bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Influence of Fine-Scale Grazing Heterogeneity on Dung Beetle Assemblages: What Trait Analysis Teaches Us
Authors: Perrin William , Fontana Simone , Coq Sylvain , Berlioz Laurent , Jay-Robert Pierre , Moretti Marco 
Published: September 2021

AbstractLivestock grazing puts major anthropogenic pressure on biological communities worldwide. Not all species are expected to be affected in the same way, and the impacts will depend on species’ traits. Focusing on traits thus helps identify the mechanisms underlying changes in community composition under grazing pressures. We investigated how fine-scale grazing heterogeneity affects the trait composition and diversity of dung beetle assemblages in Western Europe. We sampled dung beetles in habitat patches differing in terms of grazing intensity within rangelands of two distinct biogeographical areas: a Mediterranean lowland steppe and Western alpine meadows. We measured five morphological traits expected to respond to the local-scale filtering pressure exerted by variations in grazing intensity. Using individual-based data, we assessed responses in terms of single-trait mean values in communities and complementary trait diversity indices. We found strong shifts in trait composition and diversity between the habitat patches. In both study areas, variations in habitat conditions are likely to have filtered the local occurrence and abundance of dung beetles by the mean of traits such as body mass (which have several functional implications), as well as traits linked to underground activity. We hypothesize that fine-scale variation in resource availability (i.e., droppings) and disturbance intensity (i.e., trampling) are key drivers of the observed patterns in species assemblages. Trait richness peaks at moderate grazing intensity in both study areas, suggesting that patches with an intermediated level of available resources and soil disturbance enable individuals with a greater range of autecological requirements to coexist.
Predictors of mortality in thrombotic thrombocytopenia after adenoviral COVID-19 vaccination: the FAPIC score
Authors: Hwang Jimin , Park Seung Hyun , Lee Seung Won , Lee Se Bee , Lee Min Ho , Jeong Gwang Hun , Kim Min Seo , Kim Jong Yeob , Koyanagi Ai , Jacob Louis , Jung Se Yong , Song Jaewoo , Yon Dong Keon , Shin Jae Il , Smith Lee 
Published: September 2021

Abstract

Aims
The clinical manifestation and outcomes of thrombosis with thrombocytopenia syndrome (TTS) after adenoviral COVID-19 vaccine administration are largely unknown due to the rare nature of the disease. We aimed to analyse the clinical presentation, treatment modalities, outcomes, and prognostic factors of adenoviral TTS, as well as identify predictors for mortality.

Methods and Results
PubMed, Scopus, Embase, and Web of Science databases were searched and the resulting articles were reviewed. A total of 6 case series and 13 case reports (64 patients) of TTS after ChAdOx1 nCoV-19 vaccination were included. We performed a pooled analysis and developed a novel scoring system to predict mortality. The overall mortality of TTS after ChAdOx1 nCoV-19 vaccination was 35.9% (23/64). In our analysis, age ≤60 years, platelet count &lt;25 × 103/µL, fibrinogen &lt;150 mg/dL, the presence of intracerebral haemorrhage (ICH), and the presence of cerebral venous thrombosis (CVT) were significantly associated with death and were selected as predictors for mortality (1 point each). We named this novel scoring system FAPIC (fibrinogen, age, platelet count, ICH, and CVT), and the C-statistic for the FAPIC score was 0.837 (95% CI 0.732–0.942). Expected mortality increased with each point increase in the FAPIC score, at 2.08, 6.66, 19.31, 44.54, 72.94, and 90.05% with FAPIC scores 0, 1, 2, 3, 4, and 5, respectively. The FAPIC scoring model was internally validated through cross-validation and bootstrapping, then externally validated on a panel of TTS patients after Ad26.COV2.S administration.

Conclusions
Fibrinogen levels, age, platelet count, and the presence of ICH and CVT were significantly associated with mortality in patients with TTS, and the FAPIC score comprising these risk factors could predict mortality. The FAPIC score could be used in the clinical setting to recognize TTS patients at high risk of adverse outcomes and provide early intensive interventions including intravenous immunoglobulins and non-heparin anticoagulants.
Foreign Policy Analysis and Armed Non-State Actors in World Politics: Lessons from the Middle East
Authors: Darwich May 
Published: September 2021

AbstractThe study of armed non-state actors (ANSAs) has grown exponentially in the last two decades. This article explores the foreign policy of ANSAs as a new empirical domain for foreign policy analysis (FPA) by drawing on various examples from the Middle East to show the merit of this area for novel empirical and theoretical studies. The article identifies the domain of ANSAs’ foreign policy showing how FPA research has so far remained state-centric and almost completely ignores ANSAs. While the external engagement of ANSAs were examined within the scholarship on civil wars, FPA can be adapted to provide systematic scholarly understanding of this phenomenon. Finally, the article explores how studying ANSAs’ foreign policies can revitalize FPA and drive its agenda into new directions.
Sleep Duration, Health Promotion Index, sRAGE, and ApoE-ε4 Genotype Are Associated With Telomere Length in Healthy Australians
Authors: Dhillon Varinderpal S , Deo Permal , Chua Ann , Thomas Phil , Fenech Michael 
Published: September 2021

Abstract
Significant alterations in sleep duration and/or quality of sleep become more pronounced as people get older. Poor sleep in elderly people is associated with adverse health outcomes and cellular aging. We examined the relationship between telomere length (TL) and sleep duration, Health Promotion Index (HPI), and tested whether the presence of Apolipoprotein-E4 (ApoE-ε4) allele affects both sleep and TL. The present study was carried out in 174 healthy participants (21% male; mean age 53.79 years) from South Australia. Lymphocyte TL was measured by real-time quantitative PCR (qPCR) and ApoE genotype was determined by TaqMan assay. HPI was calculated from a questionnaire regarding 8 lifestyle habits, including sleeping hours. Multivariate regression analysis was used to establish these associations adjusted for specified confounders. TL was found to be inversely associated with age (r = −0.199; p = .008) and body mass index (r = −0.121; p = .11), and was significantly shorter in participants who slept for less than 7 hours (p = .001) relative to those sleeping ≥7 hours. TL was positively correlated with HPI (r = 0.195; p = .009). ApoE-ε4 allele carriers who slept for less than 7 hours had shortest TL (p = .01) compared to noncarriers. Plasma soluble receptor for advanced glycation end product (sRAGE) level was significantly (p = .001) lower in individuals who sleep less than 7 hours and ApoE-ε4 carriers. Our results suggest that inadequate sleep duration or poor HPI is associated with shorter TL in cognitively normal people and that carriage of APOE-ε4 genotype may influence the extent of these effects.
Scalable analysis of multi-modal biomedical data
Authors: Smith Jaclyn , Shi Yao , Benedikt Michael , Nikolic Milos 
Published: September 2021

Abstract

Background
Targeted diagnosis and treatment options are dependent on insights drawn from multi-modal analysis of large-scale biomedical datasets. Advances in genomics sequencing, image processing, and medical data management have supported data collection and management within medical institutions. These efforts have produced large-scale datasets and have enabled integrative analyses that provide a more thorough look of the impact of a disease on the underlying system. The integration of large-scale biomedical data commonly involves several complex data transformation steps, such as combining datasets to build feature vectors for learning analysis. Thus, scalable data integration solutions play a key role in the future of targeted medicine. Though large-scale data processing frameworks have shown promising performance for many domains, they fail to support scalable processing of complex datatypes.

Solution
To address these issues and achieve scalable processing of multi-modal biomedical data, we present TraNCE, a framework that automates the difficulties of designing distributed analyses with complex biomedical data types.

Performance
We outline research and clinical applications for the platform, including data integration support for building feature sets for classification. We show that the system is capable of outperforming the common alternative, based on “flattening” complex data structures, and runs efficiently when alternative approaches are unable to perform at all.
Successful pregnancy after ovulation induction with human chorionic gonadotropin in a woman with selective luteinising hormone deficiency
Authors: Sasaki Lizandra Moura Paravidine , de Carvalho Bruno Ramalho , Silva Adelino Amaral , Zaconeta Alberto Moreno , da Silva Wanderley Miriam , da Motta Luiz Augusto Casulari Roxo , Lofrano-Porto Adriana 
Published: September 2021

ABSTRACT
Selective LH deficiency has been described in several men, but only in two women who presented normal pubertal development but secondary amenorrhoea due to anovulation. Despite its rarity, this condition represents a valuable model for studying the processes regulated by FSH or LH during late folliculogenesis and ovulation in humans. A woman previously diagnosed with selective LH deficiency due to a homozygous germline splice site mutation in LHB (IVS2 + 1G→C mutation) was submitted to an individualised ovarian induction protocol, first with recombinant LH and then with highly purified urinary hCG. Ovarian follicle growth and ovulation were achieved, and a healthy baby was born after an uneventful term pregnancy. The treatment described herein demonstrates that the clinical actions of exogenous LH or hCG in inducing late-stage follicular development in women with deficient LH production or performance might be interchangeable or inevitable, once FSH-dependent early follicular growth is assured.
Varieties of Populist Attitudes and Their Link to Islamophobia in Switzerland
Authors: Schmidt Franzisca , Eugster Beatrice , Arlt Dorothee 
Published: September 2021

Abstract
The aim of this article is to show whether distinct varieties of populist attitudes emerge within a society, and how they relate to citizens’ Islamophobic attitudes. The study is based on a representative survey conducted in Switzerland in 2019. We used latent class analysis and multinomial regression analyses to identify latent subgroups, yielding five classes of populist attitudes: direct democracy devotees, individuals with populist tendencies, moderate populists, radical anti-elite populists, and radical-universal populists. Compared with the direct democracy devotees class, members of the moderate and the radical-universal populists classes are significantly more likely to hold anti-Muslim and anti-immigrant attitudes and to be politically right-wing, while radical anti-elite populists are not associated with either anti-Muslim attitudes or a right-wing ideology.
The Impact of Cocirculating Pathogens on Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)/Coronavirus Disease 2019 Surveillance: How Concurrent Epidemics May Introduce Bias and Decrease the Observed SARS-CoV-2 Percentage Positivity
Authors: Kovacevic Aleksandra , Eggo Rosalind M , Baguelin Marc , Domenech de Cellès Matthieu , Opatowski Lulla 
Published: September 2021

Abstract

Background
Circulation of seasonal non–severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) respiratory viruses with syndromic overlap during the coronavirus disease 2019 (COVID-19) pandemic may alter the quality of COVID-19 surveillance, with possible consequences for real-time analysis and delay in implementation of control measures.

Methods
Using a multipathogen susceptible-exposed-infectious-recovered (SEIR) transmission model formalizing cocirculation of SARS-CoV-2 and another respiratory virus, we assessed how an outbreak of secondary virus may affect 2 COVID-19 surveillance indicators: testing demand and positivity. Using simulation, we assessed to what extent the use of multiplex polymerase chain reaction tests on a subsample of symptomatic individuals can help correct the observed SARS-CoV-2 percentage positivity and improve surveillance quality.

Results
We find that a non–SARS-CoV-2 epidemic strongly increases SARS-CoV-2 daily testing demand and artificially reduces the observed SARS-CoV-2 percentage positivity for the duration of the outbreak. We estimate that performing 1 multiplex test for every 1000 COVID-19 tests on symptomatic individuals could be sufficient to maintain surveillance of other respiratory viruses in the population and correct the observed SARS-CoV-2 percentage positivity.

Conclusions
This study showed that cocirculating respiratory viruses can distort SARS-CoV-2 surveillance. Correction of the positivity rate can be achieved by using multiplex polymerase chain reaction tests, and a low number of samples is sufficient to avoid bias in SARS-CoV-2 surveillance.
Lysosomal amino acid transporters as key players in inflammatory diseases
Authors: Toyama-Sorimachi Noriko , Kobayashi Toshihiko 
Published: September 2021

Abstract
Controlling inflammation can alleviate immune-mediated, lifestyle-related and neurodegenerative diseases. The endolysosome system plays critical roles in inflammatory responses. Endolysosomes function as signal transduction hubs to convert various environmental danger signals into gene expression, enabling metabolic adaptation of immune cells and efficient orchestration of inflammation. Solute carrier family 15 member A3 (SLC15A3) and member A4 (SLC15A4) are endolysosome-resident amino acid transporters that are preferentially expressed in immune cells. These transporters play essential roles in signal transduction through endolysosomes, and the loss of either transporter can alleviate multiple inflammatory diseases because of perturbed endolysosome-dependent signaling events, including inflammatory and metabolic signaling. Here, we summarize the findings leading to a proof-of-concept for anti-inflammatory strategies based on targeting SLC15 transporters.
A critique of Chinese diplomatic modernization narratives: reinterpreting shifts in Qing foreign affairs institutions in the early 1860s from the Qing perspective
Authors: Hayamaru Kazumasa 
Published: September 2021

Abstract
Scholars have long read the shifts in late Qing China’s institutional framework for diplomatic interactions through a lens derived from the Western European diplomatic paradigm. However, such a methodology fails to accommodate the autochthonous perspective of the Qing bureaucrats who initiated these shifts in the first place. Drawing upon two case studies from the 1860s, the Zongli Yamen and the proposed Superintendent of Trade for the Yangzi, this article attempts to understand the motivations and priorities of the Qing in establishing new frameworks for diplomatic interactions in this period. The article argues that, for the Qing, it was not the establishment and the efficacy of these new institutions that was important. What mattered to them in this period was how these new institutions could eventually be abolished and an older, idealized form of practice reinstated in their place.
Characterization of the novel plasmid-encoded MBL gene blaAFM-1, integrated into a blaIMP-45-bearing transposon Tn6485e in a carbapenem-resistant Pseudomonas aeruginosa clinical isolate
Authors: Zhang Xuefei , Wang Leilei , Li Dan , Wang Chen , Guo Qinglan , Wang Minggui 
Published: September 2021

Abstract

Objectives
To characterize the novel subclass B1 MBL AFM-1, encoded by a blaIMP-45-bearing megaplasmid from a carbapenem-resistant Pseudomonas aeruginosa (CRPA) clinical isolate.

Methods
CRPA HS17-127 and its transconjugant were discovered to carry blaAFM-1 in our previous study. blaAFM-1 and blaNDM-1 were cloned and expressed in Escherichia coli TOP10 and P. aeruginosa PAO1, respectively, to test the resistance phenotype. Kinetic studies were performed to elucidate the biochemical characteristics of the AFM-1 enzyme. Comparative genomic analysis was applied to investigate the genetic context of blaAFM-1.

Results
PAO1 transconjugant TcHS17-127 exhibited carbapenem resistance with an imipenem MIC of 64 mg/L. E. coli transformants with cloned blaAFM-1 or blaNDM-1 had increased MICs of all β-lactams tested (except aztreonam) and imipenem MICs of 4–8 mg/L. Kinetic studies showed that AFM-1 had greater catalytic efficiency against cephalosporins than carbapenems. blaAFM-1 was located on a 486 963 bp IncP-2 plasmid, pHS17-127, containing a 57.3 kb MDR Tn1403-derivative transposon, Tn6485e, which is genetically closest to the blaIMP-45-bearing Tn6485 transposon but has acquired an extra ISCR27n3-blaAFM-1 module. Multicentre surveillance of 605 P. aeruginosa clinical isolates identified three blaAFM carriers from different STs. Two of them co-carried blaAFM-1 and blaIMP-45. A BLAST search against the NCBI database showed six blaAFM carriers on various plasmids and the chromosomes of different Gram-negative species.

Conclusions
The blaAFM-1 gene confers carbapenem resistance and has been captured in distinct species of non-fermenters. Co-carriage of blaAFM-1 and blaIMP-45 in an MDR transposon on a conjugative plasmid can be expected to promote further dissemination of blaMBLs.
Noninvasive Prenatal Test for β-Thalassemia and Sickle Cell Disease Using Probe Capture Enrichment and Next-Generation Sequencing of DNA in Maternal Plasma
Authors: Erlich Henry A , López-Peña Christian , Carlberg Katie T , Shih Shelly , Bali Gunmeet , Yamaguchi Ken D , Salamon Hugh , Das Reena , Lal Ashutosh , Calloway Cassandra D 
Published: September 2021

Abstract

Background
Noninvasive prenatal testing (NIPT) of chromosomal aneuploidies based on next-generation sequencing (NGS) analysis of fetal DNA in maternal plasma is well established, but testing for autosomal recessive disorders remains challenging. NGS libraries prepared by probe capture facilitate the analysis of the short DNA fragments plasma. This system has been applied to the β-hemoglobinopathies to reduce the risk to the fetus.

Method
Our probe panel captures &gt;4 kb of the HBB region and 435 single-nucleotide polymorphisms (SNPs) used to estimate fetal fraction. Contrived mixtures of DNA samples, plasma, and whole blood samples from 7 pregnant women with β-thalassemia or sickle cell anemia mutations and samples from the father, sibling, and baby or chorionic villus were analyzed. The fetal genotypes, including point mutations and deletions, were inferred by comparing the observed and expected plasma sequence read ratios, based on fetal fraction, at the mutation site and linked SNPs. Accuracy was increased by removing PCR duplicates and by in silico size selection of plasma sequence reads. A probability was assigned to each of the potential fetal genotypes using a statistical model for the experimental variation, and thresholds were established for assigning clinical status.

Results
Using in silico size selection of plasma sequence files, the predicted clinical fetal genotype assignments were correct in 9 of 10 plasma libraries with maternal point mutations, with 1 inconclusive result. For 2 additional plasmas with deletions, the most probable fetal genotype was correct. The β-globin haplotype determined from linked SNPs, when available, was used to infer the fetal genotype at the mutation site.

Conclusion
This probe capture NGS assay demonstrates the potential of NIPT for β-hemoglobinopathies.
Alert burden in pediatric hospitals: a cross-sectional analysis of six academic pediatric health systems using novel metrics
Authors: Orenstein Evan W , Kandaswamy Swaminathan , Muthu Naveen , Chaparro Juan D , Hagedorn Philip A , Dziorny Adam C , Moses Adam , Hernandez Sean , Khan Amina , Huth Hannah B , Beus Jonathan M , Kirkendall Eric S 
Published: September 2021

Abstract

Background
Excessive electronic health record (EHR) alerts reduce the salience of actionable alerts. Little is known about the frequency of interruptive alerts across health systems and how the choice of metric affects which users appear to have the highest alert burden.

Objective
(1) Analyze alert burden by alert type, care setting, provider type, and individual provider across 6 pediatric health systems. (2) Compare alert burden using different metrics.

Materials and Methods
We analyzed interruptive alert firings logged in EHR databases at 6 pediatric health systems from 2016–2019 using 4 metrics: (1) alerts per patient encounter, (2) alerts per inpatient-day, (3) alerts per 100 orders, and (4) alerts per unique clinician days (calendar days with at least 1 EHR log in the system). We assessed intra- and interinstitutional variation and how alert burden rankings differed based on the chosen metric.

Results
Alert burden varied widely across institutions, ranging from 0.06 to 0.76 firings per encounter, 0.22 to 1.06 firings per inpatient-day, 0.98 to 17.42 per 100 orders, and 0.08 to 3.34 firings per clinician day logged in the EHR. Custom alerts accounted for the greatest burden at all 6 sites. The rank order of institutions by alert burden was similar regardless of which alert burden metric was chosen. Within institutions, the alert burden metric choice substantially affected which provider types and care settings appeared to experience the highest alert burden.

Conclusion
Estimates of the clinical areas with highest alert burden varied substantially by institution and based on the metric used.
Socially situated risk: challenges and strategies for implementing algorithmic risk scoring for care management
Authors: Nong Paige , Adler-Milstein Julia 
Published: September 2021

Abstract

Objective
To characterize challenges and strategies related to algorithmic risk scoring for care management eligibility determinations.

Materials and Methods
Interviews with 19 administrators from 13 physician organizations representing over 2200 physician offices and 8800 physicians in Michigan. Post-implementation interviews were coded using thematic analysis.

Results
Utility of algorithmic risk scores was limited due to outdated claims or incomplete information about patients’ socially situated risks (eg, caregiver turnover, social isolation). Resulting challenges included lack of physician engagement and inefficient use of staff time reviewing eligibility determinations. To address these challenges, risk scores were supplemented with physician knowledge and clinical data.

Discussion and Conclusion
Current approaches to risk scoring based on claims data for payer-led programs struggle to gain physician acceptance and support because of data limitations. To respond to these limitations, physician input regarding socially situated risk and utilization of more timely data may improve eligibility determinations.