bluuebunny/crossref_metadata_2025_split huggingface dataset:
Wall effects on a falling solid particle in an infinite channel
Authors: Usman K , Walayat K , Mahmood R , Jabeen S 
Published: February 2022

Abstract
We have examined the effects caused on the motion and sedimentation of a free falling solid particle by the hydrodynamic forces acting on the particle’s surface arising when particle is close to wall. Drag and lift coefficients for a settling particle inside a narrow domain are calculated. An Eulerian mesh is adopted for computing the motion of free moving solid particles through the domain. The combined particle and fluid mixture is treated with a fictitious boundary method approach. To avoid particle-wall collisions, an approach proposed by Singh, Glowinsk and coauthors is used to handle such interactions. The particulate flow is computed using multigrid finite element solver FEATFLOW (Finite element analysis tool for flow problems). Numerical experiments are performed by decreasing domain widths for a single falling particle. The size and density of the particle is varied to inspect the particle paths. The behavior of the particle and its interaction with wall while it is moving inside constricted domains is analyzed. Results for the drag and lift forces on the surface of particle are presented and compared with the reference values.
Effect of B2O3 addition on thermal and optical properties of TeO2–ZnO–Bi2O3–TiO2 glasses
Authors: Marzuki Ahmad , Ega Fausta Devara , Saraswati Azmi 
Published: February 2022

Abstract
New tellurite glasses with composition (in mol%): 60TeO2–(30-x)ZnO–5Bi2O3–5TiO2-xB2O3 (where x = 0, 2.5, 5.0, 7.5 and 10.0) were fabricated using conventional melt quenching method. Compositional dependence of the glasses on their density, thermal, refractive index and optical properties were investigated. X-Ray Diffraction analysis was carried out to confirm the nature of the thus formed glasses. Density, refractive index, and absorption spectra were measured at room temperature from which other glass characteristics such as polaron radius, oxygen packing density, field strength, B3+ interatomic distance, band gap energy, and Urbach tail were determined. Thermal characterisation to determine the change in glass transition temperature, glass crystallisation, melting point, and glass stability was carried out using Differential Scanning Calorimetry. A discussion was made in order to understand the results in terms of the ratio of bridging oxygen to non-bridging oxygen ions (BO/NBO). It was found that the addition of B2O3 results in increasing oxygen packing density, glass transition temperature, BO/NBO ratio and band gap energy, while decreasing density, refractive index, field strength, glass stability and Urbach tail energy. With increasing B2O3 concentration density changed from 5.879 to 5.646 g cm−3, refractive index 1.875 to 1.741, working temperature range (ΔT = 66 °C) and phonon energy within the range of 736–740 cm−1.
Sub-realtime simulation of a neuronal network of natural density
Authors: Kurth Anno C , Senk Johanna , Terhorst Dennis , Finnerty Justin , Diesmann Markus 
Published: February 2022

Abstract
Full scale simulations of neuronal network models of the brain are challenging due to the high density of connections between neurons. This contribution reports run times shorter than the simulated span of biological time for a full scale model of the local cortical microcircuit with explicit representation of synapses on a recent conventional compute node. Realtime performance is relevant for robotics and closed-loop applications while sub-realtime is desirable for the study of learning and development in the brain, processes extending over hours and days of biological time.
“Do You Call Yourself a White Man?”
Authors: Klausen Susanne M 
Published: February 2022

Abstract
This essay is about the policing of white male heterosexuality in order to protect whites’ mythical racial purity in South Africa during the apartheid era (1948–94). Contrary to colonial authorities’ practice of turning a blind eye to settler men’s extramarital sexual exploits with colonized women, the apartheid regime attacked white heterosexual men’s patriarchal sexual liberties. In 1950, the National Party government passed the Immorality Amendment Act criminalizing extramarital sex between whites and people of color. Though technically gender neutral, the law was crafted by leaders of the authoritarian and puritanical Afrikaner nationalist movement to stop white heterosexual men from crossing the color line for illicit sex. Tens of thousands of people were arrested for contravening the law, and while its enforcement inflicted tremendous harm and hardship on women of color, it was white men, often Afrikaner themselves, who made up the single largest category of individuals prosecuted and convicted. This essay examines the origins of the law, state methods of enforcement, and some of the harmful gendered social consequences of its brutal application.
Development of a Crosswalk to Translate Italian Occupation Codes to ISCO-68 Codes
Authors: Spinazzè Andrea , Consonni Dario , Borghi Francesca , Mazzucchelli Libero Andrea , Rovelli Sabrina , Cattaneo Andrea , Zellino Carolina , Dallari Barbara , Pesatori Angela Cecilia , Kromhout Hans , Peters Susan , Riboldi Luciano , Mensi Carolina , Cavallo Domenico Maria 
Published: February 2022

Abstract
In occupational epidemiology, job coding is an important—but time-consuming—step in assigning exposure. We implemented a tool (i.e. a crosswalk) to translate occupation codes from the Italian (ISTAT-CIP-91, n = 6319 five-digit job codes) to the International Standard Classification of Occupations (ISCO-68, n = 1881 five-digit job codes). The former is currently used in Italy for various purposes (e.g. in the National Mesothelioma Registry). The latter has been used in several studies on occupational cancers because it facilitates communication of results to the scientific community and, most importantly, because some job exposure matrices (JEMs) are based on international codes. Three authors created a table containing the crosswalk structure, providing an interpretation for each of the ISTAT-CIP-91 codes job descriptions and then manually recoding them according to ISCO-68. Two other authors independently revised it. The performance of the final version was assessed by comparison with results obtained by manual ISCO-68 coding performed in two previous case-control studies on asbestos and mesothelioma. More specifically, the automatically obtained ISCO-68 codes were merged with a JEM (DOM-JEM). The resulting individual asbestos exposure estimates (ever versus never exposed) were compared to those originally obtained (using the same DOM-JEM) from manual translation of ISTAT-CIP-91 to ISCO-68 (considered as the ‘gold standard’). In the first study, among 159 peritoneal mesothelioma cases (400 job codes), Cohen’s kappa was 0.91, sensitivity 0.95, and specificity 0.96. In the second study, among 716 pleural mesothelioma cases and controls (4400 job codes) kappa was 0.86, sensitivity 0.94, and specificity 0.91. Performance was better among in women. For men, performance was lower among cases than among controls (kappa 0.70, sensitivity 0.95, specificity 0.72 versus kappa 0.87, sensitivity 0.97, and specificity 0.92). In conclusion, the proposed tool allowed a rapid translation of thousands of job codes with good to excellent accuracy. The table containing ISTAT-CIP-91 codes and job descriptions and the corresponding ISCO-68 codes and job descriptions is made publicly available and can be freely used for epidemiological analyses in Italy and international collaborations.
Rhizome trait scaling relationships are modulated by growth conditions and are linked to plant fitness
Authors: Thakur Dinesh , Münzbergová Zuzana 
Published: February 2022

Abstract

Background and Aims
Rhizomes are important organs allowing many clonal plants to persist and reproduce under stressful climates with longer rhizomes, indicating enhanced ability of the plants to spread vegetatively. We do not, however, know either how rhizome construction costs change with increasing length or how they vary with environmental conditions.

Methods
We analysed the rhizome length vs. mass scaling relationship, the plasticity in the scaling relationships, their genetic basis and how scaling relationships are linked to plant fitness. We used data from 275 genotypes of a clonal grass Festuca rubra originating from 11 localities and cultivated under four contrasting climates. Data were analysed using standard major axis regression, mixed-effect regression models and a structural equation model.

Key Results
Rhizome construction costs increased (i.e. lower specific rhizome length) with increasing length. The trait scaling relationships were modulated by cultivation climate, and its effects also interacted with the climate of origin of the experimental plants. With increasing length, increasing moisture led to a greater increase in rhizome construction costs. Plants with lower rhizome construction costs showed significantly higher fitness.

Conclusions
This study suggests that rhizome scaling relationships are plastic, but also show genetic differentiation and are linked to plant fitness. Therefore, to persist under variable environments, modulation in scaling relationships could be an important plant strategy.
YeastMate: neural network-assisted segmentation of mating and budding events inSaccharomyces cerevisiae
Authors: Bunk David , Moriasy Julian , Thoma Felix , Jakubke Christopher , Osman Christof , Hörl David 
Published: February 2022

AbstractSummaryHere, we introduce YeastMate, a user-friendly deep learning-based application for automated detection and segmentation of Saccharomyces cerevisiae cells and their mating and budding events in microscopy images. We build upon Mask R-CNN with a custom segmentation head for the subclassification of mother and daughter cells during lifecycle transitions. YeastMate can be used directly as a Python library or through a standalone application with a graphical user interface (GUI) and a Fiji plugin as easy-to-use frontends.Availability and implementationThe source code for YeastMate is freely available at https://github.com/hoerlteam/YeastMate under the MIT license. We offer installers for our software stack for Windows, macOS and Linux. A detailed user guide is available at https://yeastmate.readthedocs.io.Supplementary informationSupplementary data are available at Bioinformatics online.
A chromosome-scale genome and transcriptomic analysis of the endangered tropical treeVatica mangachapoi(Dipterocarpaceae)
Authors: Tang Liang , Liao Xuezhu , Tembrock Luke R , Ge Song , Wu Zhiqiang 
Published: February 2022

AbstractVatica mangachapoi is a tropical tree species native to Southeast Asia. It has long been valued as a timber species because the wood resists decay, but it is now considered vulnerable to extinction due to habitat loss and overexploitation. Here, we present the first chromosome-level genome assembly of V. mangachapoi that we created by combining data from PacBio long read sequencing with Hi-C proximity ligation and Illumina short-read sequencing. The assembled genome was 456.21 Mb, containing 11 chromosome and a BUSCO score of 93.4%. From the newly assembled genome, 46,811 protein-coding genes were predicted. Repetitive DNA accounted for 53% of the genome. Phylogenomic and gene family analyses showed that V. mangachapoi diverged from a common ancestor of Gossypium raimondii 70 million years ago. Transcriptome analyses found 227 genes that were differentially expressed in the leaves of plants grown in normal soil relative to plants grown in dry, coastal, sandy soil. For these genes, we identified three significantly enriched with GO terms: responses to organonitrogen compounds, chitin-triggered immunity, and wound response. This genome provides an important comparative benchmark not only for future conservation work on V. mangachapoi but also for phylogenomics work on Dipterocarpaceae.
Role of epigenetic transgenerational inheritance in generational toxicology
Authors: Nilsson Eric E , Ben Maamar Millissia , Skinner Michael K 
Published: February 2022

Abstract
Many environmental toxicants have been shown to be associated with the transgenerational inheritance of increased disease susceptibility. This review describes the generational toxicity of some of these chemicals and their role in the induction of epigenetic transgenerational inheritance of disease. Epigenetic factors include DNA methylation, histone modifications, retention of histones in sperm, changes to chromatin structure, and expression of non-coding RNAs. For toxicant-induced epigenetic transgenerational inheritance to occur, exposure to a toxicant must result in epigenetic changes to germ cells (sperm or eggs) since it is the germ cells that carry molecular information to subsequent generations. In addition, the epigenetic changes induced in transgenerational generation animals must cause alterations in gene expression in these animals’ somatic cells. In some cases of generational toxicology, negligible changes are seen in the directly exposed generations, but increased disease rates are seen in transgenerational descendants. Governmental policies regulating toxicant exposure should take generational effects into account. A new approach that takes into consideration generational toxicity will be needed to protect our future populations.
Necessity of life-long follow-up after surgery for coarctation of the aorta: a case series of very late false aneurysm formation
Authors: Somers Tim , Nies Hedwig M J M , van Kimmenade Roland R J , Bosboom Dennis G H , Geuzebroek Guillaume S C , Morshuis Wim J 
Published: February 2022

AbstractBackgroundCoarctation of the aorta accounts for 5–7% of congenital defects of the heart and great vessels. It requires treatment in the form of open surgical or percutaneous repair. Common long-term complications include re-stenosis and aneurysm formation. The formation of a false aneurysm is a complication with a significant morbidity and mortality.Case summaryWe reviewed six cases of late false aneurysm after repair of a coarctation of the aorta. Our six cases developed a false aneurysm after an open surgical repair of a coarctation more than 30 years after initial surgical repair. All aneurysms were located at the aortic repair site.DiscussionThe symptoms or risk factors in the described cases are not uniform and are difficult to include in a general follow-up protocol. Guidelines recommend frequent evaluation, but do not specify duration or intervals of imaging follow-up. Our cases support the necessity of life-long follow-up in patients with open aortic repairs irrespective of symptomatology.
Isolated cardiac sarcoidosis associated with coronary vasomotion abnormalities: a case report
Authors: Godo Shigeo , Hasebe Yuhi , Takahashi Jun , Shimokawa Hiroaki , Yasuda Satoshi 
Published: February 2022

Abstract

Background
Cardiac sarcoidosis is a chronic, inflammatory disease that can affect the heart and often results in heart failure and lethal arrhythmias. A multimodality imaging approach without endomyocardial biopsy allows for the diagnosis of isolated cardiac sarcoidosis. Coronary vasomotion abnormalities are highly prevalent in various cardiovascular and inflammatory diseases. It remains unknown whether active myocardial inflammation due to cardiac sarcoidosis is associated with coronary vasomotion abnormalities.

Case summary
A 68-year-old man without a past medical history experienced an out-of-hospital cardiac arrest due to ventricular fibrillation and was successfully resuscitated without neurologic sequelae. Coronary angiography showed normal coronary arteries; however, intracoronary acetylcholine provocation testing demonstrated both epicardial coronary and coronary microvascular spasm. He was diagnosed with isolated cardiac sarcoidosis by fulfilling the diagnostic criteria proposed by the Japanese Circulation Society 2016 diagnostic guidelines, including fatal ventricular arrhythmia, focal left ventricular wall asynergy, increased myocardial fluorodeoxyglucose uptake by positron emission tomography, and late gadolinium enhancement by cardiac magnetic resonance in the heart. He was treated with calcium-channel blocker for coronary artery spasm and prednisolone for cardiac sarcoidosis and underwent implantation of an implantable cardioverter-defibrillator for secondary prevention. Following the treatment, the severity of coronary artery spasm was reduced along with regression of the myocardial inflammation.

Discussion
Epicardial coronary artery and coronary microvascular spasm can be accompanied by active myocardial inflammation of isolated cardiac sarcoidosis, and the treatment with corticosteroid and calcium-channel blocker may be effective for relieving the severity of coronary artery spasm in association with regression of myocardial inflammation of the disease.
Targeting the CCL2–CCR2 axis for atheroprotection
Authors: Georgakis Marios K , Bernhagen Jürgen , Heitman Laura H , Weber Christian , Dichgans Martin 
Published: February 2022

AbstractDecades of research have established atherosclerosis as an inflammatory disease. Only recently though, clinical trials provided proof-of-concept evidence for the efficacy of anti-inflammatory strategies with respect to cardiovascular events, thus offering a new paradigm for lowering residual vascular risk. Efforts to target the inflammasome–interleukin-1β–interleukin-6 pathway have been highly successful, but inter-individual variations in drug response, a lack of reduction in all-cause mortality, and a higher rate of infections also highlight the need for a second generation of anti-inflammatory agents targeting atherosclerosis-specific immune mechanisms while minimizing systemic side effects. CC-motif chemokine ligand 2/monocyte-chemoattractant protein-1 (CCL2/MCP-1) orchestrates inflammatory monocyte trafficking between the bone marrow, circulation, and atherosclerotic plaques by binding to its cognate receptor CCR2. Adding to a strong body of data from experimental atherosclerosis models, a coherent series of recent large-scale genetic and observational epidemiological studies along with data from human atherosclerotic plaques highlight the relevance and therapeutic potential of the CCL2–CCR2 axis in human atherosclerosis. Here, we summarize experimental and human data pinpointing the CCL2–CCR2 pathway as an emerging drug target in cardiovascular disease. Furthermore, we contextualize previous efforts to interfere with this pathway, scrutinize approaches of ligand targeting vs. receptor targeting, and discuss possible pathway-intrinsic opportunities and challenges related to pharmacological targeting of the CCL2–CCR2 axis in human atherosclerotic disease.
Ormyrus labotus (Hymenoptera: Ormyridae): Another Generalist That Should not be a Generalist is not a Generalist
Authors: Sheikh Sofia I , Ward Anna K G , Zhang Y Miles , Davis Charles K , Zhang Linyi , Egan Scott P , Forbes Andrew A 
Published: February 2022

Abstract
Several recent reappraisals of supposed generalist parasite species have revealed hidden complexes of species, each with considerably narrower host ranges. Parasitic wasps that attack gall-forming insects on plants have life history strategies that are thought to promote specialization, and though many species are indeed highly specialized, others have been described as generalist parasites. Ormyrus labotus Walker (Hymenoptera: Ormyridae) is one such apparent generalist, with rearing records spanning more than 65 host galls associated with a diverse set of oak tree species and plant tissues. We pair a molecular approach with morphology, host ecology, and phenological data from across a wide geographic sample to test the hypothesis that this supposed generalist is actually a complex of several more specialized species. We find 16–18 putative species within the morphological species O. labotus, each reared from only 1–6 host gall types, though we identify no single unifying axis of specialization. We also find cryptic habitat specialists within two other named Ormyrus species. Our study suggests that caution should be applied when considering host ranges of parasitic insects described solely by morphological traits, particularly given their importance as biocontrol organisms and their role in biodiversity and evolutionary studies.
P04 An evaluation of antimicrobial stewardship education in the School of Pharmacy of an Irish university—a mixed methods study
Authors: Barbosa T. M. , Fleming A. , Crowley E. , O’Connor A. , Costello L. , McCarthy S. 
Published: February 2022

Abstract

Background
Antimicrobial stewardship (AMS) is essential to control the emergence of antimicrobial resistance (AMR) which has become an international health priority. Education of undergraduate students on AMS and AMR is a strategic objective in the WHO Global Action Plan on AMR and Ireland's National Action Plan.1,2 Research on AMS/AMR education has focused primarily on medical students with less emphasis on those from other healthcare profession including pharmacy students.

Objectives
To investigate AMS and AMR education in the Pharmacy undergraduate programme in the School of Pharmacy of an Irish University.

Methods
A mixed methods study was conducted. Ten semi-structured interviews were conducted in October 2019 with academic staff to capture their views on AMS education. Participants included staff members from different disciplines, those identified as involved in teaching elements of infectious disease, antibiotics, AMS and related topics, and those involved in curriculum design and approval within the School of Pharmacy. Interview transcripts were analysed by thematic analysis. An electronic survey of 17 questions was emailed to all second to fifth year UCC Pharmacy students in October 2019 to gather students’ views and experiences of AMS education. The survey contained four sections which addressed demographics, AMS, resources and education using open-ended, closed-ended or Likert-scale questions. Ethical approval was obtained.

Results
Six key themes were identified from the ten interviews: (i) curriculum priorities and capacity; (ii) housing of the subject, fragmentation and cohesion; (iii) integration; (iv) communication; (v) teaching methods; and (vi) assessment methods. 113 students participated in the survey (32.3% response rate). 96% agree that a strong knowledge of antimicrobials for their future careers is important, and over 89% of students desire more education on AMR and AMS. Only 43% of students found their AMS education provided sufficient preparation for practice. Students felt most prepared to recognize clinical signs of infection and least prepared for IV to oral switching, interpreting biological marker and de-escalation of antimicrobials. Over 50% of students never used or were not familiar with the national primary care antimicrobial guidelines: www.antibioticprescribing.ie.

Conclusions
Pharmacy students and staff agree that AMS and AMR are important and need enhanced educational focus. Students feel there are gaps in their AMS education and expressed a desire for more education in this area. Improved communication and identification of curriculum priorities by staff could help to establish a more cohesive and comprehensive educational approach to this area.