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At least 1,441 records · Page 80

ForceGen: End-to-end de novo protein generation based on nonlinear mechanical unfolding responses using a language diffusion model

Through evolution, nature has presented a set of remarkable protein materials, including elastins, silks, keratins and collagens with superior mechanical performances that play crucial roles in mechanobiology. However, going beyond natural designs to discover proteins that meet specified mechanical properties remains challenging. Here, we report a generative model that predicts protein designs to meet complex nonlinear mechanical property-design objectives. Our model leverages deep knowledge on protein sequences from a pretrained protein language model and maps mechanical unfolding responses to create proteins. Via full-atom molecular simulations for direct validation, we demonstrate that the designed proteins are de novo, and fulfill the targeted mechanical properties, including unfolding energy and mechanical strength, as well as the detailed unfolding force-separation curves. Our model offers rapid pathways to explore the enormous mechanobiological protein sequence space unconstrained by biological synthesis, using mechanical features as the target to enable the discovery of protein materials with superior mechanical properties.

59 BASIC BIOLOGICAL SCIENCES↗

Demystifying the Diffuse Vibrational Spectrum of Aqueous Protons Through Cold Cluster Spectroscopy

The ease with which the pH is routinely determined for aqueous solutions masks the fact that the cationic product of Arrhenius acid dissolution, the hydrated proton, or H + (aq), is a remarkably complex species. Here, we review how results obtained over the past 30 years in the study of H + ·(H 2 O) n cluster ions isolated in the gas phase shed light on the chemical nature of H + (aq). This effort has also revealed molecular-level aspects of the Grotthuss relay mechanism for positive-charge translocation in water. Recently developed methods involving cryogenic cooling in radiofrequency ion traps and the application of two-color, infrared–infrared (IR–IR) double-resonance spectroscopy have established a clear picture of how local hydrogen-bond topology drives the diverse spectral signatures of the excess proton. This information now enables a new generation of cluster studies designed to unravel the microscopic mechanics underlying the ultrafast relaxation dynamics displayed by H + (aq).

Chemistry↗

Editors’ Choice—Review—Designing Defects and Diffusion through Substitutions in Metal Halide Solid Electrolytes

Ternary metal halides A 3 MX 6 , ( A = Li + , Na + ; M = trivalent metal; X = halide) are a promising family of solid electrolytes for potential applications in all-solid-state batteries. Recent research efforts have demonstrated that chemical substitution at all three sites is an effective strategy to controlling battery-relevant material properties. The A 3 MX 6 family exhibits a wide breadth of structure and anion sublattice types, making it worthwhile to comprehend how chemical substitutions manifest desirable functional properties including ion transport, electrochemical stability, and environmental tolerance. Yet, a cohesive understanding of the materials design principles for these substitutions have not yet been developed. Here, we bring together prior literature focused on chemical substitutions in the A 3 MX 6 ternary metal halide solid electrolytes. Using materials chemistry perspectives and principles, we aim to provide insights into the relationships between crystal structure, choice of substituting ions and the extent of substitutions, ionic conductivity, and electrochemical stability. We further present targeted approaches to future substitution studies to enable transformative advances in A 3 MX 6 solid electrolytes and all-solid-state batteries.

25 ENERGY STORAGE↗

Modified Data Collection And Analysis Codes Of Using Tcm (thermal Conductivity Microscope) To Measure Thermal Conductivity And Diffusivity

The "data collection" basically involves setting up the thermal wave frequency, laser scan distance, and other parameters related to the experimental setup. The modification of this code is minor and the details of this code can be found in the earlier patent ("thermal conductivity microscope"). The "data analysis" instead, replaces the simplified analytical model by a more complete analytical model, and used a "thermoquadruple" method to solve the analytical model. The efficiency is orders of magnitude improved and the accuracy is also better. Meanwhile, the previous model can only handle a two-layer sample structure. The new, complete model can handle materials with multiple layers (any given number), which is necessary to handle post ion irradiated materials.

Hua, Zilong [Idaho National Laboratory (INL), Idah↗

Analytic error analysis of cross section interpolation methods in nodal diffusion codes - I : Theory

This paper discusses two cross section interpolation methods commonly found in popular nodal codes; the partial derivatives and multiple tables models. The motivation for choosing a model, and thus a case matrix structure, is a trade off between accuracy and computational cost. Due to decades of experience, there are default structures that are sufficient for current light water reactor analysis. However, this is not necessarily the case for advanced reactor designs. Therefore, it is advantageous to understand the sources of error in cross section interpolation models so that the quality of a case matrix may be improved. A mathematical framework for these models is presented in this work that provides a more rigorous connection between the nuclear engineering field's cross section interpolation methods and the broader mathematical field of function approximation. The two cross section models examined in this paper were found to utilize Lagrange interpolation and are a subset of Lagrange tensor products. Classical results of Lagrange polynomial error analysis were then applied to the partial derivative and multiple tables models to derive expressions for the total point-wise error. The analytical results classify the total error into two parts: the model form error and interpolation error. Finally, based on our observations, a better foundation for improving the quality of a case matrix is proposed. (authors)

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Analytic error analysis of cross section interpolation methods in nodal diffusion codes - II: Numerical results

This paper is the second part of a two-part paper that documents the numerical results for the partial derivatives model presented in part I. In this paper, we derive the error bounds for the analytical point-wise error expression and verify our bounds with numerical experiments. The point-wise error expressions make available, and bound, the sources that contribute to the total error of the interpolated cross section in terms of the Lagrange interpolation errors and the model form error. MPACT is used to generate two-group homogenized cross sections for Westinghouse's AP1000 Region 4 lattice to evaluate the accuracy of the bounds. Error bounds calculated over a grid are compared to numerical data for uni-variate and multi-variate interpolation. The point-wise error bounds of a typical case matrix - two branches in each state variable - are displayed for bi-variate interpolation in the state variables: moderator density, fuel temperature, and boron concentration. The error bounds are shown to be highly accurate compared to numerical results, and in accordance with the underlying physics. We then discuss and show how the sources of error contribute to the total error, and consider the improvement of each error source. Finally, we mention future work such as propagating our cross section error bounds through a reactivity calculation. (authors)

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Influence of Diffuse and Ground-Reflected Irradiance on the Spectral Modeling of Solar Reference Cells

Thermal Energy Storage (TES) is a key component for solar thermal applications to bridge the gap between the demand for thermal energy and the supply of solar energy, whose availability depends on the time of day and season. Thus, cost-effective packed-bed thermal containers filled with a solid storage medium have been proposed for high-temperature sensible heat storage as materials are abundant and relatively cheap. Thus, it is necessary to investigate their performance and temperature profiles during the charge-discharge cycle. Several models are available for this purpose. Typically, the more detailed a model, the greater the computational effort required to solve it, and hence a time-efficient model is needed to prevent excessively long computation times for long-term analysis. At the more basic level, the common Hughes E-NTU model and the less realistic simplified Infinite-NTU model are very important for their less time and computational effort. In this paper, the appropriateness of employing the Infinite-NTU model was evaluated to investigate the performance of a typical and scalable rock-bed TES as a case study. The results presented provide a methodology to quickly test the validity of the model and predict the temperature profile for the case under study. Accordingly, such simple charge-discharge cycle thermal performance predictions are important to plan, design, and rapidly deploy a reliable and economical solar thermal system for the supply of valuable heat to high-temperature demanding applications of power generation and industrial processes as part of a rapid shift towards non-polluting renewable energy. Keywords: Solar Thermal, TES, Packed-bed, NTU model, Temperature profile

PV modeling↗

The Diffuse Light Envelope of Luminous Red Galaxies

We use a stacking method to study the radial light profiles of luminous red galaxies (LRGs) at redshift $\sim 0.62$ and $\sim 0.25$, out to a radial range of 200 kpc. We do not find noticeable evolution of the profiles at the two redshifts. The LRG profiles appear to be well approximated by a single Sersic profile, although some excess light can be seen outside 60 kpc. We quantify the excess light by measuring the integrated flux and find that the excess is about 10% -- a non-dominant but still nonnegligible component.

79 ASTRONOMY AND ASTROPHYSICS↗