244 results on '"Ben, Davis"'
Search Results
2. Case report: Lumpy skin disease in an endangered wild banteng (Bos javanicus) and initiation of a vaccination campaign in domestic livestock in Cambodia
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Alice Porco, Sokha Chea, Sreyem Sours, Vonika Nou, Milou Groenenberg, Cain Agger, Sothyra Tum, Vanna Chhuon, San Sorn, Chamnan Hong, Ben Davis, Sharyn Davis, Sereyrotha Ken, Sarah H. Olson, and Amanda E. Fine
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case report ,lumpy skin disease ,wildlife-livestock interface ,vaccination ,banteng ,wildlife ,Veterinary medicine ,SF600-1100 - Abstract
We describe a case of lumpy skin disease in an endangered banteng in Cambodia and the subsequent initiation of a vaccination campaign in domestic cattle to protect wild bovids from disease transmission at the wildlife-livestock interface. Lumpy skin disease virus (LSDV) was first detected in domestic cattle in Cambodia in June of 2021 and rapidly spread throughout the country. In September 2021, a banteng was seen in Phnom Tnout Phnom Pok wildlife sanctuary with signs of lumpy skin disease. Scab samples were collected and tested positive for LSDV. Monitoring using line transect surveys and camera traps in protected areas with critical banteng and gaur populations was initiated from December 2021-October 2022. A collaborative multisector vaccination campaign to vaccinate domestic livestock in and around priority protected areas with banteng and gaur was launched July 2022 and a total of 20,089 domestic cattle and water buffalo were vaccinated with LumpyvaxTM. No signs of LSDV in banteng or gaur in Cambodia have been observed since this initial case. This report documents the first case of lumpy skin disease in wildlife in Cambodia and proposes a potential intervention to mitigate the challenge of pathogen transmission at the domestic-wildlife interface. While vaccination can support local livestock-based economies and promote biodiversity conservation, it is only a component of an integrated solution and One Health approach to protect endangered species from threats at the wildlife-livestock interface.
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- 2023
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3. Aboriginal young people’s perspectives and experiences of accessing sexual health services and sex education in Australia: A qualitative study
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Simon Graham, Kacey Martin, Kristy Gardner, Mitchell Beadman, Michael F. Doyle, Reuben Bolt, Dean Murphy, Christy E. Newman, Stephen Bell, Carla Treloar, Annette J. Browne, Peter Aggleton, Karen Beetson, Megan Brooks, Jessica R. Botfield, Ben Davis, Jessica Wilms, Bronwyn Leece, Linda Stanbury, and Joanne Bryant
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indigenous ,first nations ,youth ,school ,aboriginal medical service ,Public aspects of medicine ,RA1-1270 - Abstract
Aboriginal and Torres Strait Islander (Aboriginal) young people seek information and access health services for their sexual health needs. This study examined Aboriginal young people’s perspectives on sexual health services and sex education in Australia. Overall, 51 Aboriginal people aged 16–26 years were interviewed by peer researchers in Sydney, Australia in 2019–2020. The findings suggest that the internet was used to assess information quickly and confidentially, but Aboriginal young people questioned its reliability and accuracy. Family, Elders and peers were seen as sources of advice because they had real-life experience and highlighted intergenerational learning that occurs in Aboriginal communities. School-based sex education programmes had mixed reviews, with a preference for programmes delivered by external specialists providing anonymity, clear and accurate information about sex and relationships and positive approaches to sex education, including how to gain consent before sex. There was a need identified for school-based programmes to better consider the needs of Aboriginal young people, including those who identified as LGBTQI + . Aboriginal Medical Services were highly valued for providing culturally safe access to services, while sexual health clinics were valued for providing specialised confidential clinical services with low levels of judgement.
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- 2023
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4. A model for estimating costs and benefits of new vaccine technologies from the perspective of both buyers and sellers.
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Michael Krautmann, Ben Davis, and Pascale R Leroueil
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Medicine ,Science - Abstract
Although vaccination is widely considered one of the most cost-effective health interventions available, global coverage rates for many vaccines remain lower than necessary for disease elimination and eradication. New vaccine technologies can play an important role in addressing barriers to vaccination and increasing coverage rates. To identify and prioritize vaccine technology investments, decision makers must be able to compare the overall costs and benefits of each investment option. While these data points may exist, they are often confined to silos. Decision makers would benefit from a model that synthesizes this broad range of data and provides clear and actionable information. To facilitate vaccine investment, purchasing and deployment decisions, we developed a systematic and transparent cost-benefit model that estimates the value and risk of a given investment scenario from the perspective of both "buyers" (e.g., global donors, country governments) and "sellers" (e.g., developers, manufacturers) of vaccines. This model, which can be used to evaluate scenarios related to a single vaccine presentation or a portfolio of vaccine presentations, leverages our published approach for estimating the impact of improved vaccine technologies on vaccination coverage rates. This article presents a description of the model and provides an illustrative example application to a portfolio of measles-rubella vaccine technologies currently under development. Although the model is generally applicable to organizations involved in vaccine investment, manufacturing or purchasing, we believe it may be particularly useful to those engaged in vaccine markets that rely strongly on funding from institutional donors.
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- 2023
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5. Art in the After-Culture
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Ben Davis
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- 2022
6. A method for estimating the impact of new vaccine technologies on vaccination coverage rates.
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Ben Davis, Michael Krautmann, and Pascale R Leroueil
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Medicine ,Science - Abstract
Vaccines are one of the most cost-effective tools for improving human health and well-being. The impact of a vaccine on population health is partly determined by its coverage rate, the proportion of eligible individuals vaccinated. Coverage rate is a function of the vaccine presentation and the population in which that presentation is deployed. This population includes not only the individuals vaccinated, but also the logistics and healthcare systems responsible for vaccine delivery. Because vaccine coverage rates remain below targets in many settings, vaccine manufacturers and purchasers have a shared interest in better understanding the relationship between vaccine presentation, population characteristics, and coverage rate. While there have been some efforts to describe this relationship, existing research and tools are limited in their ability to quantify coverage rate changes across a broad set of antigens, vaccine presentations, and geographies. In this article, we present a method for estimating the impact of improved vaccine technologies on vaccination coverage rates. It is designed for use with low- and middle-income country vaccination programs. This method uses publicly available data and simple calculations based on probability theory to generate coverage rate values. We first present the conceptual framework and mathematical approach. Using a Microsoft Excel-based implementation, we then apply the method to a vaccine technology in early-stage development: micro-array patch for a measles-rubella vaccine (MR-MAP). Example outputs indicate that a complete switch from the current subcutaneous presentation to MR-MAP in the 73 countries ever eligible for Gavi support would increase overall vaccination coverage by 3.0-4.9 percentage points depending on the final characteristics of the MR-MAP. This change equates to an additional 2.6-4.2 million children vaccinated per year. Our method can be readily extended to other antigens and vaccine technologies to provide quick, low-cost estimates of coverage impact. As vaccine manufacturers and purchasers face increasingly complex decisions, such estimates could facilitate objective comparisons between options and help these decision makers obtain the most value for money.
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- 2022
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7. Establishing Drug Discovery and Identification of Hit Series for the Anti-apoptotic Proteins, Bcl‑2 and Mcl‑1
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James B. Murray, James Davidson, Ijen Chen, Ben Davis, Pawel Dokurno, Christopher J. Graham, Richard Harris, Allan Jordan, Natalia Matassova, Christopher Pedder, Stuart Ray, Stephen D. Roughley, Julia Smith, Claire Walmsley, Yikang Wang, Neil Whitehead, Douglas S. Williamson, Patrick Casara, Thierry Le Diguarher, John Hickman, Jerome Stark, András Kotschy, Olivier Geneste, and Roderick E. Hubbard
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Chemistry ,QD1-999 - Published
- 2019
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8. Hemorrhage-Control Training in Medical Education
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Jared T Gowen, Kevin W Sexton, Carol Thrush, Anna Privratsky, William C Beck, John R Taylor, Ben Davis, Mary K Kimbrough, Hanna K Jensen, Ronald D Robertson, and Avi Bhavaraju
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Special aspects of education ,LC8-6691 ,Medicine (General) ,R5-920 - Abstract
Objectives: To evaluate and analyze the efficacy of implementation of hemorrhage-control training into the formal medical school curriculum. We predict this training will increase the comfort and confidence levels of students with controlling major hemorrhage and they will find this a valuable skill set for medical and other healthcare professional students. Methods: After IRB and institutional approval was obtained, hemorrhage-control education was incorporated into the surgery clerkship curriculum for 96 third-year medical students at the University of Arkansas for Medical Sciences using the national Stop The Bleed program. Using a prospective study design, participants completed pre- and post-training surveys to gauge prior experiences and comfort levels with controlling hemorrhage and confidence levels with the techniques taught. Course participation was mandatory; survey completion was optional. The investigators were blinded as to the individual student’s survey responses. A knowledge quiz was completed following the training. Results: Implementation of STB training resulted in a significant increase in comfort and confidence among students with all hemorrhage-control techniques. There was also a significant difference in students’ perceptions of the importance of this training for physicians and other allied health professionals. Conclusion: Hemorrhage-control training can be effectively incorporated into the formal medical school curriculum via a single 2-hour Stop The Bleed course, increasing students’ comfort level and confidence with controlling major traumatic bleeding. Students value this training and feel it is a beneficial addition to their education. We believe this should be a standard part of undergraduate medical education.
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- 2020
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9. A combinatorial framework to quantify peak/pit asymmetries in complex dynamics
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Uri Hasson, Jacopo Iacovacci, Ben Davis, Ryan Flanagan, Enzo Tagliazucchi, Helmut Laufs, and Lucas Lacasa
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Medicine ,Science - Abstract
Abstract We explore a combinatorial framework which efficiently quantifies the asymmetries between minima and maxima in local fluctuations of time series. We first showcase its performance by applying it to a battery of synthetic cases. We find rigorous results on some canonical dynamical models (stochastic processes with and without correlations, chaotic processes) complemented by extensive numerical simulations for a range of processes which indicate that the methodology correctly distinguishes different complex dynamics and outperforms state of the art metrics in several cases. Subsequently, we apply this methodology to real-world problems emerging across several disciplines including cases in neurobiology, finance and climate science. We conclude that differences between the statistics of local maxima and local minima in time series are highly informative of the complex underlying dynamics and a graph-theoretic extraction procedure allows to use these features for statistical learning purposes.
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- 2018
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10. Cross-modal searchlight classification: methodological challenges and recommended solutions.
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Samuel A. Nastase, Yaroslav O. Halchenko, Ben Davis, and Uri Hasson
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- 2016
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11. From Being There To Feeling Real: The Effect Of Real World Expertise On Presence In Virtual Environments.
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Max J. Parola, Ruth West, Richard Herrington, Claire Adams, Molly Beyer, Ben Davis, Kathryn Hays, Luke Hillard, Meghan Kajihara, Zain Khoja, Brandon Lane, Nicholas Ligon, Danielle Poyser, Ganesh Thyagarajan, and Jonathan Starkweather
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- 2018
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12. Cronobacter spp.—Opportunistic Foodborne Pathogens: an Update on Evolution, Osmotic Adaptation and Pathogenesis
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Lehner, Angelika, Tall, Ben Davis, Fanning, Seamus, and Srikumar, Shabarinath
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- 2018
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13. Treatment-seeking patterns for malaria in pharmacies in five sub-Saharan African countries
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Joël Ladner, Ben Davis, Etienne Audureau, and Joseph Saba
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Malaria ,Treatment ,ACT drugs ,Private sector ,Arctic medicine. Tropical medicine ,RC955-962 ,Infectious and parasitic diseases ,RC109-216 - Abstract
Abstract Background Artemisinin-based combination therapy (ACT) is recommended as the first-line anti-malarial treatment strategy in sub-Saharan African countries. WHO policy recommends parasitological confirmation by microscopy or rapid diagnostic test (RDT) in all cases of suspected malaria prior to treatment. Gaps remain in understanding the factors that influence patient treatment-seeking behaviour and anti-malarial drug purchase decisions in the private sector. The objective of this study was to identify patient treatment-seeking behaviour in Ghana, Kenya, Nigeria, Tanzania, and Uganda. Methods Face-to-face patient interviews were conducted at a total of 208 randomly selected retail outlets in five countries. At each outlet, exit interviews were conducted with five patients who indicated they had come seeking anti-malarial treatment. The questionnaire was anonymous and standardized in the five countries and collected data on different factors, including socio-demographic characteristics, history of illness, diagnostic practices (i.e. microscopy or RDT), prescription practices and treatment purchase. The price paid for the treatment was also collected from the outlet vendor. Results A total of 994 patients were included from the five countries. Location of malaria diagnosis was significantly different in the five countries. A total of 484 blood diagnostic tests were performed, (72.3% with microscopy and 27.7% with RDT). ACTs were purchased by 72.5% of patients who had undergone blood testing and 86.5% of patients without a blood test, regardless of whether the test result was positive or negative (p
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- 2017
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14. Visual cortex signals a mismatch between regularity of auditory and visual streams
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Michael Andric, Ben Davis, and Uri Hasson
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Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Understanding how humans code for and respond to environmental uncertainty/regularity is a question shared by current computational and neurobiological approaches to human cognition. To date, studies investigating neurobiological systems that track input uncertainty have examined responses to uni-sensory streams. It is not known, however, whether there exist brain systems that combine information about the regularity of input streams presented to different senses. We report an fMRI study that aimed to identify brain systems that relate statistical information across sensory modalities. We constructed temporally extended auditory and visual streams, each of which could be random or highly regular, and presented them concurrently. We found strong signatures of “regularity matching” in visual cortex bilaterally; responses were higher when the level of regularity in the auditory and visual streams mismatched than when it matched, [(AudHigh/VisLow and AudLow/VisHigh) >(AudLow/VisLow and AudHigh/VisHigh)]. In addition, several frontal and parietal regions tracked regularity of the auditory or visual stream independently of the other stream's regularity. An individual-differences analysis suggested that signatures of single-modality-focused regularity tracking in these fronto-parietal regions are inversely related to signatures of regularity-matching in visual cortex. Our findings suggest that i) visual cortex is a junction for integration of temporally-extended auditory and visual inputs and that ii) multisensory regularity-matching depends on balanced processing of both input modalities. We discuss the implications of these findings for neurobiological models of uncertainty and for understanding computations that underlie multisensory interactions in occipital cortex.
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- 2017
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15. Colourful TFNP and Propositional Proofs
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Ben Davis and Robert Robere, Davis, Ben, Robere, Robert, Ben Davis and Robert Robere, Davis, Ben, and Robere, Robert
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Recent work has shown that many of the standard TFNP classes - such as PLS, PPADS, PPAD, SOPL, and EOPL - have corresponding proof systems in propositional proof complexity, in the sense that a total search problem is in the class if and only if the totality of the problem can be efficiently proved by the corresponding proof system. We build on this line of work by studying coloured variants of these TFNP classes: C-PLS, C-PPADS, C-PPAD, C-SOPL, and C-EOPL. While C-PLS has been studied in the literature before, the coloured variants of the other classes are introduced here for the first time. We give a family of results showing that these coloured TFNP classes are natural objects of study, and that the correspondence between TFNP and natural propositional proof systems is not an exceptional phenomenon isolated to weak TFNP classes. Namely, we show that: - Each of the classes C-PLS, C-PPADS, and C-SOPL have corresponding proof systems characterizing them. Specifically, the proof systems for these classes are obtained by adding depth to the formulas in the corresponding proof system for the uncoloured class. For instance, while it was previously known that PLS is characterized by bounded-width Resolution (i.e. depth 0.5 Frege), we prove that C-PLS is characterized by depth-1.5 Frege (Res(polylog(n)). - The classes C-PPAD and C-EOPL coincide exactly with the uncoloured classes PPADS and SOPL, respectively. Thus, both of these classes also have corresponding proof systems: unary Sherali-Adams and Reversible Resolution, respectively. - Finally, we prove a coloured intersection theorem for the coloured sink classes, showing C-PLS ∩ C-PPADS = C-SOPL, generalizing the intersection theorem PLS ∩ PPADS = SOPL. However, while it is known in the uncoloured world that PLS ∩ PPAD = EOPL = CLS, we prove that this equality fails in the coloured world in the black-box setting. More precisely, we show that there is an oracle O such that C-PLS^O ∩ C-PPAD^O ⊋ C-EOPL^O. To prove our res
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- 2023
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16. Special Section Editor’s Introduction for 2022 Special Issue on Direct Indexing
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Ben Davis
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Strategy and Management ,Business and International Management ,Finance - Published
- 2022
17. Beware the Bounce: Tax-Loss Harvesting during a Stock Market Crash
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Ben Davis, Tianchuan Li, and Vassilii Nemtchinov
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Strategy and Management ,Business and International Management ,Finance - Published
- 2022
18. Effects of AC frequency on the capacitance measurement of hybrid response pressure sensors
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Zhengjie Li, Kyoung-Ho Ha, Zheliang Wang, Sangjun Kim, Ben Davis, Ruojun Lu, Jayant Sirohi, and Nanshu Lu
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General Chemistry ,Condensed Matter Physics - Abstract
E-skins consisting of soft pressure sensors are enabling technology for soft robots, bio-integrated devices, and deformable touch panels. A well-known bottleneck of capacitive pressure sensors (CPS) is the drastic decay in sensitivity with increasing pressure. To overcome this challenge, we have invented a hybrid-response pressure sensor (HRPS) that exhibits both the piezoresistive and piezocapacitive effects intrinsic to a highly porous nanocomposite (PNC) with carbon nanotube (CNT) dopants. The HRPS is constructed with two conductive electrodes sandwiching a laminated PNC and a stiff dielectric layer. We have simplified the hybrid response into a parallel resistor-capacitor circuit, whose output depends on the AC (alternating current) frequency used for the capacitance measurement. Herein, through theoretical analysis, we discover a dimensionless parameter that governs the frequency responses of the HRPS. The master curve is validated through experiments on the HRPS with various doping ratios, subject to different compressive strains, under diverse AC frequencies. In addition, the relative contribution of piezoresistive and piezocapacitive mechanisms are also found to vary with the three parameters. Based on this experimentally validated theory, we establish a very practical guideline for selecting the optimal AC frequency for the capacitance measurement of HRPSs.
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- 2022
19. A re-examination of the mechanism of whiting events: a new role for diatoms in Fayetteville Green Lake (New York, USA)
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Chloe Stanton, Ben Davis Barnes, Lee R. Kump, and Julie Cosmidis
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General Earth and Planetary Sciences ,Ecology, Evolution, Behavior and Systematics ,General Environmental Science - Abstract
Whiting events-the episodic precipitation of fine-grained suspended calcium carbonates in the water column-have been documented across a variety of marine and lacustrine environments. Whitings likely are a major source of carbonate muds, a constituent of limestones, and important archives for geochemical proxies of Earth history. While several biological and physical mechanisms have been proposed to explain the onset of these precipitation events, no consensus has been reached thus far. Fayetteville Green Lake (New York, USA) is a meromictic lake that experiences annual whitings. Materials suspended in the water column collected through the whiting season were characterized using scanning electron microscopy and scanning transmission X-ray microscopy. Whitings in Fayetteville Green Lake are initiated in the spring within the top few meters of the water column, by precipitation of fine amorphous calcium carbonate (ACC) phases nucleating on microbial cells, as well as on abundant extracellular polymeric substances (EPS) frequently associated with centric diatoms. Whiting particles found in the summer consist of 5-7 μm calcite grains forming aggregates with diatoms and EPS. Simple calculations demonstrate that calcite particles continuously grow over several days, then sink quickly through the water column. In the late summer, partial calcium carbonate dissolution is observed deeper in the water column. Settling whiting particles, however, reach the bottom of the lake, where they form a major constituent of the sediment, along with diatom frustules. The role of diatoms and associated EPS acting as nucleation surfaces for calcium carbonates is described for the first time here as a potential mechanism participating in whitings at Fayetteville Green Lake. This mechanism may have been largely overlooked in other whiting events in modern and ancient environments.
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- 2023
20. Exploring IDP–Ligand Interactions: Tau K18 as a Test Case
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Darius Vagrys, James Davidson, Ijen Chen, Roderick E. Hubbard, and Ben Davis
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intrinsically disordered protein ,tau K18 ,nuclear magnetic resonance ,surface plasmon resonance ,microscale thermophoresis ,Biology (General) ,QH301-705.5 ,Chemistry ,QD1-999 - Abstract
Over the past decade intrinsically disordered proteins (IDPs) have emerged as a biologically important class of proteins, many of which are of therapeutic relevance. Here, we investigated the interactions between a model IDP system, tau K18, and nine literature compounds that have been reported as having an effect on tau in order to identify a robust IDP–ligand system for the optimization of a range of biophysical methods. We used NMR, surface plasmon resonance (SPR) and microscale thermophoresis (MST) methods to investigate the binding of these compounds to tau K18; only one showed unambiguous interaction with tau K18. Several near neighbors of this compound were synthesized and their interactions with tau K18 characterized using additional NMR methods, including 1D ligand-observed NMR, diffusion-ordered spectroscopy (DOSY) and 19F NMR. This study demonstrates that it is possible to detect and characterize IDP–ligand interactions using biophysical methods. However, care must be taken to account for possible artefacts, particularly the impact of compound solubility and where the protein has to be immobilized.
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- 2020
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21. EBEM's Enhanced Capabilities Facilitate the Navy's Emerging Operational Requirements and Enable Bandwidth Efficient Communications over IP.
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Brian Zaharris, Ben Davis, Kurt Fiscko, Eric Otte, and Britney Chan
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- 2013
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22. Distraction suppression for vision-based pose estimation at city scales.
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Colin McManus, Winston Churchill, Ashley Napier, Ben Davis, and Paul Newman 0001
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- 2013
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23. Achieving DoD IP Modem interoperability utilizing the Joint IP Modem (JIPM).
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Christopher Catlin, Dana DeFrancesco, Bharat Parikh, Andrew Lincoln, Ben Davis, Andrew Melchior, and Ling-Bing Kung
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- 2011
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24. A re‐examination of the mechanism of whiting events: A new role for diatoms in Fayetteville Green Lake (New York, USA )
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Stanton, Chloe, primary, Barnes, Ben Davis, additional, Kump, Lee R., additional, and Cosmidis, Julie, additional
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- 2022
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25. Societal impact of dengue outbreaks: Stakeholder perceptions and related implications. A qualitative study in Brazil, 2015.
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Joël Ladner, Mariana Rodrigues, Ben Davis, Marie-Hélène Besson, Etienne Audureau, and Joseph Saba
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Arctic medicine. Tropical medicine ,RC955-962 ,Public aspects of medicine ,RA1-1270 - Abstract
BACKGROUND:The growing burden of dengue in many countries worldwide and the difficulty of preventing outbreaks have increased the urgency to identify alternative public health management strategies and effective approaches to control and prevent dengue outbreaks. The objectives of this study were to understand the impact of dengue outbreak on different stakeholders in Brazil, to explore their perceptions of approaches used by governmental authorities to control and prevent dengue outbreaks and to define the challenges and implications of preventing future outbreaks. METHODS:In 2015, a qualitative study was conducted in two urban states in Brazil: São Paulo, which was experiencing an outbreak in 2015, and Rio de Janeiro, which experienced outbreaks in 2011 and 2012. Face-to-face interviews using a semi-structured questionnaire were conducted with nine different categories of stakeholders: health workers (physicians, nurses), hospital administrators, municipal government representatives, community members and leaders, school administrators, business leaders and vector control managers. Interviews were focused on the following areas: impact of the dengue outbreak, perceptions of control measures implemented by governmental authorities during outbreaks and challenges in preventing future dengue outbreaks. RESULTS:A total of 40 stakeholders were included in the study. Health workers and community members reported longer waiting times at hospitals due to the increased number of patients receiving care for dengue-related symptoms. Health workers and hospital administrators reported that there were no major interruptions in access to care. Overall financial impact of dengue outbreaks on households was greatest for low-income families. Despite prevention and control campaigns implemented between outbreak periods, various stakeholders reported that dengue prevention and control efforts performed by municipal authorities remained insufficient, suggesting that efforts should be reinforced and better coordinated by governmental authorities, particularly during outbreak periods. CONCLUSION:The study shows that a dengue outbreak has a multisectorial impact in the medical, societal, economic and political sectors. The study provides useful insights and knowledge in different stakeholder populations that could guide local authorities and government officials in planning, designing and initiating public health programs. Research focused on a better understanding of how communities and political authorities respond to dengue outbreaks is a necessary component for designing and implementing plans to decrease the incidence and impact of dengue outbreaks in Brazil.
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- 2017
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26. Sulfur cycling at natural hydrocarbon and sulfur seeps in Santa Paula Creek, CA
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Heidi S, Aronson, Danielle R, Monteverde, Ben Davis, Barnes, Brooke R, Johnson, Mike J, Zawaski, Daan R, Speth, Xingchen Tony, Wang, Fenfang, Wu, Samuel M, Webb, Elizabeth J, Trower, John S, Magyar, Alex L, Sessions, Victoria J, Orphan, and Woodward W, Fischer
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Microbiota ,RNA, Ribosomal, 16S ,General Earth and Planetary Sciences ,Sulfides ,Ecology, Evolution, Behavior and Systematics ,California ,Hydrocarbons ,Phylogeny ,Sulfur ,General Environmental Science - Abstract
Biogeochemical cycling of sulfur is relatively understudied in terrestrial environments compared to marine environments. However, the comparative ease of access, observation, and sampling of terrestrial settings can expand our understanding of organisms and processes important in the modern sulfur cycle. Furthermore, these sites may allow for the discovery of useful process analogs for ancient sulfur-metabolizing microbial communities at times in Earth's past when atmospheric O2 concentrations were lower and sulfide was more prevalent in Earth surface environments. We identified a new site at Santa Paula Creek (SPC) in Ventura County, CA—a remarkable freshwater, gravel-bedded mountain stream charged with a range of oxidized and reduced sulfur species and heavy hydrocarbons from the emergence of subsurface fluids within the underlying sulfur- and organic-rich Miocene-age Monterey Formation. SPC hosts a suite of morphologically distinct microbial biofacies that form in association with the naturally occurring hydrocarbon seeps and sulfur springs. We characterized the geology, stream geochemistry, and microbial facies and diversity of the Santa Paula Creek ecosystem. Using geochemical analyses and 16S rRNA gene sequencing, we found that SPC supports a dynamic sulfur cycle that is largely driven by sulfide-oxidizing microbial taxa, with contributions from smaller populations of sulfate-reducing and sulfur-disproportionating taxa. This preliminary characterization of SPC revealed an intriguing site in which to study geological and geochemical controls on microbial community composition and to expand our understanding of sulfur cycling in terrestrial environments.
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- 2022
27. Sulfur cycling at natural hydrocarbon and sulfur seeps in Santa Paula Creek, CA
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Aronson, Heidi S., Monteverde, Danielle R., Barnes, Ben Davis, Johnson, Brooke R., Zawaski, Mike J., Speth, Daan R., Wang, Xingchen Tony, Wu, Fenfang, Webb, Samuel M., Trower, Elizabeth J., Magyar, John S., Sessions, Alex L., Orphan, Victoria J., Fischer, Woodward W., Aronson, Heidi S., Monteverde, Danielle R., Barnes, Ben Davis, Johnson, Brooke R., Zawaski, Mike J., Speth, Daan R., Wang, Xingchen Tony, Wu, Fenfang, Webb, Samuel M., Trower, Elizabeth J., Magyar, John S., Sessions, Alex L., Orphan, Victoria J., and Fischer, Woodward W.
- Abstract
Biogeochemical cycling of sulfur is relatively understudied in terrestrial environments compared to marine environments. However, the comparative ease of access, observation, and sampling of terrestrial settings can expand our understanding of organisms and processes important in the modern sulfur cycle. Furthermore, these sites may allow for the discovery of useful process analogs for ancient sulfur-metabolizing microbial communities at times in Earth's past when atmospheric O2 concentrations were lower and sulfide was more prevalent in Earth surface environments. We identified a new site at Santa Paula Creek (SPC) in Ventura County, CA—a remarkable freshwater, gravel-bedded mountain stream charged with a range of oxidized and reduced sulfur species and heavy hydrocarbons from the emergence of subsurface fluids within the underlying sulfur- and organic-rich Miocene-age Monterey Formation. SPC hosts a suite of morphologically distinct microbial biofacies that form in association with the naturally occurring hydrocarbon seeps and sulfur springs. We characterized the geology, stream geochemistry, and microbial facies and diversity of the Santa Paula Creek ecosystem. Using geochemical analyses and 16S rRNA gene sequencing, we found that SPC supports a dynamic sulfur cycle that is largely driven by sulfide-oxidizing microbial taxa, with contributions from smaller populations of sulfate-reducing and sulfur-disproportionating taxa. This preliminary characterization of SPC revealed an intriguing site in which to study geological and geochemical controls on microbial community composition and to expand our understanding of sulfur cycling in terrestrial environments.
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- 2022
28. Ben Davis
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Sky Goodden, Ben Davis, Jacob Irish, Lauren Wetmore, Chris Andrews, Sky Goodden, Ben Davis, Jacob Irish, Lauren Wetmore, and Chris Andrews
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In the introduction to Ben Davis’s new book, a bracing and perspectival collection of essays titled Art in the After-Culture (Haymarket Books), he reflects that “the only thing that has grown faster than the demands on art has been doubt that art can respond adequately to those demands.” In a generous and thoughtful conversation with Sky Goodden, Davis expands on those cultural tensions that exacerbate an already fraught cultural dialogue, and touches on other central themes to this collection of writing, including the economic structures that inform contemporary art and its technologies, the roots of cultural appropriation, the context collapse ..., https://www.librarystack.org/ben-davis/?ref=unknown
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- 2022
29. A re‐examination of the mechanism of whiting events: A new role for diatoms in Fayetteville Green Lake (New York, USA).
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Stanton, Chloe, Barnes, Ben Davis, Kump, Lee R., and Cosmidis, Julie
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- *
CALCIUM carbonate , *DIATOMS , *SCANNING transmission electron microscopy , *DIATOM frustules , *WATER meters , *X-ray microscopy - Abstract
Whiting events—the episodic precipitation of fine‐grained suspended calcium carbonates in the water column—have been documented across a variety of marine and lacustrine environments. Whitings likely are a major source of carbonate muds, a constituent of limestones, and important archives for geochemical proxies of Earth history. While several biological and physical mechanisms have been proposed to explain the onset of these precipitation events, no consensus has been reached thus far. Fayetteville Green Lake (New York, USA) is a meromictic lake that experiences annual whitings. Materials suspended in the water column collected through the whiting season were characterized using scanning electron microscopy and scanning transmission X‐ray microscopy. Whitings in Fayetteville Green Lake are initiated in the spring within the top few meters of the water column, by precipitation of fine amorphous calcium carbonate (ACC) phases nucleating on microbial cells, as well as on abundant extracellular polymeric substances (EPS) frequently associated with centric diatoms. Whiting particles found in the summer consist of 5–7 μm calcite grains forming aggregates with diatoms and EPS. Simple calculations demonstrate that calcite particles continuously grow over several days, then sink quickly through the water column. In the late summer, partial calcium carbonate dissolution is observed deeper in the water column. Settling whiting particles, however, reach the bottom of the lake, where they form a major constituent of the sediment, along with diatom frustules. The role of diatoms and associated EPS acting as nucleation surfaces for calcium carbonates is described for the first time here as a potential mechanism participating in whitings at Fayetteville Green Lake. This mechanism may have been largely overlooked in other whiting events in modern and ancient environments. [ABSTRACT FROM AUTHOR]
- Published
- 2023
- Full Text
- View/download PDF
30. Authigenic carbonate burial in the Late Devonian–Early Mississippian Bakken Formation (Williston Basin, <scp>USA</scp> )
- Author
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Jon M. Husson, Shanan E. Peters, and Ben Davis Barnes
- Subjects
chemistry.chemical_compound ,chemistry ,Stratigraphy ,Geochemistry ,Carbonate ,Geology ,Late Devonian extinction ,Authigenic ,Structural basin ,Devonian - Published
- 2020
31. Fragment‐Based Ligand Discovery
- Author
-
Ben Davis and Roderick E. Hubbard
- Subjects
Chemistry ,Stereochemistry ,Fragment (computer graphics) ,Ligand (biochemistry) - Published
- 2020
32. Inverse calculation of cross-spectral densities using a Bayesian inference approach
- Author
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Ben Davis, Garret Lopp, and Ryan Schultz
- Published
- 2022
33. A covalent strategy to target intrinsically disordered proteins: Discovery of novel tau aggregation inhibitors
- Author
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László Petri, Péter Ábrányi-Balogh, Darius Vagrys, Tímea Imre, Nikolett Varró, István Mándity, Anita Rácz, Lucia Wittner, Kinga Tóth, Estilla Zsófia Tóth, Tünde Juhász, Ben Davis, and György Miklós Keserű
- Subjects
Pharmacology ,Intrinsically Disordered Proteins ,Tauopathies ,Drug Design ,Organic Chemistry ,Drug Discovery ,Humans ,Neurodegenerative Diseases ,tau Proteins ,General Medicine ,Cysteine - Abstract
Intrinsically disordered proteins (IDPs) play important roles in disease pathologies; however, their lack of defined stable 3D structures make traditional drug design strategies typically less effective against these targets. Based on promising results of targeted covalent inhibitors (TCIs) on challenging targets, we have developed a covalent design strategy targeting IDPs. As a model system we chose tau, an endogenous IDP of the central nervous system that is associated with severe neurodegenerative diseases via its aggregation. First, we mapped the tractability of available cysteines in tau and prioritized suitable warheads. Next, we introduced the selected vinylsulfone warhead to the non-covalent scaffolds of potential tau aggregation inhibitors. The designed covalent tau binders were synthesized and tested in aggregation models, and inhibited tau aggregation effectively. Our results revealed the usefulness of the covalent design strategy against therapeutically relevant IDP targets and provided promising candidates for the treatment of tauopathies.
- Published
- 2021
34. 9.5 Theses on Art and Class
- Author
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Ben Davis
- Published
- 2013
35. On public-coin zero-error randomized communication complexity
- Author
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Ben Davis, Hamed Hatami, William Pires, Ran Tao, and Hamza Usmani
- Subjects
Signal Processing ,Computer Science Applications ,Information Systems ,Theoretical Computer Science - Published
- 2022
36. A method for estimating the impact of new vaccine technologies on vaccination coverage rates
- Author
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Ben Davis, Michael Krautmann, and Pascale R. Leroueil
- Subjects
Multidisciplinary ,Vaccination Coverage ,Immunization Programs ,Science ,Data Interpretation, Statistical ,Vaccine Development ,Medicine ,Humans ,Technology, Pharmaceutical ,Mathematics ,Measles-Mumps-Rubella Vaccine ,Biotechnology - Abstract
Vaccines are one of the most cost-effective tools for improving human health and well-being. The impact of a vaccine on population health is partly determined by its coverage rate, the proportion of eligible individuals vaccinated. Coverage rate is a function of the vaccine presentation and the population in which that presentation is deployed. This population includes not only the individuals vaccinated, but also the logistics and healthcare systems responsible for vaccine delivery. Because vaccine coverage rates remain below targets in many settings, vaccine manufacturers and purchasers have a shared interest in better understanding the relationship between vaccine presentation, population characteristics, and coverage rate. While there have been some efforts to describe this relationship, existing research and tools are limited in their ability to quantify coverage rate changes across a broad set of antigens, vaccine presentations, and geographies. In this article, we present a method for estimating the impact of improved vaccine technologies on vaccination coverage rates. It is designed for use with low- and middle-income country vaccination programs. This method uses publicly available data and simple calculations based on probability theory to generate coverage rate values. We first present the conceptual framework and mathematical approach. Using a Microsoft Excel-based implementation, we then apply the method to a vaccine technology in early-stage development: micro-array patch for a measles-rubella vaccine (MR-MAP). Example outputs indicate that a complete switch from the current subcutaneous presentation to MR-MAP in the 73 countries ever eligible for Gavi support would increase overall vaccination coverage by 3.0–4.9 percentage points depending on the final characteristics of the MR-MAP. This change equates to an additional 2.6–4.2 million children vaccinated per year. Our method can be readily extended to other antigens and vaccine technologies to provide quick, low-cost estimates of coverage impact. As vaccine manufacturers and purchasers face increasingly complex decisions, such estimates could facilitate objective comparisons between options and help these decision makers obtain the most value for money.
- Published
- 2021
37. Lenny Lemmon and the Alien Invasion
- Author
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Ben Davis and Ben Davis
- Abstract
Hilarious school-based comedy for 7+ with black and white illustrations throughout. A modern day Just William, perfect for fans of Pamela Butchart, Wimpy Kid and Bunny Vs Monkey! In order to boost sales for Lenny's grandmother's ice-cream shop, Lenny persuades Sam to dress as an alien to attract attention to it. Soon there are sightings of aliens all over town and it becomes the subject of intense media scrutiny. The journalists and tourists and alien watchers all buy ice creams and business booms. So Lenny tells Sam he can take his costume off now and Sam points out he's no longer wearing it. What?! Who is--? OMG!
- Published
- 2024
38. Fragment Screening by NMR
- Author
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Ben Davis
- Subjects
0303 health sciences ,03 medical and health sciences ,Fragment (logic) ,010405 organic chemistry ,Computer science ,Fragment-based lead discovery ,Proton NMR ,Computational biology ,01 natural sciences ,030304 developmental biology ,0104 chemical sciences - Abstract
This chapter describes the use of NMR to screen a fragment library as part of a fragment-based lead discovery (FBLD) campaign. The emphasis is on the practicalities involved in fragment screening by NMR, with particular attention to the use of 1D ligand-observed 1H NMR experiments. An overview of the theoretical considerations underlying the choice of method and experimental configuration is given, along with a discussion of steps that can be taken in order to minimize the risk of experimental artifacts often associated with the identification of low-affinity interactions.
- Published
- 2021
39. Multiplexed experimental strategies for fragment library screening using SPR biosensors
- Author
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Ben Davis, Giulia Opassi, Darius Vagrys, U. Helena Danielson, Iwan J. P. de Esch, Anna Moberg, P. Boronat, Roderick E. Hubbard, Doreen Dobritzsch, Claes Holmgren, Jacqueline E. van Muijlwijk-Koezen, David J. Hamilton, Edward A. FitzGerald, Peter O'Brien, Daniela Cederfelt, Hanna F. Klein, Maikel Wijtmans, Vladimir O. Talibov, Mia Abramsson, Maria T. Lindgren, Innovations in Human Health & Life Sciences, AIMMS, Chemistry and Pharmaceutical Sciences, and Medicinal chemistry
- Subjects
Materials science ,Fragment (computer graphics) ,Nanotechnology ,Surface plasmon resonance biosensor ,Biosensor - Abstract
Surface plasmon resonance biosensor technology (SPR) is ideally suited for fragment-based lead discovery. However, generally suitable experimental procedures or detailed protocols are lacking, especially for structurally or physico-chemically challenging targets or when tool compounds are lacking. Success depends on accounting for the features of both the target and the chemical library, purposely designing screening experiments for identification and validation of hits with desired specificity and mode-of-action, and availability of orthogonal methods capable of confirming fragment hits. By adopting a multiplexed strategy, the range of targets and libraries amenable to an SPR biosensor-based approach for identifying hits is considerably expanded. We here illustrate innovative strategies using five challenging targets and variants thereof. Two libraries of 90 and 1056 fragments were screened using two different flow-based SPR biosensor systems, allowing different experimental approaches. Practical considerations and procedures accounting for the characteristics of the proteins and libraries, and that increase robustness, sensitivity, throughput and versatility are highlighted.
- Published
- 2020
40. Lenny Lemmon and the Trail of Crumbs
- Author
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Ben Davis and Ben Davis
- Abstract
The second in a hilarious school-based comedy series for 7+ with black and white illustrations throughout. A modern day Just William, perfect for fans of Wimpy Kid and Pamela Butchart! When the school inspector turns up one day, Lenny and his friends are surprised to find themselves sent to the back field to count the footballs and tidy up the bibs. The school dog, Crumbs, has been sent there too. He's quite a lively dog and prone to over-enthusiasm. Suddenly they realise it's all a ruse to keep them away from the school inspector! Furious, and not a little hurt, our heroes rush into school, demanding answers and an apology. The subsequent encounter (chase) with the school inspector nearly closes the school. But, of course, Lenny and friends, with the help of the enthusiastic Crumbs, save the day and show the inspector that the fun at Fleurwood Academy is always Outstanding!
- Published
- 2023
41. Lenny Lemmon and the Invincible Rat : The Invincible Rat
- Author
-
Ben Davis and Ben Davis
- Abstract
Hilarious school-based comedy for 7+ with black and white illustrations throughout. A modern day Just William! Lenny Lemmon is looking forward to Olden Days Day at school. It's a chance to break the routine and try school as it was years ago. It explains the blackboard in the corner, his teacher's bad temper and why his friend Sam looks like Oliver Twist. And Lenny's pleased with his own contribution, too. It's in a cardboard box at the back of the class at the moment because it's not yet time to shine. Except it escapes and ends up in the bowl of sick, sorry, gruel, that Amelia Kelly has brought up, sorry, in. Soon there are small, gruelly footprints all over the classroom and also a lot of screaming because the rat that Lenny found by the back of the chip shop is FREE. It takes the arrival of cool new girl, Jessica Conrad, to distract everyone. Jessica has a plan to catch the rat but it'll cost them. Can the three kids round up the rat before more damage is done? Or will they end up in the headmaster's office - again. Maybe, but they're going to need a bigger net...
- Published
- 2023
42. Exploring IDP–Ligand Interactions: Tau K18 as a Test Case
- Author
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Roderick E. Hubbard, Ben Davis, Darius Vagrys, Chen I-Jen, and James Edward Paul Davidson
- Subjects
0301 basic medicine ,tau Proteins ,Fluorine-19 NMR ,macromolecular substances ,Intrinsically disordered proteins ,Ligands ,Catalysis ,Article ,Inorganic Chemistry ,lcsh:Chemistry ,03 medical and health sciences ,0302 clinical medicine ,Humans ,Physical and Theoretical Chemistry ,Surface plasmon resonance ,Molecular Biology ,lcsh:QH301-705.5 ,Nuclear Magnetic Resonance, Biomolecular ,Spectroscopy ,Microscale thermophoresis ,Chemistry ,Organic Chemistry ,General Medicine ,Ligand (biochemistry) ,intrinsically disordered protein ,microscale thermophoresis ,Computer Science Applications ,Intrinsically Disordered Proteins ,Molecular Docking Simulation ,nuclear magnetic resonance ,030104 developmental biology ,lcsh:Biology (General) ,lcsh:QD1-999 ,Biophysics ,tau K18 ,030217 neurology & neurosurgery ,surface plasmon resonance - Abstract
Over the past decade intrinsically disordered proteins (IDPs) have emerged as a biologically important class of proteins, many of which are of therapeutic relevance. Here, we investigated the interactions between a model IDP system, tau K18, and nine literature compounds that have been reported as having an effect on tau in order to identify a robust IDP&ndash, ligand system for the optimization of a range of biophysical methods. We used NMR, surface plasmon resonance (SPR) and microscale thermophoresis (MST) methods to investigate the binding of these compounds to tau K18, only one showed unambiguous interaction with tau K18. Several near neighbors of this compound were synthesized and their interactions with tau K18 characterized using additional NMR methods, including 1D ligand-observed NMR, diffusion-ordered spectroscopy (DOSY) and 19F NMR. This study demonstrates that it is possible to detect and characterize IDP&ndash, ligand interactions using biophysical methods. However, care must be taken to account for possible artefacts, particularly the impact of compound solubility and where the protein has to be immobilized.
- Published
- 2020
43. Hemorrhage-Control Training in Medical Education
- Author
-
Mary K. Kimbrough, Avi Bhavaraju, Anna Privratsky, Ronald D. Robertson, Ben Davis, Hanna K. Jensen, Carol R. Thrush, Jared T Gowen, William C Beck, Kevin W. Sexton, and John R Taylor
- Subjects
Medical education ,lcsh:LC8-6691 ,lcsh:R5-920 ,lcsh:Special aspects of education ,business.industry ,education ,hemorrhage control ,Stop the Bleed ,030208 emergency & critical care medicine ,B-Con ,Training (civil) ,03 medical and health sciences ,0302 clinical medicine ,Medicine ,Hemorrhage control ,Medical school curriculum ,030212 general & internal medicine ,tourniquet training ,business ,lcsh:Medicine (General) ,medical education ,Original Research - Abstract
Objectives: To evaluate and analyze the efficacy of implementation of hemorrhage-control training into the formal medical school curriculum. We predict this training will increase the comfort and confidence levels of students with controlling major hemorrhage and they will find this a valuable skill set for medical and other healthcare professional students. Methods: After IRB and institutional approval was obtained, hemorrhage-control education was incorporated into the surgery clerkship curriculum for 96 third-year medical students at the University of Arkansas for Medical Sciences using the national Stop The Bleed program. Using a prospective study design, participants completed pre- and post-training surveys to gauge prior experiences and comfort levels with controlling hemorrhage and confidence levels with the techniques taught. Course participation was mandatory; survey completion was optional. The investigators were blinded as to the individual student’s survey responses. A knowledge quiz was completed following the training. Results: Implementation of STB training resulted in a significant increase in comfort and confidence among students with all hemorrhage-control techniques. There was also a significant difference in students’ perceptions of the importance of this training for physicians and other allied health professionals. Conclusion: Hemorrhage-control training can be effectively incorporated into the formal medical school curriculum via a single 2-hour Stop The Bleed course, increasing students’ comfort level and confidence with controlling major traumatic bleeding. Students value this training and feel it is a beneficial addition to their education. We believe this should be a standard part of undergraduate medical education.
- Published
- 2020
44. Protein-fragment complex structures derived by NMR molecular replacement
- Author
-
Julien Orts, Celestine N. Chi, Dean Strotz, Dhiman Ghosh, Ben Davis, and Felix Torres
- Subjects
0301 basic medicine ,genetic structures ,Stereochemistry ,Pharmaceutical Science ,010402 general chemistry ,01 natural sciences ,Biochemistry ,Weak binding ,03 medical and health sciences ,Fragment (logic) ,Drug Discovery ,Molecular replacement ,Pharmacology ,Chemistry ,Ligand ,Organic Chemistry ,fungi ,Interaction site ,food and beverages ,Affinities ,Small molecule ,0104 chemical sciences ,030104 developmental biology ,Protein Fragment ,Molecular Medicine - Abstract
The NMR2 method can derive protein–fragment structures with a cooperative assignment strategy, opening an avenue for NMR-based fragment lead discovery., Recently we have established an NMR molecular replacement method, which is capable of solving the structure of the interaction site of protein–ligand complexes in a fully automated manner. While the method was successfully applied for ligands with strong and weak binding affinities, including small molecules and peptides, its applicability on ligand fragments remains to be shown. Structures of fragment–protein complexes are more challenging for the method since fragments contain only few protons. Here we show a successful application of the NMR molecular replacement method in solving structures of complexes between three derivatives of a ligand fragment and the protein receptor PIN1. We anticipate that this approach will find a broad application in fragment-based lead discovery.
- Published
- 2020
45. The Secular Evolution of the Reverse Weathering Sink in the Global Li Cycle
- Author
-
Matthew Fantle, Ben Davis Barnes, and Elizabeth Andrews
- Published
- 2020
46. The Role of Seafloor-Hydrothermal Activity as a Driver of Marine Anoxia
- Author
-
Ben Davis Barnes, John Slack, Mark Hannington, Noah Planavsky, and Lee Kump
- Published
- 2020
47. Tailings and tracings: using art and social science to explore the limits of visual methods at mining and industrial ruins
- Author
-
Kevin Walby and Ben Davis
- Subjects
Visual Arts and Performing Arts ,Communication - Abstract
This article examines a novel approach to visual methods that artist Ben Davis has developed based on sociologist Kevin Walby’s research into decommissioned industrial sites, which is referred to here as tracing. Disrupting the over-reliance on photographic representation in visual methods in the social sciences, the authors integrate audio recordings of interviews, as well as photos, maps, and building plans for pop-up mining communities into visual art works to provide a counter-visual analysis of the landscapes depicted in Kevin Walby’s photographs of Uranium City. After reviewing literature on environmental degradation and on visual methods, the article elaborates on Ben Davis’s practice of tracing as a technique representing the feeling of decomposition and decay generated by the harms of industrial resource extraction. The authors argue that the technique of tracing excavates layered histories of place, providing a way of creating new interpretations of social and environmental issues. They then discuss how this counter-visual analysis and approach to tracing enables a trans-disciplinary and dialogical space for engagement with academics, artists, and activists to explore issues centered on land, contamination, and justice.
- Published
- 2022
48. Fish utilisation of wetland nurseries with complex hydrological connectivity.
- Author
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Ben Davis, Ross Johnston, Ronald Baker, and Marcus Sheaves
- Subjects
Medicine ,Science - Abstract
The physical and faunal characteristics of coastal wetlands are driven by dynamics of hydrological connectivity to adjacent habitats. Wetlands on estuary floodplains are particularly dynamic, driven by a complex interplay of tidal marine connections and seasonal freshwater flooding, often with unknown consequences for fish using these habitats. To understand the patterns and subsequent processes driving fish assemblage structure in such wetlands, we examined the nature and diversity of temporal utilisation patterns at a species or genus level over three annual cycles in a tropical Australian estuarine wetland system. Four general patterns of utilisation were apparent based on CPUE and size-structure dynamics: (i) classic nursery utlisation (use by recently settled recruits for their first year) (ii) interrupted peristence (iii) delayed recruitment (iv) facultative wetland residence. Despite the small self-recruiting 'facultative wetland resident' group, wetland occupancy seems largely driven by connectivity to the subtidal estuary channel. Variable connection regimes (i.e. frequency and timing of connections) within and between different wetland units (e.g. individual pools, lagoons, swamps) will therefore interact with the diversity of species recruitment schedules to generate variable wetland assemblages in time and space. In addition, the assemblage structure is heavily modified by freshwater flow, through simultaneously curtailing persistence of the 'interrupted persistence' group, establishing connectivity for freshwater spawned members of both the 'facultative wetland resident' and 'delayed recruitment group', and apparently mediating use of intermediate nursery habitats for marine-spawned members of the 'delayed recruitment' group. The diversity of utilisation pattern and the complexity of associated drivers means assemblage compositions, and therefore ecosystem functioning, is likely to vary among years depending on variations in hydrological connectivity. Consequently, there is a need to incorporate this diversity into understandings of habitat function, conservation and management.
- Published
- 2012
- Full Text
- View/download PDF
49. Cronobacter spp.—Opportunistic Foodborne Pathogens: an Update on Evolution, Osmotic Adaptation and Pathogenesis
- Author
-
Séamus Fanning, Ben Davis Tall, Shabarinath Srikumar, Angelika Lehner, University of Zurich, and Lehner, Angelika
- Subjects
0301 basic medicine ,Microbiology (medical) ,Genetics ,biology ,In silico ,030106 microbiology ,610 Medicine & health ,2725 Infectious Diseases ,Proteomics ,biology.organism_classification ,Genome ,2726 Microbiology (medical) ,DNA sequencing ,03 medical and health sciences ,030104 developmental biology ,Infectious Diseases ,570 Life sciences ,Adaptation ,Cronobacter ,Niche adaptation ,Gene ,10082 Institute of Food Safety and Hygiene - Abstract
Cronobacter spp. are opportunistic, foodborne pathogens capable of causing severe illnesses predominantly in premature and low-birth-weight infants. These organisms have evolved features, which aid them to survive under harsh environmental conditions but may also contribute to pathogenesis during infection. In this review, we highlight efforts to study genetic diversity and evolutionary aspects, osmotic adaptation and pathogenesis of these pathogens. Next-generation genome sequencing-based techniques elucidated a species-level bidirectional divergence driven by niche adaptation in Cronobacter spp. Whole genome comparisons and proteomics revealed genes and pathways contributing to the survival and persistence phenotype in low-moisture environments. In silico genome comparisons and application of suitable in vivo models provided answers to pathogenesis-related questions. Development and application of innovative molecular techniques and in vivo infection models have shed light on how Cronobacter spp. adapt to challenges experienced in natural, food processing and host-related environments.
- Published
- 2018
50. Predictability of what or where reduces brain activity, but a bottleneck occurs when both are predictable
- Author
-
Ben Davis and Uri Hasson
- Subjects
Adult ,Male ,Predictive coding ,PREDICTION ,Brain activity and meditation ,Disorder ,Entropy ,Uncertainty ,statistical learning ,Cognitive Neuroscience ,Thalamus ,Sensory system ,050105 experimental psychology ,Bottleneck ,Executive Function ,Young Adult ,03 medical and health sciences ,0302 clinical medicine ,medicine ,Humans ,0501 psychology and cognitive sciences ,Anterior cingulate cortex ,Cerebral Cortex ,Temporal cortex ,Communication ,business.industry ,Functional Neuroimaging ,Putamen ,05 social sciences ,Anticipation, Psychological ,Magnetic Resonance Imaging ,Semantics ,Neostriatum ,medicine.anatomical_structure ,Visual cortex ,Pattern Recognition, Visual ,Neurology ,Space Perception ,Female ,Psychology ,business ,Neuroscience ,Psychomotor Performance ,030217 neurology & neurosurgery - Abstract
Detecting regularities in the sensory environment licenses predictions that enable adaptive behaviour. However, it is unclear whether predictions about object category, location, or both dimensions are mediated by overlapping systems, and relatedly, whether constructing predictions about both category and location is associated with processing bottlenecks. To examine this issue, in an fMRI study, we presented participants with image-series in which non-deterministic transition probabilities enabled predictions about either the location of the next image, its semantic category, both dimensions, or neither (the latter forming a “no-regularity” random baseline condition). Speaking to a common system, all three predictable conditions resulted in reduced BOLD activity in four clusters: left rostral anterior cingulate cortex; bilateral putamen, caudate and thalamus; right precentral gyrus, and left visual cortex. Pointing to a processing bottleneck, in some regions, a significant interaction between the two factors was found whereby category-predictable series were associated with lower activity – but only when location regularity was absent. Finally, category regularity decreased activation in areas of the ventral visual stream and semantic areas of lateral temporal cortex, and location regularity decreased activation in a dorsal fronto-parietal cluster, long implicated in the endogenous control of spatial attention. Our findings confirm and expand a role for dACC/dmPFC and striatum in monitoring or responding to uncertainty in the environment and point to a limited capacity bottleneck when multiple predictions are concurrently licensed.
- Published
- 2018
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