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Creators/Authors contains: "Bates, David"

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  1. Free, publicly-accessible full text available April 1, 2026
  2. Traumatic brain injury (TBI) is a serious health issue. Studies have highlighted the severity of rotation-induced TBI. However, the role of cerebrospinal fluid (CSF) in transmitting the impact from the skull to the soft brain matter remains unclear. Herein, we use experiments and computations to define and probe this role in a simplified setup. A spherical hydrogel ball, serving as a soft brain model, was subjected to controlled rotation within a water bath, emulating the CSF, and filling a transparent cylinder. The cylinder and ball velocities, as well as the ball’s deformation over time, were measured. We found that the soft hydrogel ball is very sensitive to decelerating rotational impacts, experiencing significant deformation during the process. A finite-element code is written to simulate the process. The hydrogel ball is modeled as a poroelastic material infused with fluid and its coupling with the suspending fluid is handled by an arbitrary Lagrangian-Eulerian method. The results indicate that the density contrast, as well as the rotational velocity difference, between the hydrogel ball and the suspending fluid, play a central role in the ball’s deformation due to centrifugal forces. This approach contributes to a deeper understanding of brain injuries and may portend the development of preventive measures and improved treatment strategies. 
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    Free, publicly-accessible full text available March 28, 2026
  3. Free, publicly-accessible full text available March 1, 2026
  4. Reyes Lamothe, Rodrigo (Ed.)
    Helicase regulation involves modulation of unwinding speed to maintain coordination of DNA replication fork activities and is vital for replisome progression. Currently, mechanisms for helicase regulation that involve interactions with both DNA strands through a steric exclusion and wrapping (SEW) model and conformational shifts between dilated and constricted states have been examined in vitro . To better understand the mechanism and cellular impact of helicase regulation, we used CRISPR-Cas9 genome editing to study four previously identified SEW-deficient mutants of the bacterial replicative helicase DnaB. We discovered that these four SEW mutations stabilize constricted states, with more fully constricted mutants having a generally greater impact on genomic stress, suggesting a dynamic model for helicase regulation that involves both excluded strand interactions and conformational states. These dnaB mutations result in increased chromosome complexities, less stable genomes, and ultimately less viable and fit strains. Specifically, dnaB : mut strains present with increased mutational frequencies without significantly inducing SOS, consistent with leaving single-strand gaps in the genome during replication that are subsequently filled with lower fidelity. This work explores the genomic impacts of helicase dysregulation in vivo , supporting a combined dynamic regulatory mechanism involving a spectrum of DnaB conformational changes and relates current mechanistic understanding to functional helicase behavior at the replication fork. 
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  5. Artificial intelligence (AI) has been successful at solving numerous problems in machine perception. In radiology, AI systems are rapidly evolving and show progress in guiding treatment decisions, diagnosing, localizing disease on medical images, and improving radiologists' efficiency. A critical component to deploying AI in radiology is to gain confidence in a developed system's efficacy and safety. The current gold standard approach is to conduct an analytical validation of performance on a generalization dataset from one or more institutions, followed by a clinical validation study of the system's efficacy during deployment. Clinical validation studies are time-consuming, and best practices dictate limited re-use of analytical validation data, so it is ideal to know ahead of time if a system is likely to fail analytical or clinical validation. In this paper, we describe a series of sanity tests to identify when a system performs well on development data for the wrong reasons. We illustrate the sanity tests' value by designing a deep learning system to classify pancreatic cancer seen in computed tomography scans. 
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  6. Abstract Cultural‐ecological theories posit that ethnic‐racial identity (ERI) development is shaped by transactions between contexts of ethnic‐racial socialization, yet research considering intersections among multiple contexts is limited. In this study, Black, Latino, White, and Asian American adolescents (N = 98;Mage = 16.26,SD = 1.09; 55.1% female identifying) participated in surveys and focus group discussions (2013–2014) to share insights into ERI development in context. Using consensual qualitative research, results indicated: (a) family ethnic‐racial socialization intersects with community‐based, peer, media, and school socialization; (b) ethnic‐racial socialization occurs outside family through intersections between peer, school, community‐based, and media settings; and (c) ethnic‐racial socialization is embedded within systems of racial oppression across contexts. Discussion includes implications for future research and interventions supporting youth ERI. 
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