bluuebunny/crossref_metadata_2025_split huggingface dataset:
SARS-CoV-2 spike protein induces abnormal inflammatory blood clots neutralized by fibrin immunotherapy
Authors: Ryu Jae Kyu , Sozmen Elif G. , Dixit Karuna , Montano Mauricio , Matsui Yusuke , Liu Yixin , Helmy Ekram , Deerinck Thomas J. , Yan Zhaoqi , Schuck Renaud , Acevedo Rosa Meza , Spencer Collin M. , Thomas Reuben , Pico Alexander R. , Zamvil Scott S. , Lynch Kara L. , Ellisman Mark H. , Greene Warner C. , Akassoglou Katerina 
Published: October 2021

AbstractBlood clots are a central feature of coronavirus disease-2019 (COVID-19) and can culminate in pulmonary embolism, stroke, and sudden death. However, it is not known how abnormal blood clots form in COVID-19 or why they occur even in asymptomatic and convalescent patients. Here we report that the Spike protein from severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) binds to the blood coagulation factor fibrinogen and induces structurally abnormal blood clots with heightened proinflammatory activity. SARS-CoV-2 Spike virions enhanced fibrin-mediated microglia activation and induced fibrinogen-dependent lung pathology. COVID-19 patients had fibrin autoantibodies that persisted long after acute infection. Monoclonal antibody 5B8, targeting the cryptic inflammatory fibrin epitope, inhibited thromboinflammation. Our results reveal a procoagulant role for the SARS-CoV-2 Spike and propose fibrin-targeting interventions as a treatment for thromboinflammation in COVID-19.One-Sentence SummarySARS-CoV-2 spike induces structurally abnormal blood clots and thromboinflammation neutralized by a fibrin-targeting antibody.
DeepImageTranslator V2: analysis of multimodal medical images using semantic segmentation maps generated through deep learning
Authors: Ye En Zhou , Ye En Hui , Bouthillier Maxime , Ye Run Zhou 
Published: October 2021

ABSTRACTIntroductionAnalysis of multimodal medical images often requires the selection of one or many anatomical regions of interest (ROIs) for extraction of useful statistics. This task can prove laborious when a manual approach is used. We have previously developed a user-friendly software tool for image-to-image translation using deep learning. Therefore, we present herein an update to the DeepImageTranslator software with the addition of a tool for multimodal medical image segmentation analysis (hereby referred to as the MMMISA).MethodsThe MMMISA was implemented using the Tkinter library; backend computations were implemented using the Pydicom, Numpy, and OpenCV libraries. We tested our software using 4188 slices from whole-body axial 2-deoxy-2-[18F]-fluoroglucose-position emission tomography/computed tomography scans ([18F]-FDG-PET/CT) of 10 patients from the American College of Radiology Imaging Network-Head and Neck Squamous Cell Carcinoma (ACRIN-HNSCC) database. Using the deep learning software DeepImageTranslator, a model was trained with 36 randomly selected CT slices and manually labelled semantic segmentation maps. Utilizing the trained model, all the CT scans of the 10 HNSCC patients were segmented with high accuracy. Segmentation maps generated using the deep convolutional network were then used to measure organ specific [18F]-FDG uptake. We also compared measurements performed using the MMMISA and those made with manually selected ROIs.ResultsThe MMMISA is a tool that allows user to select ROIs based on deep learning-generated segmentation maps and to compute accurate statistics for these ROIs based on coregistered multimodal images. We found that organ-specific [18F]-FDG uptake measured using multiple manually selected ROIs is concordant with whole-tissue measurements made with segmentation maps using the MMMISA tool.
A pseudorabies virus serine/threonine kinase, US3, promotes retrograde transport in axons via Akt/mToRC1
Authors: Esteves Andrew D. , Koyuncu Orkide O. , Enquist Lynn W. 
Published: October 2021

AbstractInfection of peripheral axons by alpha herpesviruses (AHVs) is a critical stage in establishing a life-long infection in the host. Upon entering the cytoplasm of axons, AHV nucleocapsids and associated inner-tegument proteins must engage the cellular retrograde transport machinery to promote the long-distance movement of virion components to the nucleus. The current model outlining this process is incomplete and further investigation is required to discover all viral and cellular determinants involved as well as the temporality of the events. Using a modified tri-chamber system, we have discovered a novel role of the pseudorabies virus (PRV) serine/threonine kinase, US3, in promoting efficient retrograde transport of nucleocapsids. We discovered that transporting nucleocapsids move at similar velocities both in the presence and absence of a functional US3 kinase; however fewer nucleocapsids are moving when US3 is absent and move for shorter periods of time before stopping, suggesting US3 is required for efficient nucleocapsid engagement with the retrograde transport machinery. This led to fewer nucleocapsids reaching the cell bodies to produce a productive infection 12hr later. Furthermore, US3 was responsible for the induction of local translation in axons as early as 1hpi through the stimulation of a PI3K/Akt-mToRC1. These data describe a novel role for US3 in the induction of local translation in axons during AHV infection, a critical step in transport of nucleocapsids to the cell body.ImportanceNeurons are highly polarized cells with axons that can reach centimeters in length. Communication between axons at the periphery and the distant cell body is a relatively slow process involving the active transport of chemical messengers. There’s a need for axons to respond rapidly to extracellular stimuli. Translation of repressed mRNAs present within the axon occurs to enable rapid, localized responses independently of the cell body. AHVs have evolved a way to hijack local translation in the axons to promote their transport to the nucleus. We have determined the cellular mechanism and viral components involved in the induction of axonal translation. The US3 serine/threonine kinase of PRV activates Akt-mToRC1 signaling pathways early during infection to promote axonal translation. When US3 is not present, the number of moving nucleocapsids and their processivity are reduced, suggesting that US3 activity is required for efficient engagement of nucleocapsids with the retrograde transport machinery.
Replication Fork Uncoupling Causes Nascent Strand Degradation and Fork Reversal
Authors: Kavlashvili Tamar , Dewar James M 
Published: October 2021

AbstractGenotoxins cause nascent strand degradation (NSD) and fork reversal during DNA replication. NSD and fork reversal are crucial for genome stability and exploited by chemotherapeutic approaches. However, it is unclear how NSD and fork reversal are triggered. Additionally, the fate of the replicative helicase during these processes is unknown. We developed a biochemical approach to study synchronous, localized NSD and fork reversal using Xenopus egg extracts. We show that replication fork uncoupling stimulates NSD of both nascent strands and progressive conversion of uncoupled forks to reversed forks. The replicative helicase remains bound during NSD and fork reversal, indicating that both processes take place behind the helicase. Unexpectedly, NSD occurs before and after fork reversal, indicating that multiple degradation steps take place. Overall, our data show that uncoupling causes NSD and fork reversal and identify key steps involved in these processes.
The crystal structure of vaccinia virus protein E2 and perspectives on the prediction of novel viral protein folds
Authors: Gao William N.D. , Gao Chen , Deane Janet E. , Carpentier David C.J. , Smith Geoffrey L. , Graham Stephen C. 
Published: October 2021

AbstractThe morphogenesis of vaccinia virus (VACV, family Poxviridae), the smallpox vaccine, is a complex process involving multiple distinct cellular membranes and resulting in multiple different forms of infectious virion. Efficient release of enveloped virions, which promote systemic spread of infection within hosts, requires the VACV protein E2 but the molecular basis of E2 function remains unclear and E2 lacks sequence homology to any well-characterised family of proteins. We solved the crystal structure of VACV E2 to 2.3 Å resolution, revealing that it comprises two domains with novel folds: an N-terminal annular (ring) domain and a C-terminal head domain. The C-terminal head domain displays weak structural homology with cellular (pseudo)kinases but lacks conserved surface residues or kinase features, suggesting that it is not enzymatically active, and possesses a large surface basic patch that might interact with phosphoinositide lipid headgroups. Recent deep learning methods have revolutionised our ability to predict the three-dimensional structures of proteins from primary sequence alone. VACV E2 is an exemplar ‘difficult’ viral protein target for structure prediction, being comprised of multiple novel domains and lacking sequence homologues outside Poxviridae. AlphaFold2 nonetheless succeeds in predicting the structures of the head and ring domains with high and moderate accuracy, respectively, allowing accurate inference of multiple structural properties. The advent of highly accurate virus structure prediction marks a step-change in structural virology and beckons a new era of structurally-informed molecular virology.
Hole geometry and surface integrity assessment in drilling of inconel 718 using laser texture filled solid lubricant tools
Authors: Mishra Pradeep Kumar , Kalidas Periyaswamy , T. Jagadesh 
Published: October 2021

Purpose
Inconel 718 is used in gas turbine engines for aerospace applications due to high creep resistance but generating a hole with good surface integrity is challenging because the γ′′ interface is very strong so that slip is difficult in the grain boundary. So, the purpose of this work is to enhance the performance of drilling using a micro texture drill tool filled with solid lubricant.

Design/methodology/approach
Three different micro textures such as star shaped with 6-sharp apex, rectangular slots parallel and perpendicular to drill axis are created using laser on the drill tool. Deep cryogenic treatment is done on the textured tool to improve the strength and wear resistance before it is filled with solid lubricant. A detailed experimental investigation is performed to analyse the hole geometry and surface integrity of the drilled hole.

Findings
The accuracy of the drilled holes is enhanced in the star shaped texture drill tool over other textured and non-textured tools. A significant improvement in surface finish and hardness are observed and moreover cylindricity error, burr height of the hole is less for the above condition. It is also inferred that, at lower feed rate and higher speed produce hole with an accuracy of 96%.

Originality/value
Aerospace industry is focussing on improving the hole geometry and surface in Inconel 718. This work demonstrates the novel technique to improve drilling of Inconel 718 using laser textured tool filled by the solid lubricant.
Support vector machines for predicting the compressive response of defected 3D printed polymeric sandwich structures
Authors: Mustapha Khameel , Alhiyafi Jamal , Shafi Aamir , Olatunji Sunday Olusanya 
Published: October 2021

Purpose
This study aims to investigate the prediction of the nonlinear response of three-dimensional-printed polymeric lattice structures with and without structural defects. Unlike metallic structures, the deformation behavior of polymeric components is difficult to quantify through the classical numerical analysis approach as a result of their nonlinear behavior under mechanical loads.

Design/methodology/approach
Geometric models of periodic lattice structures were designed via PTC Creo. Imperfections in the form of missing unit cells are introduced in the replica of the lattice structure. The perfect and imperfect lattice structures have the same dimensions – 10 mm × 14 mm × 30 mm (w × h × L). The fused deposition modelling technique is used to fabricate the parts. The fabricated parts were subjected to physical compression tests to provide a measure of their transverse compressibility resistance. The ensuing nonlinear response from the experimental tests is deployed to develop a support vector machine surrogate model.

Findings
Results from the surrogate model’s performance, in terms of correlation coefficient, rose to as high as 99.91% for the nonlinear compressive stress with a minimum achieved being 98.51% across the four datasets used. In the case of deflection response, the model accuracy rose to as high as 99.74% while the minimum achieved is 98.56% across the four datasets used.

Originality/value
The developed model facilitates the prediction of the quasi-static response of the structures in the absence and presence of defects without the need for repeated physical experiments. The structure investigated is designed for target applications in hierarchical polymer packaging, and the methodology presents a cost-saving method for data-driven constitutive modelling of polymeric parts.
Factors determining retirement decisions of construction workers in Ghana
Authors: Owusu-Manu De-Graft , Ghansah Frank Ato Ato , Kuoribo Ewald , Edwards David John 
Published: October 2021

Purpose
Efficient decision-making must be reinvigorated to make a good decision towards retirement by construction workers. In developing countries such as Ghana, researchers conducted investigations into the effects of investing in retirement decision-making and planning, but none has considered to examine and identify the factors/determinants influencing efficient decision-making by construction workers towards retirement. This study aims to examine and identify the determinants/factors that affect the retirement decision-making of construction workers in developing countries such as Ghana.

Design/methodology/approach
This study used primary data collected from workers of four construction companies in Ghana. The sampling technique adopted for the study was a purposive sample approach, with a survey questionnaire as a collection instrument. Means score was adopted to reveal the major determinant/factor prioritized by the respondents while binary logistic regression was used to examine and identify the effect of the retirement determinants on the retirement decision of construction workers.

Findings
The findings established the main significant determinants impacting retirement decision, namely, “financial condition,” “homeownership,” “age” and “family issues.” Among the determinants, “financial condition” was revealed as the major determinant of retirement decision-making in the construction industry of developing countries, which is an economic condition by which the workers can easily secure credit.

Practical implications
Practically, the outcome of this study serves as a base for policymakers and practitioners in making decisions concerning the retirement of workers, especially construction workers. This study also serves to provide lesson for other classifications of workers aside from the construction workers in Ghana and other developing countries.

Originality/value
This study contributes to knowledge by filling in the lacuna in research by examining and identifying the determinants/factors that impact the efficient decision-making by construction workers in developing countries towards retirement.
Rebuilding public trust through the lens of corporate culture: an inevitable necessity to sustain business success in Australia
Authors: Begum Afroza 
Published: October 2021

Purpose
This paper aims to promote corporate culture (CC) of compliance to ensure responsible business by motivating self-felt and self-imposed strategies by corporations in Australia. It argues that the way “legal compliance” is pursued in Australia may develop undesirable features within corporate internal affairs ranging from adverse reactions to resentment rationalising or concealing of misconduct. This study showcases that the integration of corporation and ethical values in the compliance governance is inevitable to sustain productive CC and public trust in businesses.

Design/methodology/approach
This research is based on existing primary and secondary legal resources and different reports, including the Royal Commission’s Report 2019 and public submissions. It attempts to establish a claim that a self-felt and self-motivated approach to legal compliance contemplated by commitment and devotion to the company, and its consumers instead of external control can achieve consistent and positive outcomes that benefit both the company and its stakeholders.

Findings
While the sanction-deterrence based legal directives provide a strong and sophisticated foundation for detecting and punishing inappropriate culture and have traditionally been effective in fostering compliance, the inclusion of ethical values in the regulatory approach and self-led corporate strategies are required to stimulate sustained compliance, accountability and public trust.

Practical implications
There has been a dearth of intellectual inquiries (to the best of the author’s knowledge) about the role of CC and self-imposed corporate strategies in ensuring legal compliance. This paper will contribute to filling this gap in the legal literature and the wider academic deliberation on the standard and effectiveness of CC.

Originality/value
This research is the author’s original work and has not been submitted elsewhere for publication.
Behavioral operations management and supply chain coordination mechanisms: a systematic review and classification of the literature
Authors: Goudarzi Fatemeh Sahar , Bergey Paul , Olaru Doina 
Published: October 2021

Purpose
The recent surge in behavioral studies on the coordination mechanisms in supply chains (SCs) and advanced methods highlights the role of SC coordination (SCC) and behavioral issues associated with improving the performance of the operations. This study aims to critically review the behavioral aspect of channel coordination mechanisms.

Design/methodology/approach
Following a systematic literature review methodology, the authors adopt a combination of bibliometric (to reflect the current state of the field), content (using Leximancer data mining software to develop thematic maps) and theory-oriented qualitative analyzes that provide a holistic conceptual framework to unify the literature’s critical concepts.

Findings
The analysis confirms the plethora of risk-oriented publications, demonstrating that the second largest category of studies is concerned with social preferences theory. Most studies were based on experiments, followed by analytical modeling, revealing the impact of heuristics and individual preferences in SC decisions and suggesting promising managerial and theoretical avenues for future research.

Originality/value
The study sheds light on behavioral decision theories applied to SC coordination by categorizing the literature based on the adopted theories. The methodological contributions include using automated content analysis and validating the outcome by interviewing leading scholars conducting active research on “behavioral operations management and SC contracts.” The authors also propose several directions for future research based on the research gaps.
Multiple brain abscesses due to Listeria monocytogenes infection in a patient with systemic lupus erythematosus: A case report and literature review
Authors: Zhang Na , Sun Wenwen , Zhou Lei , Chen Ming , Dong Xiaoying , Wei Wei 
Published: October 2021

AbstractAimTo review the clinical features of systemic lupus erythematosus (SLE) complicated by central nervous system (CNS) infection due to Listeria monocytogenes.MethodA patient with SLE receiving high‐dose glucocorticoids combined with cyclophosphamide who developed multiple brain abscesses due to Listeria infection is described. The case is compared with known cases in a literature review.ResultsA review of the literature showed that CNS infections are rare bacterial complications of SLE, but they can be a significant cause of mortality, especially those due to L. monocytogenes. The most significant risk factor for listerial meningitis is a prior history of receiving immunosuppressive therapy. At‐risk patients should avoid unpasteurized milk and soft cheeses along with deli‐style, ready‐to‐eat prepared meats, particularly poultry products. The case we report is the fifth SLE patient with multiple brain abscesses due to L. monocytogenes, and the first to be discharged with no sequelae. Timely and accurate identification and treatment of CNS infections and neuropsychiatric lupus are very important for favorable disease prognosis.ConclusionRepeated blood culture is helpful for early diagnosis, and empirical anti‐infective treatment that covers L. monocytogenes is recommended for SLE patients with risk factors when CNS infection occurs. A comprehensive assessment might be helpful to distinguish CNS infections from neuropsychiatric SLE. For severe infection, the dosage of steroids does not need to be reduced immediately but can be gradually adjusted based on the results of a comprehensive evaluation of the disease.
Matthew or compensatory effects? Factors that influence the math literacy of primary‐school children in Germany
Authors: Herrmann Sonja , Meissner Christian , Nussbaumer Madita , Ditton Hartmut 
Published: October 2021

Background and aimsThis study focuses on individual differences in the math competencies of primary‐school children in Germany. It considers whether or not there are Matthew or compensatory effects in math literacy and which factors and background characteristics of primary‐school children can affect competence development. Despite the abundant research on this topic, the findings are often ambiguous, and studies in the German context are sparse.Sample and methodsWe used the Starting Cohort 2 of the German National Educational Panel Study and a weighted multilevel mixed‐effects panel regression for our analyses (N = 4,982).ResultsOur results revealed compensatory effects for low‐achieving students in math literacy. There were also small gender differences, but lower achieving girls can close the gap with boys during primary school. With respect to the educational background of the parents, almost no longitudinal effects were observed.ConclusionsThe results indicated that the joint primary‐school period has a compensatory effect on lower performing students. However, higher achieving students retained their lead, implying that social inequalities persist to some extent.