from complex soil biogeochemical processes. Process-based ecosystem models and standalone machine learning (ML) approaches without extensive site-specific calibration often miss high emission episodes. Here, we show how an Ensemble Modeling System (EMS) based on outputs from an ensemble of ecosystem models coupled to an ensemble of ML models can improve predictions and understanding of N2O fluxes from US cropland. Trained and validated on approximately 12,000 N2O chamber measurements at 17 U.S. Midwest sites (six crops, 35 management practices), the EMS accurately predicted daily fluxes of N2O at both training (R² = 0.84, RMSE = 16.4 g N ha⁻¹ d⁻¹) and held-out testing sites (R² = 0.84, RMSE = 6.2 g N ha⁻¹ d⁻¹). Analyses identified six dominant N₂O drivers: soil organic carbon (SOC), NH₄⁺, NO₃⁻, water-filled pore space (WFPS), soil temperature, and biomass production. Wet, warm soils produced large N₂O peaks only with sufficient SOC and mineral N; in low-SOC soils, fluxes remained low. Incorporating these drivers into process-based models might significantly improve their predictive capacity. The EMS demonstrates a strong potential to predict N₂O fluxes at unseen sites, enabling more reliable regional inventories, improved gap-filling where measurements are sparse, and enhanced understanding of mechanisms to advance targeted mitigation strategies in food, feed, and bioenergy crops.

agricultural sciences↗