bluuebunny/crossref_metadata_2025_split huggingface dataset:
Comment-enriched index terms improve the relevance and novelty of the ranking of the commented medical articles retrieved by an NLP system
Authors: Rashidi Kianoosh , Sotudeh Hajar , Nikseresht Alireza 
Published: December 2022

PurposeThis study aimed to investigate how the enrichment of medical documents' index terms by their comments improves the relevance and novelty of the top-ranked results retrieved by an NLP system.Design/methodology/approachA semi-experimental pre-test and post-test research was designed to compare NLP-based indexes before and after being expanded by the comment terms. The experiments were conducted on a test collection of 13,957 documents commented by F1000-Prime reviewers. They were indexed at title, abstract, body and full-text levels. In total, 100 seed documents were randomly selected and served as queries. The textual similarity of the documents and queries was calculated using Lucene-more-like-this function and evaluated by the semantic similarity of their MeSH. The results novelty was measured using maximal marginal relevance and evaluated by their MeSH novelties. Normalized discounted cumulative gain was used to compare the basic and expanded indexes' precisions at 10, 20 and 50 top ranks.FindingsThe relevance and novelty of the results ranked at the top precision points was improved after expanding the indexes by the comment terms. The finding implies that meta-texts are effective in representing their mother documents, by adding dynamic elements to their rather static contents. It also provides further evidence about the merits of the application of social intelligence and collective wisdom reflected in the actions and reactions of users in tackling the challenges faced by NLP-based systems.Originality/valueThis is the first study to confirm that social comments on scientific papers improve the performance of information systems in terms of relevance and novelty.Peer reviewThe peer review history for this article is available at: https://publons.com/publon/10.1108/OIR-05-2022-0283.
Growth dynamics and transcriptional responses of a Red SeaProchlorococcus strain to varying temperatures
Authors: Labban Abbrar , Shibl Ahmed A. , Calleja Maria Ll. , Hong Pei‐Ying , Morán Xosé Anxelu G. 
Published: December 2022

AbstractProchlorococcus play a crucial role in the ocean's biogeochemical cycling, but it remains controversial how they will respond to global warming. Here we assessed the response to temperature (22–30°C) of the growth dynamics and gene expression profiles of a Red Sea Prochlorococcus strain (RSP50) in a non‐axenic culture. Both the specific growth rate (0.55–0.80 day−1) and cell size (0.04–0.07 μm3) of Prochlorococcus increased significantly with temperature. The primary production released extracellularly ranged from 20% to 34%, with humic‐like fluorescent compounds increasing up to fivefold as Prochlorococcus reached its maximum abundance. At 30°C, genes involved in carbon fixation such as CsoS2 and CsoS3 and photosynthetic electron transport including PTOX were downregulated, suggesting a cellular homeostasis and energy saving mechanism response. In contrast, PTOX was found upregulated at 22°C and 24°C. Similar results were found for transaldolase, related to carbon metabolism, and citrate synthase, an important enzyme in the TCA cycle. Our data suggest that in spite of the currently warm temperatures of the Red Sea, Prochlorococcus can modulate its gene expression profiles to permit growth at temperatures lower than its optimum temperature (28°C) but is unable to cope with temperatures exceeding 30°C.
Screening of natural phenazine producers for electroactivity in bioelectrochemical systems
Authors: Franco Angel , Elbahnasy Mahmoud , Rosenbaum Miriam A. 
Published: December 2022

AbstractMediated extracellular electron transfer (EET) might be a great vehicle to connect microbial bioprocesses with electrochemical control in stirred‐tank bioreactors. However, mediated electron transfer to date is not only much less efficient but also much less studied than microbial direct electron transfer to an anode. For example, despite the widespread capacity of pseudomonads to produce phenazine natural products, only Pseudomonas aeruginosa has been studied for its use of phenazines in bioelectrochemical applications. To provide a deeper understanding of the ecological potential for the bioelectrochemical exploitation of phenazines, we here investigated the potential electroactivity of over 100 putative diverse native phenazine producers and the performance within bioelectrochemical systems. Five species from the genera Pseudomonas, Streptomyces, Nocardiopsis, Brevibacterium and Burkholderia were identified as new electroactive bacteria. Electron discharge to the anode and electric current production correlated with the phenazine synthesis of Pseudomonas chlororaphis subsp. aurantiaca. Phenazine‐1‐carboxylic acid was the dominant molecule with a concentration of 86.1 μg/ml mediating an anodic current of 15.1 μA/cm2. On the other hand, Nocardiopsis chromatogenes used a wider range of phenazines at low concentrations and likely yet‐unknown redox compounds to mediate EET, achieving an anodic current of 9.5 μA/cm2. Elucidating the energetic and metabolic usage of phenazines in these and other species might contribute to improving electron discharge and respiration. In the long run, this may enhance oxygen‐limited bioproduction of value‐added compounds based on mediated EET mechanisms.
A novel model to evaluate the fatigue resistance of NiTi instruments: Rotational and axial movement at body temperature
Authors: Baird Evan , Huang Xiangya , Liu He , Hieawy Ahmed , Ruse N. Dorin , Wang Zhejun , Haapasalo Markus , Shen Ya 
Published: December 2022

AbstractTo develop a model to test cyclic fatigue resistance of TruNatomy instruments undergoing rotational and axial movement at body temperature. A total of 288 Prime and Medium instruments were subjected to cyclic fatigue testing in simulated canals (at 37°C) using a model with either rotational movement only or rotational and axial movement simultaneously. Two different sized canals and three different types of curvatures were tested for each instrument (30/0.04 and 30/0.06 for Prime; 38/0.04 and 40/0.06 for Medium). The number of cycles to failure (fatigue resistance) was recorded. Rotational and axial movement of instruments led to greater fatigue resistance compared with rotational movement alone. Apical curvatures led to greater fatigue resistance than curvatures in the coronal and middle third. The developed dynamic model at body temperature to evaluate fatigue resistance of instrument closer simulates clinical scenarios.
Impacts of different Nickel–Titanium rotary and reciprocating root canal preparation systems on the amount of apically extruded debris
Authors: Abduljalil Mohamad , Andac Gizem , Basmaci Fatma 
Published: December 2022

AbstractThis study aimed to evaluate the amount of apically extruded debris caused by different NiTi files. One hundred mandibular premolars were included in this study. The specimens were divided into five groups (n = 20): (i) TruNatomy, (ii) WaveOne Gold, (iii) 2Shape, (iv) ProTaper Next and (v) Reciproc Blue. The extruded debris was collected into preweighed Eppendorf tubes. These tubes were weighed again, and the net weight of debris was calculated. Data were statistically analysed, and the significance level was set at 5%. The least amount of extruded debris was observed in the TruNatomy group (p < 0.05). Statistically significant differences were not found among (iii), (iv) and (v) groups (p > 0.05). However, these groups resulted in significantly higher amounts of debris when compared to (i) and (ii) groups (p < 0.05). The results lead us to conclude that all instrumentation systems caused apical extrusion of debris at varying weights.
Religiosity and hazardous substance use: The moderating role of trauma‐related shame
Authors: Channell Isabella , Thomas Emmanuel D. , Forkus Shannon R. , Salvatore Gianna , Vieira Monica , Weiss Nicole H. 
Published: December 2022

AbstractBackground and ObjectivesHazardous substance use is a major public health concern among individuals with a history of sexual victimization. Although increased religiosity has been known to serve as a protective factor against hazardous substance use, religious individuals with a history of sexual victimization may be at a greater risk for hazardous substance use due to difficulties reconciling sexual victimization with their religious beliefs. Individuals with greater trauma‐related shame may engage in hazardous substance use as a means of coping with the traumatic event.MethodThe present study consisted of 614 participants (Mage = 34.57, 50% women).ResultsResults suggested that organizational, nonorganizational, and intrinsic religiosity were positively associated with hazardous alcohol use at higher, but not lower, levels of trauma‐related shame. Organizational and intrinsic religiosity were positively associated with hazardous drug use at higher, but not lower, levels of trauma‐related shame.Conclusions and Scientific SignificanceThis is the first study to examine the role of trauma‐related shame in the relationship between religiosity and hazardous substance use. The findings underline the importance of targeting trauma‐related shame in religious individuals with a history of sexual victimization.
Morphological and biochemical analysis of cells cultured on fibrous poly(ε‐caprolactone) scaffolds with different degrees of fiber alignment produced by solution blow spinning
Authors: França Regina C. A. S. , Simbara Marcia M. O. , Malmonge Sônia M. , Santos Arnaldo R. 
Published: December 2022

AbstractBackgroundBioresorbable materials are compounds that decompose in physiological mediums both in vitro and in vivo and are used as an alternative to temporary implants in injured tissues. The aim of this study was to analyze the morphology and cytochemistry of cells grown on fibrous poly(ε‐caprolactone) (PCL) scaffolds and to measure cell metabolism parameters by biochemical analysis of the conditioned culture medium from cells grown on the scaffolds.MethodsFibrous PCL scaffolds were used under the following conditions: unaligned fibers (NA), fibers aligned at 150 rpm (A150), and fibers aligned at 300 rpm (A300). Vero cells were cultured on these scaffolds for 24 h, 48 h, and 72 h. Samples were analyzed by SEM, MicroCT, cytochemistry, and culture medium biochemistry.ResultsThe results of the cytochemical analysis showed cells were confluent and well spread on the culture plate, while cells grown on the polymeric scaffold, exhibited an elongated morphology. In the biochemical analyses, no significant differences were observed in the expression of alkaline phosphatase or in the levels of cholesterol or total protein in the culture medium. The different materials do not seem to promote changes in the expression or metabolism of these molecules. Only glucose was markedly reduced in the culture medium of cells grown on either aligned or unaligned scaffolds for 48 h or 72 h. This finding indicates the intense energy requirements of cells grown on these scaffolds.ConclusionPCL fibers showed a great capacity to support cell growth. These data reinforce the interpretation that cells grow satisfactorily on PCL scaffolds.
Review article: diagnosis, pathophysiology and management of atrial fibrillation in cirrhosis and portal hypertension
Authors: Vandenberk Bert , Altieri Mario H. , Liu Hongqun , Raj Satish R. , Lee Samuel S. 
Published: December 2022

SummaryBackgroundAtrial fibrillation (AF) is the most common arrhythmia and its management in cirrhosis can be challenging due to the altered hepatic metabolism of medications and increased risk of bleeding.AimsTo provide a comprehensive overview of the diagnosis, pathophysiology and management of AF in patients with cirrhosis from both a cardiology and a hepatology perspective.MethodsAn extensive literature search was performed using the terms ‘atrial fibrillation’ and ‘cirrhosis’. Guideline documents and consensus statements were explored.ResultsThe prevalence of AF in patients with cirrhosis ranges between 6.6% and 14.2%, while the incidence of new‐onset AF in the post‐operative period after liver transplant ranged between 6.8% and 10.2%. AF in patients with cirrhosis is associated with adverse outcomes in both pre‐transplant and post‐transplant settings, including an increased risk of stroke when compared to the general population. We review the pathogenesis of AF in general and in cirrhosis. This review also provides guidance on the management of AF, including the use of anticoagulation and rate versus rhythm control. In the absence of strict contraindications, all patients with cirrhosis and AF should be anticoagulated. The use of DOACs is preferred over vitamin K antagonists. In patients with a high bleeding risk, a DOAC with an approved antidote may be preferred.ConclusionsAtrial fibrillation is increased in patients with cirrhosis. AF management requires careful consideration of treatment options. Since patients with cirrhosis were excluded from all major randomised clinical trials, dedicated research on the pathophysiology and management of AF in cirrhosis is needed.
KIAA1429 promotes infantile hemangioma regression by facilitating the stemness of hemangioma endothelial cells
Authors: Wang Luying , Zou Yuqing , Huang Zhishun , Wang Wenjing , Li Jing , Bi Jianhai , Huo Ran 
Published: December 2022

AbstractInfantile hemangiomas are common vascular tumors with a specific natural history. The proliferation and regression mechanism of infantile hemangiomas may be related to the multilineage differentiation ability of hemangioma stem cells, but the specific mechanism is not well elucidated. KIAA1429 is an N6‐methyladenosine methylation‐related protein that can also exert its role in a methylation‐independent manner. This study aims to explore the function of KIAA1429 in infantile hemangiomas. qRT‐PCR, western blotting, and immunostaining were performed to verify the expression of KIAA1429. The endothelial and fibroblast‐like phenotypes of hemangioma endothelial cells were detected after KIAA1429 knockdown and overexpression. The stemness properties of hemangioma endothelial cells and the underlying mechanism of KIAA1429 in hemangiomas were also investigated. Nude mouse models of infantile hemangiomas were conducted to ascertain the effects of KIAA1429 in vivo. The results showed that KIAA1429 was highly expressed in infantile hemangiomas, particularly in involuting hemangiomas. In vitro experiments confirmed that KIAA1429 inhibited the endothelial phenotype, enhanced the differentiation ability, and promoted the fibroblast‐like phenotype of hemangioma endothelial cells by inducing endothelial cell transition to facultative stem cells. However, the effect of KIAA1429 on the potential target was shown to be independent of N6‐methyladenosine methylation modification. Mouse models further revealed that KIAA1429 could inhibit the proliferation and promote the regression of hemangiomas. In conclusion, this study found that KIAA1429 played an important role in the regression of infantile hemangiomas by enhancing the stemness of hemangioma endothelial cells and could be a potential treatment target for infantile hemangiomas.
Keeping Voices in the Room: Values Clarification in Codesign for Equitable Science and Technology Education
Authors: Dixon Colin G. , Hsi Sherry , Van Doren Seth 
Published: December 2022

AbstractWhen engaging issues at the intersection of science and society, science centers, museums and other informal STEM learning organizations struggle to center perspectives of communities most often impacted by the unequal distribution of technologies' benefits and harms. Increasingly, participatory design is being utilized to do this, but the field must continue to refine methods for accessing the expertise of community partners and keeping it present across multiple design stages and products. We share a case study in which a multi‐institution project team, developing resources for educational programming around radio frequency technologies, worked with community design to establish a values foundation that could guide initial planning and ongoing development. We share design methods adapted from values sensitive design and equity‐centered research‐practice partnership, as well as insights relevant to enacting design practice that can build relational equity, leverage data across institutional boundaries, and span locations, platforms and levels of expertise.
Lessons from the implementation of residential methamphetamine contamination policies in New Zealand
Authors: Sanchez Lozano Claudia Denisse , Wilkins Chris , Rychert Marta 
Published: December 2022

AbstractIntroductionMethamphetamine contamination of housing has been discussed as a significant issue in New Zealand. However, scientific evidence to determine a threshold level at which health harms occur is inconclusive, resulting in conflicting and changing guidance. The initial strong precautionary policy, with significant unintended impacts on vulnerable public housing tenants, dramatically changed following a scientific review. This study explores the policy response to residential methamphetamine contamination in New Zealand over the past decade.MethodsThematic analysis of semi‐structured interviews with 13 key stakeholders involved in policy development/implementation, including those from government, industry, residential housing and academic sectors.ResultsConsistent application of a methamphetamine contamination threshold for housing has been problematic due to legislative and regulatory gaps. Stakeholders in the residential sector have been influenced by perceptions of methamphetamine contamination as a health risk, political views on drug use, media coverage and the testing industry's business practices. Public housing tenants have faced disadvantages when resolving methamphetamine contamination disputes. The testing industry's participation in committees shaping the regulatory response presents a possible conflict of interest. Wide media coverage heightened public anxiety about the problem but may also have stimulated policy changes to alleviate unintended consequences of the precautionary approach.Discussion and ConclusionsNew Zealand's fragmented policy response to residential methamphetamine contamination is likely rooted in the lack of scientific evidence, with some key actors further exacerbating the response. Future policy development should seek to produce overarching regulation that guides the whole sector while balancing powers of the stakeholders involved.
Twin‐grasper assisted mucosal inverted closure achieves complete healing of large perforations after gastric endoscopic full‐thickness resection
Authors: Cai Qinbo , Fu Huafeng , Zhang Lele , Shen Minxuan , Yi Shaoxiong , Xie Rongman , Lan Wentong , Dong Wenqing , Chen Xiaolian , Zhang Jie , Hou Xun , He Yulong , Yang Dongjie 
Published: December 2022

ObjectivesThis study aimed to demonstrate the feasibility and safety of a novel twin‐grasper assisted mucosal inverted closure (TAMIC) technique for large perforations after gastric endoscopic full‐thickness resection (EFTR) in a porcine model.MethodsIatrogenic large perforations of the stomach were created and closed by an experienced endoscopist using the TAMIC technique in 12 pigs. Repeat gastroscopy was performed in 4 weeks after surgery to examine the wound sites and then the animals were killed. The primary outcomes were the successful TAMIC closure rate and the complete healing rate. Secondary end points included procedure time of TAMIC, complete inverted healing rate, delayed bleeding rate, and postsurgery perforation. Histologies of the wounds were analyzed by hematoxylin–eosin, Masson trichrome, and immunohistochemistry staining.ResultsThe median size of the defects was 3.5 (range 2.5–4.5) cm. TAMIC was successfully performed in all the 12 pigs. Complete healing was achieved in 11 pigs 4 weeks after operation as one pig died postsurgery due to severe pneumonia. The median procedure time for TAMIC was 39 (range 23–81) min. The complete inverted healing rate was 45.5% (5/11). No delayed bleeding or postsurgery perforation was observed. Histologic analyses showed that both the epithelium and muscularis mucosae layers were appropriately connected under inverted healing.ConclusionsTwin‐grasper assisted mucosal inverted closure is feasible and safe for closure of large perforations after gastric EFTR and could be a propagable and promising technique for clinical practice.
Soil organic carbon under conservation agriculture in Mediterranean and humid subtropical climates: Globalmeta‐analysis
Authors: Tadiello Tommaso , Acutis Marco , Perego Alessia , Schillaci Calogero , Valkama Elena 
Published: December 2022

AbstractConservation agriculture (CA) is an agronomic system based on minimum soil disturbance (no‐tillage, NT), permanent soil cover, and species diversification. The effects of NT on soil organic carbon (SOC) changes have been widely studied, showing somewhat inconsistent conclusions, especially in relation to the Mediterranean and humid subtropical climates. These areas are highly vulnerable and predicted climate change is expected to accentuate desertification and, for these reasons, there is a need for clear agricultural guidelines to preserve or increment SOC. We quantitively summarized the results of 47 studies all around the world in these climates investigating the sources of variation in SOC responses to CA, such as soil characteristics, agricultural management, climate, and geography. Within the climatic area considered, the overall effect of CA on SOC accumulation in the plough layer (0–0.3 m) was 12% greater in comparison to conventional agriculture. On average, this result corresponds to a carbon increase of 0.48 Mg C ha−1 year−1. However, the effect was variable depending on the SOC content under conventional agriculture: it was 20% in soils which had ≤ 40 Mg C ha−1, while it was only 7% in soils that had > 40 Mg C ha−1. We proved that 10 years of CA impact the most on soil with SOC ≤ 40 Mg C ha−1. For soils with less than 40 Mg C ha−1, increasing the proportion of crops with bigger residue biomasses in a CA rotation was a solution to increase SOC. The effect of CA on SOC depended on clay content only in soils with more than 40 Mg C ha−1and become null with a SOC/clay index of 3.2. Annual rainfall (that ranged between 331–1850 mm y−1) and geography had specific effects on SOC depending on its content under conventional agriculture. In conclusion, SOC increments due to CA application can be achieved especially in agricultural soils with less than 40 Mg C ha−1and located in the middle latitudes or in the dry conditions of Mediterranean and humid subtropical climates.HighlightsThe results of 47 studies were quantitively summarized by using a meta‐analysisSOC accumulation due to CA was 12% greater compared to conventional agricultureSOC increment due to CA can reach 20% in soils having less than 40 Mg C ha−1The impacts of pedo‐climatic factors and agronomic management practices were studied