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At least 613 records · Page 34

Systematic mapping of the conformational landscape and dynamism of soluble fibrinogen

Background: Fibrinogen is a soluble, multisubunit, and multidomain dimeric protein, which, upon its proteolytic cleavage by thrombin, is converted to insoluble fibrin, initiating polymerization that substantially contributes to clot growth. Fibrinogen contains numerous, transiently accessible “cryptic” epitopes for hemostatic and immunologic proteins, suggesting that fibrinogen exhibits conformational flexibility, which may play functional roles in its temporal and spatial interactions. Hitherto, there have been limited integrative approaches characterizing the solution structure and internal flexibility of fibrinogen. Methods: Here, utilizing a multipronged, biophysical approach involving 2 solution-based techniques, temperature-dependent hydrogen-deuterium exchange mass spectrometry and small angle X-ray scattering, corroborated by negative stain electron microscopy, we present a holistic, conformationally dynamic model of human fibrinogen in solution. Results: Our data reveal 4 major and distinct conformations of fibrinogen accommodated by a high degree of internal protein flexibility along its central scaffold. We propose that the fibrinogen structure in the solution consists of a complex, conformational landscape with multiple local minima. This is further supported by the location of numerous point mutations that are linked to dysfibrinogenemia and posttranslational modifications, residing near the identified fibrinogen flexions. Conclusion: Further, this work provides a molecular basis for the structural “dynamism” of fibrinogen that is expected to influence the broad swath of its functionally diverse macromolecular interactions and fine-tune the structural and mechanical properties of blood clots.

59 BASIC BIOLOGICAL SCIENCES↗

Systematically Improving Espresso: Insights from Mathematical Modeling and Experiment

Espresso is a beverage brewed using hot, high-pressure water forced through a bed of roasted coffee. Despite being one of the most widely consumed coffee formats, it is also the most susceptible to variation. Here, we report a novel model, complimented by experiment, that is able to isolate the contributions of several brewing variables, thereby disentangling some of the sources of variation in espresso extraction. Under the key assumption of homogeneous flow through the coffee bed, a monotonic decrease in extraction yield with increasingly coarse grind settings is predicted. However, experimental measurements show a peak in the extraction yield versus grind setting relationship, with lower extraction yields at both very coarse and fine settings. This result strongly suggests that inhomogeneous flow is operative at fine grind settings, resulting in poor reproducibility and wasted raw material. With instruction from our model, we outline a procedure to eliminate these shortcomings.

97 MATHEMATICS AND COMPUTING↗

Erratum to “Systematic Trends of $0^+_2$, $1^-_1$, $3^-_1$ and $2^+_1$ Excited States in Even-Even Nuclei” [Nucl. Phys. A 1027 (2022) 122511]

In our publication [Nucl. Phys. A 1027 (2022) 122511, https://doi.org/10.1016/j.nuclphysa.2022.122511] we have detected typographical errors in Table 4 [List of $2^+_1$ States in Even-Even Nuclei]. The misprints of decimals with one or more trailing zeros are not central to our findings, however, they may confuse the journal readers and require corrections. In addition, we have included recent results for the $0^+_2$ and $2^+_1$ first excited states that are not available in the ENSDF library as of April, 2021 or B(E2) tables.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Systematic Generation of Moment Invariant Bases for 2D and 3D Tensor Fields

Moment invariants have been successfully applied to pattern detection tasks in 2D and 3D scalar, vector, and matrix valued data. However so far no flexible basis of invariants exists, i.e., no set that is optimal in the sense that it is complete and independent for every input pattern. Here, we prove that a basis of moment invariants can be generated that consists of tensor contractions of not more than two different moment tensors each under the conjecture of the set of all possible tensor contractions to be complete. This result allows us to derive the first generator algorithm that produces flexible bases of moment invariants with respect to orthogonal transformations by selecting a single non-zero moment to pair with all others in these two-factor products. Since at least one non-zero moment can be found in every non-zero pattern, this approach always generates a complete set of descriptors.

97 MATHEMATICS AND COMPUTING↗

Systematic many-fermion Hamiltonian input scheme and spectral calculations on quantum computers

We present a novel input scheme for general second-quantized Hamiltonians of relativistic or non-relativistic many-fermion systems. This input scheme incorporates the fermionic anticommutation relations, particle number variations, and respects the symmetries of the Hamiltonian. Based on our input scheme, we propose a hybrid quantum-classical framework for spectral calculations on future quantum hardwares. We provide explicit circuit designs and the associated gate cost. We demonstrate our hybrid framework by solving the low-lying spectra of 42 Ca and 46 Ca. Our input scheme provides new pathways to solving the spectra and dynamics of the relativistic and nonrelativistic many-fermion systems via first-principles approaches.

Hybrid spectral calculation framework↗

Vulnerability and resilience of urban energy ecosystems to extreme climate events: A systematic review and perspectives

We reviewed the present studies on the vulnerability and resilience of the energy ecosystem (most parts of the energy ecosystem), considering extreme climate events. This study revealed that the increased interactions formed during the transformation of the energy landscape into an ecosystem could notably increase the vulnerability of the energy infrastructure. Such complex ecosystem cannot be assessed using the present state of the art models used by the energy system modelers. Therefore, this study introduces a novel analogy known as the COVID analogy to understand the propagation of disruption within and beyond the energy ecosystem and organized the present state of the art based on the COVID analogy. The analogy helps to categorize the vulnerability of the energy infrastructure into three stages. The study revealed that although there are many publications covering the vulnerability and resilience of the energy infrastructure, considering extreme climate events, the majority are focused on the direct impact of extreme climate on the energy ecosystem. In addition, most of the studies do not consider the impact of future climate variations during this assessment. The propagation of disruptions was assessed mainly for wildfires and hurricanes. Further, there is a clear research gap in considering vulnerability assessment for interconnected energy infrastructure. Here, the transformation of energy systems into a complex ecosystem notably increases the complexity, making it difficult to assess vulnerability and resilience. A shift from a centralized to decentralized modeling architecture could be beneficial when considering the complexities brought by that transformation. Hybrid models consisting of both physical and data-driven machine learning techniques could also be beneficial in this context.

54 ENVIRONMENTAL SCIENCES↗

Machine learning for ultrasonic nondestructive examination of welding defects: A systematic review

Recent years have seen a substantial increase in the application of machine learning (ML) for automated analysis of nondestructive examination (NDE) data. One of the applications of interest is the use of ML for the analysis of data from in-service inspection of welds in nuclear power and other industries. These types of inspections are performed in accordance with criteria described in the ASME Boiler and Pressure Vessel Code and require the use of reliable NDE techniques. The rapid growth in ML methods and the diversity of possible approaches indicate a need to assess the current capabilities of ML and automated data analysis for NDE and identify any gaps or shortcomings in current ML technologies as applied to the automated analysis of NDE data. In particular, there is a need to determine the impact of ML on the NDE reliability. This paper discusses the findings from a literature survey on the current state of ML for the automated analysis of data from ultrasonic NDE of weld flaws. It discusses an overview of ultrasonic NDE as used for weld inspections in nuclear power and other industries. Herein, data sets and ML models used in the literature are summarized, along with a generally applicable workflow for ML. Findings on the capabilities, limitations and potential gaps in feature selection, data selection, and ML model optimization are discussed. The paper identified several needs for quantifying and validating the performance of ML methods for ultrasonic NDE, including the need for common data sets.

36 MATERIALS SCIENCE↗