bluuebunny/crossref_metadata_2025_split huggingface dataset:
A-70 Association of Resilience With Academic and Social Concerns in School Aged Children With Codncussion
Authors: Woods C , Hicks C , Bunt S , Tamez I , Stokes M , Hynan L , Cullum C M , Didehbani N , Miller S , Bell K 
Published: June 2023

Abstract

Purpose
Investigate the association between perceived resilience and academic and social concerns expressed by children and adolescents following concussion.

Methods
This prospective cohort study at North Texas Concussion Registry (CONTEX) clinics included 330 participants aged 5 to 17 diagnosed with concussion. At an initial clinical visit, patients completed the Brief Resilience Scale (BRS) to measure self-perceived pre-injury resilience. Patients were categorized into Low (BRS=1.00-2.99), Average (BRS=3.00 to 4.30), and High (BRS=4.31- 5.00) resilience groups. Participants completed the Concussion Learning Assessment and School Survey (CLASS) 3 months after enrollment. Specific academic/social concerns measured by the CLASS were categorized as either "no concern/stress" or "some level of concern/stress.” Chi-square analysis was used to investigate the association between initial pre-injury resilience and concern/stress.

Results
Higher resilience was associated with less concern about the injury affecting school learning and performance (χ2(2,329)= 11.65, p=.003), less stress regarding support at home from parents/siblings (χ2(2,330)= 8.60, p=.014), less stress from being overwhelmed by schoolwork piling up (χ2=9.46, p=.009) and grades dropping (χ2(2,330)= 13.29, p=.001). Lower resilience was associated with greater stress from missing time with friends and/or social activities (χ2(2,330)=8.37 p=.015) and not having enough support from teachers (χ2(2,330)=8.49, p=.014).

Conclusions
Resilience may be associated with academic and social concerns in children and adolescents with concussion. Children with a higher perceived resilience may have better outcomes in terms of their academic and social concerns following concussion. Further studies are necessary to confirm these findings and determine the potential clinical implications.
Production of recombinant His-tagged triple-FLAG peptide in Brevibacillus choshinensis and its utilization as an easy-to-remove affinity peptide
Authors: Sugihara Daiki , Ono Fuka , Sugino Motoki , Suzuki Hiromi , Endo Noriko , Shimada Atsuhiro , Ebihara Akio 
Published: June 2023

ABSTRACT
Triple-FLAG (3 × FLAG)-tagged proteins can be affinity purified through binding to an anti-FLAG antibody and competitive elution with excess free 3 × FLAG peptide. To expand the availability of the 3 × FLAG purification system, we produced a recombinant His-tagged 3 × FLAG peptide in Brevibacillus choshinensis. The screening of connecting linkers between His-tag and the 3 × FLAG peptide, culture containers, and culture media showed that the His-tagged 3 × FLAG peptide with an LA linker was most expressed in 2SY medium using a baffled shake flask. The peptide was affinity-purified to give a yield of about 25 mg/L of culture. The peptide was effective for eluting 3 × FLAG-tagged α-amylase from anti-FLAG magnetic beads. Finally, the peptide remaining in the amylase fraction was removed by His-tag affinity purification. These results show that the recombinant His-tagged 3 × FLAG peptide can function as an easy-to-remove affinity peptide in the 3 × FLAG purification system.
MPCLCDA: predicting circRNA–disease associations by using automatically selected meta-path and contrastive learning
Authors: Liu Wei , Tang Ting , Lu Xu , Fu Xiangzheng , Yang Yu , Peng Li 
Published: June 2023

Abstract
Circular RNA (circRNA) is closely associated with human diseases. Accordingly, identifying the associations between human diseases and circRNA can help in disease prevention, diagnosis and treatment. Traditional methods are time consuming and laborious. Meanwhile, computational models can effectively predict potential circRNA–disease associations (CDAs), but are restricted by limited data, resulting in data with high dimension and imbalance. In this study, we propose a model based on automatically selected meta-path and contrastive learning, called the MPCLCDA model. First, the model constructs a new heterogeneous network based on circRNA similarity, disease similarity and known association, via automatically selected meta-path and obtains the low-dimensional fusion features of nodes via graph convolutional networks. Then, contrastive learning is used to optimize the fusion features further, and obtain the node features that make the distinction between positive and negative samples more evident. Finally, circRNA–disease scores are predicted through a multilayer perceptron. The proposed method is compared with advanced methods on four datasets. The average area under the receiver operating characteristic curve, area under the precision-recall curve and F1 score under 5-fold cross-validation reached 0.9752, 0.9831 and 0.9745, respectively. Simultaneously, case studies on human diseases further prove the predictive ability and application value of this method.
A feature extraction free approach for protein interactome inference from co-elution data
Authors: Chen Yu-Hsin , Chao Kuan-Hao , Wong Jin Yung , Liu Chien-Fu , Leu Jun-Yi , Tsai Huai-Kuang 
Published: June 2023

Abstract
Protein complexes are key functional units in cellular processes. High-throughput techniques, such as co-fractionation coupled with mass spectrometry (CF-MS), have advanced protein complex studies by enabling global interactome inference. However, dealing with complex fractionation characteristics to define true interactions is not a simple task, since CF-MS is prone to false positives due to the co-elution of non-interacting proteins by chance. Several computational methods have been designed to analyze CF-MS data and construct probabilistic protein–protein interaction (PPI) networks. Current methods usually first infer PPIs based on handcrafted CF-MS features, and then use clustering algorithms to form potential protein complexes. While powerful, these methods suffer from the potential bias of handcrafted features and severely imbalanced data distribution. However, the handcrafted features based on domain knowledge might introduce bias, and current methods also tend to overfit due to the severely imbalanced PPI data. To address these issues, we present a balanced end-to-end learning architecture, Software for Prediction of Interactome with Feature-extraction Free Elution Data (SPIFFED), to integrate feature representation from raw CF-MS data and interactome prediction by convolutional neural network. SPIFFED outperforms the state-of-the-art methods in predicting PPIs under the conventional imbalanced training. When trained with balanced data, SPIFFED had greatly improved sensitivity for true PPIs. Moreover, the ensemble SPIFFED model provides different voting schemes to integrate predicted PPIs from multiple CF-MS data. Using the clustering software (i.e. ClusterONE), SPIFFED allows users to infer high-confidence protein complexes depending on the CF-MS experimental designs. The source code of SPIFFED is freely available at: https://github.com/bio-it-station/SPIFFED.
DeepSTF: predicting transcription factor binding sites by interpretable deep neural networks combining sequence and shape
Authors: Ding Pengju , Wang Yifei , Zhang Xinyu , Gao Xin , Liu Guozhu , Yu Bin 
Published: June 2023

Abstract
Precise targeting of transcription factor binding sites (TFBSs) is essential to comprehending transcriptional regulatory processes and investigating cellular function. Although several deep learning algorithms have been created to predict TFBSs, the models’ intrinsic mechanisms and prediction results are difficult to explain. There is still room for improvement in prediction performance. We present DeepSTF, a unique deep-learning architecture for predicting TFBSs by integrating DNA sequence and shape profiles. We use the improved transformer encoder structure for the first time in the TFBSs prediction approach. DeepSTF extracts DNA higher-order sequence features using stacked convolutional neural networks (CNNs), whereas rich DNA shape profiles are extracted by combining improved transformer encoder structure and bidirectional long short-term memory (Bi-LSTM), and, finally, the derived higher-order sequence features and representative shape profiles are integrated into the channel dimension to achieve accurate TFBSs prediction. Experiments on 165 ENCODE chromatin immunoprecipitation sequencing (ChIP-seq) datasets show that DeepSTF considerably outperforms several state-of-the-art algorithms in predicting TFBSs, and we explain the usefulness of the transformer encoder structure and the combined strategy using sequence features and shape profiles in capturing multiple dependencies and learning essential features. In addition, this paper examines the significance of DNA shape features predicting TFBSs. The source code of DeepSTF is available at https://github.com/YuBinLab-QUST/DeepSTF/.
Side-by-side Comparative Study of the Immunogenicity of the Intramuscular and Intradermal Rabies Post-exposure Prophylaxis Regimens in a Cohort of Suspected Rabies Virus Exposed Individuals
Authors: Auerswald Heidi , Maestri Alvino , Touch Sothy , In Saraden , Ya Nisa , Heng Borita , Bosch-Castells Valérie , Augard Christele , Petit Céline , Dussart Philippe , Peng Yiksing , Cantaert Tineke , Ly Sowath 
Published: June 2023

Abstract
All World Health Organization (WHO) pre-qualified rabies vaccines for humans are inactivated tissue culture rabies virus formulations produced for intramuscular (IM) administration. Due to costs and vaccine shortage, dose-saving intradermal (ID) administration of rabies post-exposure prophylaxis (PEP) is encouraged by WHO. This study compared the immunogenicity of the ID 2-site, 3-visit Institut Pasteur Cambodge (IPC) PEP regimen to the IM 1-site, 4-visit 4-dose Essen regimen using Verorab vaccine (Sanofi). The development of neutralizing antibodies (nAbs) and T cell response was assessed in 210 patients with a category II or III animal exposure in a rabies-endemic country. At day 28, all participants developed nAbs (≥0.5 IU/mL), irrespective of PEP scheme, age, or administration of rabies immunoglobulin. T cell response and nAb titers were similar for both PEP schemes. This study demonstrated that the 1-week ID IPC regimen is as effective as the 2-week IM 4-dose Essen regimen in inducing an anti-rabies immune response under real-life PEP.
A Toolbox for Migrating the Blockchain-Based Application From Ethereum to Hyperledger Fabric
Authors: Zhai Zhonghao , Shen Subin , Mao Yanqin 
Published: June 2023

Abstract
The low transaction capacity, high transaction cost and long-term privacy concerns of the current Ethereum platform are notorious. Developers are seeking alternative blockchain platforms to migrate their blockchain-based applications to reduce their applications’ use-cost and improve their applications’ user experience. The Hyperledger Fabric (HLF) platform with resiliency, flexibility, scalability and confidentiality is preferred for developers to migrate their Ethereum blockchain-based applications. However, it is laborious for developers to migrate blockchain-based applications from the Ethereum platform to the HLF platform. In this paper, we first propose a complete and secure migration solution to ease the migration process. The main idea of our solution is to design a toolbox to help developers automatically eliminate the adverse effects that the differences between Ethereum and HLF may bring to the migrated application. Developers with the toolbox can migrate the application with little time and minimal modification. It is theoretically proved that the migrated application with the toolbox is secure. Besides, a prototype of the toolbox is implemented. The extensive experiments demonstrate that the time for the migration process is acceptable, and the toolbox has little impact on the migrated application’s performance.
From “the” public sphere to a network of publics: towards an empirically founded model of contemporary public communication spaces
Authors: Bruns Axel 
Published: June 2023

Abstract“The” public sphere is now irretrievably fractured into a multiplicity of online and offline, larger and smaller, more or less public spaces that frequently (and often serendipitously) overlap and intersect with one another. This diverse array of what have been described variously as public spheres, public spherules, platform publics, issue publics, or personal publics nonetheless serves many of the same functions that were postulated for the public sphere itself. However, while the communicative structures, functions, and dynamics of many such spaces have been studied in isolation, we still lack a more comprehensive model that connects such case studies in pursuit of an overarching perspective. This article sets out a fundamental toolkit for the development of such an empirically founded model of the contemporary spaces for public communication. It identifies the crucial conceptual building blocks and empirical approaches that may be combined to produce genuinely new insights into how the network of such spaces is structured, and in turn structures our everyday experience of public communication.
Blue orchard bee (Hymenoptera: Megachilidae) origin and orchard growing region affect female retention at artificial nest sites in cherry orchards
Authors: Scalici Morgan B , McCabe Lindsie M , Alston Diane G , Peterson Stephen S , Yost Matt , Pitts-Singer Theresa L 
Published: June 2023

Abstract
The blue orchard bee, Osmia lignaria Say (Hymenoptera: Megachilidae), is a solitary, cavity-nesting species used for pollinating spring blooming crops. Commercial stocks are sourced from a few locations in the western United States but are sold across the country. However, the existence of local adaptations of these bees is unknown, such as the propensity to nest in nearby provided materials or to disperse broadly beyond release sites. In spring 2019, California- and Utah-sourced blue orchard bees were introduced into cherry orchards in both source and reciprocal states. Nest boxes were placed near (within 78 m) and far (500 m–1 km) from central bee release points. Paint-marked bees were released when floral resources were available. Observations of marked bees at nest boxes were used to evaluate female retention and dispersal pattern. Nesting bee counts in March-blooming California orchards revealed a significant difference in female retention by population source; over twice as many UT bees established nests than did CA bees. Few females were found at far nest sites. In May-blooming Utah orchards, counts of CA and UT bees were similar at near and far nest sites; neither female retention nor dispersal was significantly affected by bee origin. It is concerning that CA females were less likely to be retained in California orchards because the demand for commercial pollination is high for early-blooming California almond and cherry. Our results highlight the need to understand potential consequences of bee origin and their management on pollinator performance and reproduction in target crops.
State of the art post-cardiac arrest care: evolution and future of post cardiac arrest care
Authors: Grand Johannes , Hassager Christian 
Published: June 2023

Abstract
Out-of-hospital cardiac arrest is a leading cause of mortality. In the pre-hospital setting, bystander response with cardiopulmonary resuscitation and the use of publicly available automated external defibrillators have been associated with improved survival. Early in-hospital treatment still focuses on emergency coronary angiography for selected patients. For patients remaining comatose, temperature control to avoid fever is still recommended, but former hypothermic targets have been abandoned. For patients without spontaneous awakening, the use of a multimodal prognostication model is key. After discharge, follow-up with screening for cognitive and emotional disabilities is recommended. There has been an incredible evolution of research on cardiac arrest. Two decades ago, the largest trials include a few hundred patients. Today, undergoing studies are planning to include 10–20 times as many patients, with improved methodology. This article describes the evolution and perspectives for the future in post-cardiac arrest care.
Triglycerides revisited: is hypertriglyceridaemia a necessary therapeutic target in cardiovascular disease?
Authors: Drexel Heinz , Tamargo Juan , Kaski Juan Carlos , Lewis Basil S , Saely Christoph H , Fraunberger Peter , Dobrev Dobromir , Komiyama Maki , Plattner Thomas , Agewall Stefan , Hasegawa Koji 
Published: June 2023

Abstract
Despite the atherosclerotic cardiovascular disease (ASCVD) risk reduction achieved by low-density lipoprotein cholesterol (LDL-C) lowering therapy, residual ASCVD risk still exists. Previous epidemiological studies have suggested high plasma triglyceride (TG) levels as a risk factor or risk marker for ASCVD independent of LDL-C levels. In this review, we highlighted the underlying pathophysiology of hypertriglyceridaemia, the mechanistic action of therapeutic agents, the interpretation of conflicting results on recent clinical trials, and the present options for primary and secondary prevention. The benefits of fibrates-induced reduction in TG and increase in high-density lipoprotein cholesterol might outweigh the disadvantages of increasing LDL-C levels in primary prevention. In secondary CVD prevention, using eicosapentaenoic acid without docosahexaenoic acid, in addition to statins, will be beneficial. This comprehensive review may prove useful for the development of novel approaches that target hypertriglyceridaemia in future.
Organ ischaemia after thoracic endovascular aortic repair
Authors: Franchin Marco , Mauri Francesca , Fontana Federico , Piacentino Filippo , Guzzetti Luca , Jubouri Matti , Bashir Mohamad , Piffaretti Gabriele 
Published: June 2023

Abstract

OBJECTIVES
The aim of this study was to evaluate the incidence and outcomes of ischaemic organ complications after thoracic endovascular aortic repair (TEVAR).

METHODS
This is a multicentre, retrospective, observational cohort study. We analysed data from patients treated with TEVAR between 22 June 2001 and 10 December 2022. Primary outcomes were postoperative overall organ ischaemic complications and early (≤30 days) survival. Secondary outcomes were long-term survival and freedom from aorta-related mortality.

RESULTS
A total of 255 patients were included in this study. We performed 233 (91.4%) isolated TEVARs, 14 (5.5%) fenestrated or branched TEVARs and 8 (3.1%) TEVARs in combination with normal infrarenal stent graft. Overall, 31 organ ischaemic complications were detected in 29 (11.4%) cases, out of which 8 (3.1%) complications were cerebrovascular, 8 (3.1%) spinal cord, 6 (2.3%) visceral, 4 (1.6%) renal, 2 (0.8%) peripheral and 3 (1.2%) myocardial. Binary logistic regression analysis identified grade III–IV aortic arch atheroma [odds ratio (OR): 6.6, P = 0.001; 95% confidence interval: 2.9–14.9] and shaggy aorta (OR: 12.1, P = 0.003; 95% confidence interval: 2.3–64.1) to be associated with the development of organ ischaemic complications. In patients with organ ischaemia, we observed higher early (≤30 days) mortality (20.7% vs 6.2%; OR: 3.6, P = 0.016), prolonged hospitalization (P = 0.001) and inferior estimated survival (log-rank, P = 0.001).

CONCLUSIONS
Aortic arch atherosclerotic overload as well as the presence of shaggy aorta are predictors of organ ischaemic complications following TEVAR. They are neither uncommon nor negligible and are associated with perioperative mortality, prolonged hospitalization and a negative impact on long-term survival.
Epigenetic effects of short-chain fatty acids from the large intestine on host cells
Authors: Stein Richard A , Riber Leise 
Published: June 2023

AbstractAdult humans harbor at least as many microbial cells as eukaryotic ones. The largest compartment of this diverse microbial population, the gut microbiota, encompasses the collection of bacteria, archaea, viruses, and eukaryotic organisms that populate the gastrointestinal tract, and represents a complex and dynamic ecosystem that has been increasingly implicated in health and disease. The gut microbiota carries ∼100-to-150-times more genes than the human genome and is intimately involved in development, homeostasis, and disease. Of the several microbial metabolites that have been studied, short-chain fatty acids emerge as a group of molecules that shape gene expression in several types of eukaryotic cells by multiple mechanisms, which include DNA methylation changes, histone post-translational modifications, and microRNA-mediated gene silencing. Butyric acid, one of the most extensively studied short-chain fatty acids, reaches higher concentrations in the colonic lumen, where it provides a source of energy for healthy colonocytes, and its concentrations decrease towards the bottom of the colonic crypts, where stem cells reside. The lower butyric acid concentration in the colonic crypts allows undifferentiated cells, such as stem cells, to progress through the cell cycle, pointing towards the importance of the crypts in providing them with a protective niche. In cancerous colonocytes, which metabolize relatively little butyric acid and mostly rely on glycolysis, butyric acid preferentially acts as a histone deacetylase inhibitor, leading to decreased cell proliferation and increased apoptosis. A better understanding of the interface between the gut microbiota metabolites and epigenetic changes in eukaryotic cells promises to unravel in more detail processes that occur physiologically and as part of disease, help develop novel biomarkers, and identify new therapeutic modalities.
Gendering the Material Renaissance: Women, Industriousness and the Female Body at the Court of Württemberg
Authors: Hanß Stefan 
Published: June 2023

Abstract
Focusing on almost 9,000 receipts issued by the ducal chancery of Friedrich I and Johann Friedrich of Württemberg between 1593 and 1628, this article charts the industriousness and material creativity of female makers and consumers in Protestant Württemberg. It provides a detailed discussion of craftswomen’s lives, materials, networks, artefacts and earnings and relates them to the duchesses’ strategies of consumption. The article examines women’s embodied creative material engagement in an increasingly diversified consumerist world, more specifically the material practices, communities and regimes of female industriousness at the court of Württemberg. By conceptualizing female industriousness in bodily, material and gendered terms and in regard to the overlapping worlds of production and consumption, this article charts women’s entrepreneurial role in shaping material lives at this Lutheran court around 1600.