bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quantifying Native Speakerism in Second Language (L2) Writing: A Study of Student Evaluations of Teaching
Authors: Lee Sei , Du Qian 
Published: October 2020

Abstract
Despite the continually growing number of non-native English-speaking (NNES) teachers in English language teaching, the profession is nonetheless still shaped by native speakerism (Holliday 2005), the idealization of native English speakers (NESs) as linguistically and culturally superior to their NNES counterparts. Such an ideology leads to negative perceptions toward NNES faculty even if they hold equal qualifications to their NES counterparts. This study sought to determine whether multilingual students themselves evaluate instructors differently based on the instructors’ language background. Based on 5,050 Student Evaluation of Teaching (SET) scores compiled over three years (2015–18), independent t-tests and MANCOVA analysis revealed a statistically significant relationship between NNES students’ perceptions of teacher effectiveness and instructor’s language background. Such findings were further compounded by instructor’s gender and course variables, additionally disadvantaging NNES instructors. The broader implications are for institutional stakeholders to be cognizant of the prevalence of native speakerism in L2 writing contexts and use holistic models for teacher assessment to adapt more equitable approaches to assessing underrepresented faculty.
Morphosyntactic Challenges for Swedish-Speaking Children with Developmental Language Disorder in Comparison with L1 and L2 Peers
Authors: Reuterskiöld Christina , Hallin Anna Eva , Nair Vishnu K K , Hansson Kristina 
Published: October 2020

AbstractThis article provides an overview of the research on morpho-syntactic challenges in Swedish-speaking children with developmental language disorder (DLD), compared with typically developing (TD) children learning Swedish as their first and second language (L1/L2). Children with DLD show vulnerabilities with verb finiteness, the possessive construction, and noun phrase gender agreement, as well as word-order in nonsubject initiated sentences. For L2-learners, word order and the noun phrase gender agreement present main challenges. We discuss to what extent these morpho-syntactic weaknesses can be explained by different theoretical accounts and identify future research needs. Surface similarities between groups may originate from different factors and more knowledge is needed to inform educational and clinical practice for both of these groups of children.
Cats and Apples: Semantic Fluency Performance for Living Things Identifies Patients with Very Early Alzheimer’s Disease
Authors: Krumm Sabine , Berres Manfred , Kivisaari Sasa L , Monsch Andreas U , Reinhardt Julia , Blatow Maria , Kressig Reto W , Taylor Kirsten I 
Published: October 2020

Abstract
Objective: Reduced semantic memory performance is a known neuropsychological marker of very early Alzheimer’s disease (AD), but the task format that best predicts disease status is an open question. The present study aimed to identify the semantic fluency task and measure that best discriminates early-stage AD patients (PATs) from cognitively healthy controls. Method: Semantic fluency performance for animals, fruits, tools, and vehicles was assessed in 70 early-stage AD PATs and 67 cognitively healthy participants. Logistic regressions and receiver operating characteristics were calculated for five total score semantic fluency measures. Results: Compared with all other measures, living things (i.e., total correct animals + total correct fruits) achieved highest z-statistics, highest area under the curve and smallest difference between the upper and lower 95% confidence intervals. Conclusion: Living things total correct is a powerful tool to detect the earliest signs of incipient AD.
PERHAPS: Paired-End short Reads-based HAPlotyping from next-generation Sequencing data
Authors: Huang Jie , Pallotti Stefano , Zhou Qianling , Kleber Marcus , Xin Xiaomeng , King Daniel A , Napolioni Valerio 
Published: October 2020

Abstract
The identification of rare haplotypes may greatly expand our knowledge in the genetic architecture of both complex and monogenic traits. To this aim, we developed PERHAPS (Paired-End short Reads-based HAPlotyping from next-generation Sequencing data), a new and simple approach to directly call haplotypes from short-read, paired-end Next Generation Sequencing (NGS) data. To benchmark this method, we considered the APOE classic polymorphism (*1/*2/*3/*4), since it represents one of the best examples of functional polymorphism arising from the haplotype combination of two Single Nucleotide Polymorphisms (SNPs). We leveraged the big Whole Exome Sequencing (WES) and SNP-array data obtained from the multi-ethnic UK BioBank (UKBB, N=48,855). By applying PERHAPS, based on piecing together the paired-end reads according to their FASTQ-labels, we extracted the haplotype data, along with their frequencies and the individual diplotype. Concordance rates between WES directly called diplotypes and the ones generated through statistical pre-phasing and imputation of SNP-array data are extremely high (&gt;99%), either when stratifying the sample by SNP-array genotyping batch or self-reported ethnic group. Hardy-Weinberg Equilibrium tests and the comparison of obtained haplotype frequencies with the ones available from the 1000 Genome Project further supported the reliability of PERHAPS. Notably, we were able to determine the existence of the rare APOE*1 haplotype in two unrelated African subjects from UKBB, supporting its presence at appreciable frequency (approximatively 0.5%) in the African Yoruba population. Despite acknowledging some technical shortcomings, PERHAPS represents a novel and simple approach that will partly overcome the limitations in direct haplotype calling from short read-based sequencing.
Do we need different machine learning algorithms for QSAR modeling? A comprehensive assessment of 16 machine learning algorithms on 14 QSAR data sets
Authors: Wu Zhenxing , Zhu Minfeng , Kang Yu , Leung Elaine Lai-Han , Lei Tailong , Shen Chao , Jiang Dejun , Wang Zhe , Cao Dongsheng , Hou Tingjun 
Published: October 2020

Abstract
Although a wide variety of machine learning (ML) algorithms have been utilized to learn quantitative structure–activity relationships (QSARs), there is no agreed single best algorithm for QSAR learning. Therefore, a comprehensive understanding of the performance characteristics of popular ML algorithms used in QSAR learning is highly desirable. In this study, five linear algorithms [linear function Gaussian process regression (linear-GPR), linear function support vector machine (linear-SVM), partial least squares regression (PLSR), multiple linear regression (MLR) and principal component regression (PCR)], three analogizers [radial basis function support vector machine (rbf-SVM), K-nearest neighbor (KNN) and radial basis function Gaussian process regression (rbf-GPR)], six symbolists [extreme gradient boosting (XGBoost), Cubist, random forest (RF), multiple adaptive regression splines (MARS), gradient boosting machine (GBM), and classification and regression tree (CART)] and two connectionists [principal component analysis artificial neural network (pca-ANN) and deep neural network (DNN)] were employed to learn the regression-based QSAR models for 14 public data sets comprising nine physicochemical properties and five toxicity endpoints. The results show that rbf-SVM, rbf-GPR, XGBoost and DNN generally illustrate better performances than the other algorithms. The overall performances of different algorithms can be ranked from the best to the worst as follows: rbf-SVM &gt; XGBoost &gt; rbf-GPR &gt; Cubist &gt; GBM &gt; DNN &gt; RF &gt; pca-ANN &gt; MARS &gt; linear-GPR ≈ KNN &gt; linear-SVM ≈ PLSR &gt; CART ≈ PCR ≈ MLR. In terms of prediction accuracy and computational efficiency, SVM and XGBoost are recommended to the regression learning for small data sets, and XGBoost is an excellent choice for large data sets. We then investigated the performances of the ensemble models by integrating the predictions of multiple ML algorithms. The results illustrate that the ensembles of two or three algorithms in different categories can indeed improve the predictions of the best individual ML algorithms.
Scool: a new data storage format for single-cell Hi-C data
Authors: Wolff Joachim , Abdennur Nezar , Backofen Rolf , Grüning Björn 
Published: October 2020

Abstract

Motivation
Single-cell Hi-C research currently lacks an efficient, easy to use and shareable data storage format. Recent studies have used a variety of sub-optimal solutions: publishing raw data only, text-based interaction matrices, or reusing established Hi-C storage formats for single interaction matrices. These approaches are storage and pre-processing intensive, require long labour time and are often error-prone.

Results
The single-cell cooler file format (scool) provides an efficient, user-friendly and storage-saving approach for single-cell Hi-C data. It is a flavour of the established cooler format and guarantees stable API support.

Availability and implementation
The single-cell cooler format is part of the cooler file format as of API version 0.8.9. It is available via pip, conda and github: https://github.com/mirnylab/cooler.

Supplementary information
Supplementary data are available at Bioinformatics online.
Effect of mitophagy in oocytes and granulosa cells on oocyte quality†
Authors: Shen Qiuzi , Liu Yu , Li Honggang , Zhang Ling 
Published: October 2020

Abstract
Mitophagy is the process by which cells selectively remove supernumerary or damaged mitochondria through autophagy, and is crucial for mitochondrial homeostasis and cell survival. Mitochondria play vital roles in determining the developmental competence of oocytes. During the early stages of oogenesis, aberrant mitochondria can be removed by mitophagy. After oocyte formation, mitophagy is not actively initiated to clear damaged mitochondria despite the presence of mitophagy regulators in oocytes, which leads to the transmission of dysfunctional mitochondria from the oocyte to the embryo. However, granulosa cells around oocytes can improve mitochondrial function through mitophagy, thereby improving oocyte developmental capacity. Furthermore, this review discusses recent work on the substances and environmental conditions that affect mitophagy in oocytes and granulosa cells, thus providing new directions for improving oocyte quality during assisted reproductive technology treatment.
What do parents think about statutory child and family social work services in the UK?
Authors: Wilkins David , Forrester Donald 
Published: October 2020

Abstract
Higher levels of ‘service user’ satisfaction are associated with more positive outcomes in many service settings. They are also an important measure of service quality in their own right. In this article, we report the results from a survey of 500 parents in relation to statutory child and family social work services in the UK. Our primary outcome measure was the Client Satisfaction Questionnaire, a valid instrument that has been used in a range of settings and types of service. Parents overall had relatively low levels of satisfaction, compared with research in other settings. Levels of dissatisfaction were higher for parents from lower socio-economic groups and parents of adolescents. The small number of parents in our survey who received short-breaks or residential care for their children gave higher satisfaction ratings. An important limitation of these results is that the sample is not representative. Parents from higher socio-economic groups were over-represented compared with the general population and were therefore very overrepresented compared with the population of families who receive a statutory social work service. These findings nevertheless suggest that parents are likely to be dissatisfied with the services they received and suggest a pressing need for more representative data to understand the experiences of parents across the UK.
Why Are You Backing Such Positions? Types and Trajectories of Social Workers’ Right-Wing Populist Support
Authors: Fazzi Luca , Nothdurfter Urban 
Published: October 2020

Abstract
The rise of right-wing populism and its impact on inclusive welfare and fundamental principles of social work have been discussed mainly as an external challenge to the profession, assuming, implicitly, that social workers are immune to right-wing populist positions because of their professional values and identity. This article questions this assumption, presenting the findings of a qualitative study carried out in the Italian context. The interview study involved a sample of twenty-one social workers recruited to participate via Facebook, where they had published posts and comments supporting right-wing populist parties and positions. The findings indicate different attitudes, experiences and trajectories which are summarised in an interpretative model, reconstructing four ideal-typical profiles of social workers supporting right-wing populist positions. The article suggests abandoning the hypothesis of social workers being immune to populist influences and instead takes seriously the experiences and frustrations that make them turn towards the siren calls of right-wing populism. The article also makes a plea for qualitative in-depth analyses of processes of micro-mobilisation leading to right-wing populist support.
Fetal Rhesus Monkey First Trimester Zika Virus Infection Impacts Cortical Development in the Second and Third Trimesters
Authors: Tarantal Alice F , Hartigan-O’Connor Dennis J , Penna Elisa , Kreutz Anna , Martinez Michele L , Noctor Stephen C 
Published: October 2020

AbstractZika virus is a teratogen similar to other neurotropic viruses, notably cytomegalovirus and rubella. The goal of these studies was to address the direct impact of Zika virus on fetal development by inoculating early gestation fetal rhesus monkeys using an ultrasound-guided approach (intraperitoneal vs. intraventricular). Growth and development were monitored across gestation, maternal samples collected, and fetal tissues obtained in the second trimester or near term. Although normal growth and anatomical development were observed, significant morphologic changes were noted in the cerebral cortex at 3-weeks post-Zika virus inoculation including massive alterations in the distribution, density, number, and morphology of microglial cells in proliferative regions of the fetal cerebral cortex; an altered distribution of Tbr2+ neural precursor cells; increased diameter and volume of blood vessels in the cortical proliferative zones; and a thinner cortical plate. At 3-months postinoculation, alterations in morphology, distribution, and density of microglial cells were also observed with an increase in blood vessel volume; and a thinner cortical plate. Only transient maternal viremia was observed but sustained maternal immune activation was detected. Overall, these studies suggest persistent changes in cortical structure result from early gestation Zika virus exposure with durable effects on microglial cells.
Respiratory Syncytial Virus Disease Severity in Young Children
Authors: Haddadin Zaid , Beveridge Stockton , Fernandez Kailee , Rankin Danielle A , Probst Varvara , Spieker Andrew J , Markus Tiffanie M , Stewart Laura S , Schaffner William , Lindegren Mary Lou , Halasa Natasha 
Published: October 2020

Abstract

Background
Respiratory syncytial virus (RSV) is the leading cause of acute respiratory infections (ARIs) in hospitalized children. Although prematurity and underlying medical conditions are known risk factors, most of these children are healthy, and factors including RSV load and subgroups may contribute to severity. Therefore, we aimed to evaluate the role of RSV in ARI severity and determine factors associated with increased RSV-ARI severity in young children.

Methods
Children aged &lt;5 years with fever and/or ARI symptoms were recruited from the emergency department (ED) or inpatient settings at Vanderbilt Children’s Hospital. Nasal and/or throat swabs were tested using quantitative reverse-transcription polymerase chain reaction for common respiratory viruses, including RSV. A severity score was calculated for RSV-positive children.

Results
From November 2015 through July 2016, 898 participants were enrolled, and 681 (76%) had at least 1 virus detected, with 191 (28%) testing positive for RSV. RSV-positive children were more likely to be hospitalized, require intensive care unit admission, and receive oxygen compared with children positive for other viruses. Higher viral load, White race, younger age, and higher severity score were independently associated with hospitalization in RSV-positive children. No differences in disease severity were noted between RSV A and RSV B.

Conclusions
RSV was associated with increased ARI severity in young children enrolled from the ED and inpatient settings, but no differences in disease severity were noted between RSV A and RSV B. These findings emphasize the need for antiviral therapy and/or preventive measures such as vaccines against RSV in young children.
Association of 152 Biomarker Reference Intervals with All-Cause Mortality in Participants of a General United States Survey from 1999 to 2010
Authors: Pho Nam , Manrai Arjun K , Leppert John T , Chertow Glenn M , Ioannidis John P A , Patel Chirag J 
Published: October 2020

Abstract

Background
Physicians sometimes consider whether or not to perform diagnostic testing in healthy people, but it is unknown whether nonextreme values of diagnostic tests typically encountered in such populations have any predictive ability, in particular for risk of death. The goal of this study was to quantify the associations among population reference intervals of 152 common biomarkers with all-cause mortality in a representative, nondiseased sample of adults in the United States.

Methods
The study used an observational cohort derived from the National Health and Nutrition Examination Survey (NHANES), a representative sample of the United States population consisting of 6 survey waves from 1999 to 2010 with linked mortality data (unweighted N = 30 651) and a median followup of 6.1 years. We deployed an X-wide association study (XWAS) approach to systematically perform association testing of 152 diagnostic tests with all-cause mortality.

Results
After controlling for multiple hypotheses, we found that the values within reference intervals (10–90th percentiles) of 20 common biomarkers used as diagnostic tests or clinical measures were associated with all-cause mortality, including serum albumin, red cell distribution width, serum alkaline phosphatase, and others after adjusting for age (linear and quadratic terms), sex, race, income, chronic illness, and prior-year healthcare utilization. All biomarkers combined, however, explained only an additional 0.8% of the variance of mortality risk. We found modest year-to-year changes, or changes in association from survey wave to survey wave from 1999 to 2010 in the association sizes of biomarkers.

Conclusions
Reference and nonoutlying variation in common biomarkers are consistently associated with mortality risk in the US population, but their additive contribution in explaining mortality risk is minor.
Interventricular septal haematoma after EXCOR paediatric implantation
Authors: Komori Motoki , Hoashi Takaya , Sakaguchi Heima , Ichikawa Hajime 
Published: October 2020

Abstract
A 3.5-kg boy with dilated cardiomyopathy underwent EXCOR left ventricular assist device implantation, which resulted in right ventricular outflow tract obstruction due to the development of an interventricular septal haematoma (IVSH), which required the implantation of an additional right ventricular assist device. Curettage and haemostasis of the IVSH were successfully performed on postoperative day 17. An 11-kg girl with left ventricular non-compaction also underwent EXCOR left ventricular assist device implantation. An IVSH was initially detected on postoperative day 13 without haemodynamic instability. By decreasing the target-activated partial thromboplastin time, the IVSH completely regressed 2 months later.
Trends in Women’s Relative Earnings Within Couples Across the Transition to Parenthood in Sweden, 1987–2007
Authors: Nylin Anna-Karin , Musick Kelly , Billingsley Sunnee , Duvander Ann-Zofie , Evertsson Marie 
Published: October 2020

AbstractThis article applies a couple perspective to assessing gender inequality in Sweden—a setting with high maternal labour force participation, a long history of family policy investment, and strong norms of gender equality. We address open questions about how couples’ earnings following parenthood have changed over time, and how patterns of inequality in couples’ earnings have played out across educational groups. Our study uses fixed effects methods and register data covering the total population of heterosexual couples giving birth in Sweden between 1987 and 2007 (N = 587,414 couples). It examines change in the female partner’s share of total couple earnings from 2 years before to 8 years after first birth across parent cohorts differentiated by his and her education. Women’s earnings share declines steeply following birth, across all groups. Results show modestly smaller declines among parents in the latest cohort in the year directly following childbirth. Change is most pronounced among couples with a highly educated female partner, and it appears driven by a marked dip in fathers’ earnings that is new to this recent generation of men. Recent movement towards within-couple equality in Sweden appears driven by men’s work adjustments, pointing to an important shift in the allocation of care work within couples.
Diagnostic yield and accuracy in a tertiary referral syncope unit validating the ESC guideline on syncope: a prospective cohort study
Authors: de Jong Jelle S Y , Blok Minou R Snijders , Thijs Roland D , Harms Mark P M , Hemels Martin E W , de Groot Joris R , van Dijk Nynke , de Lange Frederik J 
Published: October 2020

AbstractAims To assess in patients with transient loss of consciousness the diagnostic yield, accuracy, and safety of the structured approach as described in the ESC guidelines in a tertiary referral syncope unit.Methods and results Prospective cohort study including 264 consecutive patients (≥18 years) referred with at least one self-reported episode of transient loss of consciousness and presenting to the syncope unit between October 2012 and February 2015. The study consisted of three phases: history taking (Phase 1), autonomic function tests (AFTs) (Phase 2), and after 1.5-year follow-up with assessment by a multidisciplinary committee (Phase 3). Diagnostic yield was assessed after Phases 1 and 2. Empirical diagnostic accuracy was measured for diagnoses according to the ESC guidelines after Phase 3. The diagnostic yield after Phase 1 (history taking) was 94.7% (95% CI: 91.1–97.0%, 250/264 patients) and increased to 97.0% (93.9–98.6%, 256/264 patients) after Phase 2. The overall diagnostic accuracy (as established in Phase 3) of the Phases 1 and 2 diagnoses was 90.6% (95% CI: 86.2–93.8%, 232/256 patients). No life-threatening conditions were missed. Three patients died, two unrelated to the cause of transient loss of consciousness, and one whom remained undiagnosed.Conclusion A clinical work-up at a tertiary syncope unit using the ESC guidelines has a high diagnostic yield, accuracy, and safety. History taking (Phase 1) is the most important diagnostic tool. Autonomic function tests never changed the Phase 1 diagnosis but helped to increase the certainty of the Phase 1 diagnosis in many patients and yield additional diagnoses in patients who remained undiagnosed after Phase 1. Diagnoses were inaccurate in 9.4%, but no serious conditions were missed. This is adequate for clinical practice.