bluuebunny/crossref_metadata_2025_split huggingface dataset:
Severe fever with thrombocytopenia syndrome virus (SFTSV) in Thailand: Seroprevalence study in humans and molecular detection in ticks
Authors: Villarroel Paola Mariela Saba , Chaiphongpachara Tanawat , Nurtop Elif , Laojun Sedthapong , Pangpoo-nga Tassanee , Songhong Thanaphon , Supungul Dolruethai , Baronti Cécile , Thirion Laurence , Leaungwutiwong Pornsawan , de Lamballerie Xavier , Missé Dorothée , Wichit Sineewanlaya 
Published: February 2024

Abstract
Severe fever with thrombocytopenia syndrome virus (SFTSV) is an emerging tick-borne virus with a mortality rate of up to 30%. First identified in China in 2009, it was later reported in other Asian countries, including Thailand in 2020. SFTSV has been detected in several tick species, including Rhipicephalus sanguineus, known for infesting dogs. We conducted a seroprevalence study of SFTSV in Bangkok and Nong Khai, Thailand, by analyzing 1162 human samples collected between 2019 and 2023. The testing method relied on IgG detection using ELISA and confirmed though a virus seroneutralization test. The results indicated that out of the participants, 12 (1.1%) tested positive for anti-SFTSV IgG antibodies; however, none exhibited positive results in the seroneutralization assay. Additionally, molecular detection of SFTSV, Crimean-Congo hemorrhagic fever (CCHF), Coxiella spp., Bartonella spp., and Rickettsiaspp. was performed on 433 Rh. sanguineus ticks collected from 49 dogs in 2023 in Chachoengsao Province, Thailand. No evidence of these pathogens was found in ticks. These findings highlight the importance of exploring viral cross-reactivity. Furthermore, it is important to conduct additional studies to isolate SFTSV from animals and ticks in order to identify the potential transmission routes contributing to human and animal infections in Thailand.
Crosstalk between Atrial Cardiomyocytes and Epicardial Adipose Tissue in Atrial Fibrillation: Insights from Machine Learning Methods and Rat Atrial Fibrillation Model
Authors: Zhang QiJun , Miao HaoZhen , Song BingJie , Tao Lei , Wang Jie , Bao YingChun 
Published: February 2024

Abstract
Objective: Investigating the Role of Epicardial Adipose Tissue as a Catalyst for Reversal and Reconstruction of Atrial Myocardial Cells in the Context of Dialogue with Atrial Myocardial Cells. Implications for Breakthroughs in Preventing Paroxysmal Atrial Fibrillation Progression.
Methods: We obtained three datasets (GSE41177, GSE31821, and GSE135455) associated with atrial fibrillation (AF) from the Gene Expression Omnibus (GEO) database, which were subsequently merged for comprehensive analysis. Differentially expressed genes (DEGs) were identified using the "limma" package in the R software. Candidate AF genes were selected through machine learning techniques, including the LASSO regression algorithm and SVM-RFE algorithm. The diagnostic efficacy of these genes was evaluated using Receiver Operating Characteristic (ROC) curves. Additionally, CIBERSORT was employed to investigate the proportions of infiltrating immune cells in each sample, while the Pearson method was applied to examine the correlation between genes and immune cells. Further validation of the DEGs were performed by PCR in atrial fibrillation rats.
Results: A total of 310 Differentially Expressed Genes (DEGs) were identified in atrial cardiomyocytes with epicardial adipose tissue. Using the LASSO regression and SVM-RFE algorithms, ID1, SCN4A, COL4A5, COLEC11, and SNAI2 were pinpointed as key genes associated with Atrial Fibrillation (AF). In both the training and validation datasets, these genes exhibited robust effectiveness. The immune infiltration analysis revealed that, in comparison to sinus rhythm (SR), atrial samples from patients with AF exhibited higher levels of neutrophils, while T cells follicular helper were relatively lower. Correlation analysis highlighted significant associations between ID1, SCN4A, COL4A5, COLEC11, SNAI2, and infiltrating immune cells. The outcomes of the RT- qPCR analysis in our investigation were consistent with the findings of bioinformatics analysis.
Conclusions: In summary, this study posits that ID1, SCN4A, COL4A5, COLEC11, and SNAI2 emerge as pivotal genes in Atrial Fibrillation (AF), exhibiting correlation with infiltrating immune cells. Furthermore, it underscores the indispensable roles played by infiltrating immune cells in the context of AF.
Correlation analysis of fatty acid metabolism-related genes and the prognosis of ovarian cancer
Authors: Zhou Jie , Zhou Jinhua , Meng Mei , Sun Yanling 
Published: February 2024

Abstract
Background
Increasing evidence suggests that abnormal fatty acid metabolism (FAM) is a switch triggering tumor progression. The aim of this study was to explore the prognostic value of FAM-related genes (FAMRGs) in serous ovarian cancer (SOC) by bioinformatics analysis and to develop a novel FAM-related prognostic signature.
Methods
Clinicopathological characteristics and FAMRGs were obtained from The Cancer Genome Atlas database and the Molecular Signatures Database. The limma R package and Cox regression were used to determine the FAM-related signature. The Kaplan-Meier curve and Cox regression were used to evaluate the prognostic value of the risk score, after which gene set variation analysis was performed to explore the biological functions. The immune cell infiltration level was analyzed. The potential response to immune checkpoint inhibitor (ICI) therapy was evaluated by the tumor immune dysfunction and exclusion algorithm. Finally, RT-PCR analysis was performed to measure the expression levels of 9 prognostic genes.
Results
Nine FAMRGs that were significantly associated with SOC prognosis were screened out, and a robust risk scoring model was constructed. This risk score was also an independent prognostic factor for patients with SOC. Patients with high-risk scores were characterized by poor clinical outcomes, lower levels of immune cell infiltration, and elevated TIDE scores. In addition, patients with low-risk scores may be better candidates for ICI therapy.
Conclusions
Our data suggest that the abnormal expression of 9 FAM-related genes is closely related to the progression of SOC. Moreover, a novel FAM-related prognostic signature may contribute to immunotherapy consultation for SOC.
HLA-restricted Epitopes Prediction of Papillary Thyroid Carcinoma
Authors: Wang Yizeng , Jia Lanning , He Long , Zhao Ke , Li Fuxin , Liu Yuanchao , Wang Xiaoning , He Xianghui 
Published: February 2024

Abstract
Background
The development of next-generation sequencing(NGS) technology such as transcriptome sequencing(RNA-seq) and the development of computer science have made the research on gene mutation or gene fusion that can produce new antigens more and more efficient and accurate. To identify immunogenic HLA-restricted epitopes of papillary thyroid carcinoma (PTC), we analyzed differential expression genes (DEGs) obtained by transcriptome sequencing.
Methods
The paired tumor samples and peritumoral thyroid tissue samples from 10 PTC patients were obtained for RNA extraction, library construction, and RNA-seq. DEGs were analyzed to identify genetic variants and fusion genes. Human leukocyte antigen (HLA) I genotype was determined by PCR-seqence specific primers(SSP) test and the analysis of RNA-seq data by HLAprofiler. The single nucleotide variations (SNVs), insertion/deletion mutations (INDELs) and fusion genes results from RNA-seq were coupled with HLA I allele to predict the possible antigen epitopes using the netMHCpan of pVACtools software.
Results
For 10 pair samples performing RNA-seq, as the differential expression criterion was |log2FoldChange|≥1 and Padj ≤ 0.05, there were 3740 DEGs between tumor samples and peritumoral thyroid tissue samples totally. Among them, compared to peritumoral thyroid tissue samples, 1464 genes were up-regulated and 2276 genes were down-regulated in tumor samples. Epitopes LAHPGFFYF (P4HA1), KTYERLFYM (PHLDB3), and LLYSNGYNY (IGKV2(D)-28) were predicted and filtered by genetic variation data coupled with HLA I allele. Epitopes KSAELSPFL (KSR1-LGALS9) and RASCQLTVL (FARSA-SYCE2) were predicted and filtered by fusion genes data.
Conclusions
RNA-seq results indicated that genetic alteration driving PTC progression also results in immunogenic HLA-restricted epitopes, which could be affect the immunogenicity of PTC and provide a new target for PTC treatment.
Gendered and Geographical Differential Effects of Airborne Fine Particulate Matter on Noncommunicable Diseases: Evidence from the Global Atmospheric Emissions and WHO SAGE Data
Authors: Boateng Godfred O. , Dusing Gabriel J. , Agbe Eyram , Lartey Stella T. , Quansah Reginald , Okoye Dozie 
Published: February 2024

Abstract
Noncommunicable diseases (NCDs) such as hypertension and diabetes mellitus, disproportionately affect socially disadvantaged populations in LMICs. Airborne fine particulate matter (PM2.5) has been shown to contribute to NCD risk, yet few studies have examined this effect and its variations by gender and geography in sub-Saharan Africa. We linked the Ghana data of the World Health Organization’s Study on Global AGEing and Adult Health to satellite-recorded PM2.5 concentrations to examine the gendered and geographical relationship between exposure to atmospheric PM2.5 and NCDs among older adults. Increasing atmospheric PM2.5 exposure was associated with higher NCD risk with significant gendered and geographical differences. A unit increase in atmospheric PM2.5 increased the relative risk ratios (RRRs) of women by 1.12 (95%CI:1.03-1.22), 1.21 (95%CI:1.11-1.32), and 1.48 (95%CI:1.20-1.81) for hypertension Stages 1, 2, and crisis respectively. The RRRs of men increased by 1.20 (95%CI:1.11-1.29) for Stage 2 hypertension. The RRRs of urban residents increased by 1.21 for stage 2 hypertension, and 1.48 for a crisis state. The effects of atmospheric PM2.5 appear particularly pronounced in women and urban residents relative to their comparative groups. These findings shed light on NCD risk and provide results to inform interventions for aging populations and environmental protection in sub-Saharan Africa.
Palladium-catalyzed C(sp3)-C(sp2) coupling: Synthesis of C(3)-arylphthalides
Authors: H SURYA PRAKASH RAO , Prabhakaran J. 
Published: February 2024

Abstract
We have achieved an efficient synthesis of C(3)-arylphthalides by coupling C(3)-bromophthalides and arylboronic acids under palladium catalysis. The C(sp3)-C(sp2) coupling worked well in the presence of water to provide products in a high yield.
Darcy–Forchheimer fluid flow through a movable thin needle with motile gyrotactic microorganisms and thermal radiation
Authors: Jawad Muhammad , Fu Zhuojia , Khan Waris 
Published: March 2024

Abstract

Bioconvection Darcy–Forchheimer fluid flow of the boundary layer around a tiny needle containing motile gyrotactic microorganisms with thermal radiation has been investigated in this article. The art of the present investigation is a variable thermal conductivity and viscosity. The effects of Brownian motion and thermophoresis are studied by using Buongiorno model. The study is examined under the effects of viscous dissipation and Joule heating. To simplify the governing equations, the boundary layer assumptions in the existence of frictional heating have been employed. Based on this, the equations of boundary layer are described in dimensionless forms using similarity variables that are axisymmetric to achieve a self-similar solution. HAM is employed to solve nonlinear ODEs equations. The impacts of dissimilar parameters on velocity, temperature, concentration and motile density microorganisms are represented by graphical and tables discussion. The results concluded that the flow dramatically differs with thermal conductivity and constant viscosity whereas it is more realistic with thermal conductivity and variable viscosity. The fluid temperature is also strongly connected to the shrinkage of the needle. There are many applications for the fluid flow through a needle, including fuel injection systems, fluid sampling, scientific research, medical injections, electrospinning, laboratory applications, and hydraulic systems.
Realization of 2D Multiferroic with Strong Magnetoelectric Coupling by Intercalation: A First-principles High-throughput Prediction
Authors: Jiang Xue , Zhao Ying , Zhao Jijun , Wang Yanxia , Yang Yue 
Published: March 2024

Abstract

The discovery of novel two-dimensional (2D) multiferroic materials is attractive due to their potential for the realization of information storage and logic devices. Although many approaches have been explored to simultaneously introduce ferromagnetic (FM) and ferroelectric (FE) orders into a 2D material, the resulting systems are often plagued by weak magnetoelectric (ME) coupling or limited room-temperature stability. Here, we present a superlattice strategy to construct non-centrosymmetric AM2X4 multiferroic monolayers, i.e., intercalating transition metal ions (A) into the tetragonal-like vacancies of transition metal dichalcogenide bilayers (MX2). Starting from 960 intercalated AM2X4 compounds, our high-throughput calculations have identified 21 multiferroics with robust magnetic order, large FE polarization, low transition barrier, high FE/ FM transition temperature, and strong ME coupling. According to the origin of magnetism, we have classified them into twelve type-a, seven type-b, and two type-c multiferroics, which also exhibit different ME coupling behavior. During the switching of polarization, the reversal of skyrmions chirality, the transition of magnetic ground state from FM to antiferromagnetic, and the changes in spin polarized electron spatial distribution were observed in type-a, type-b, and type-c 2D multiferroic materials, respectively. These results substantially expand the family of 2D ferroic materials and pave an avenue for designing and implementing nonvolatile logic and memory devices.
Definition and key concepts of high performing health systems: a scoping review
Authors: Perrier Laure , Perreira Tyrone Anthonio , Cho Veronica , Sodhi Sundeep , Karsan Ali , Hassan Hazim , Prokopy Melissa , Dale Anthony , Jonker Anthony , Brown Adalsteinn , Shea Christine 
Published: February 2024

Abstract
Background: The COVID-19 pandemic identified the need to transform health systems globally. The meaning of a high performing health system is often shaped by specific priorities that may not be widely shared. The first step is to determine how high performing is defined in relation to a health system. The objective of this study is to chart the literature on the definitions and key concepts of high performing health care systems.
Methods: A scoping review was conducted by searching the published and unpublished literature. Two reviewers independently screened titles and abstracts, then full-text articles. Data abstraction was performed independently by two investigators. Data were summarized descriptively by allocating concepts or characteristics into categories and reporting frequencies.
Results: A total of 3441 citations and 485 full-text articles were screened independently by two reviewers, and we included 31 primary articles and 38 companion documents in the review. Three independent definitions for a high performance health system were identified. Eighteen research studies reported outcomes on the elements of a high performing health system (56%), system evaluation (33%), and tool development or validation (11%). Knowledge gaps identified were the lack of a common definition, a lack of common indicators, strategies for moving evidence into policy and practice, and difficulties with comparisons across health systems.
Conclusions: We found limited definitions and a lack of empirical evidence on our topic. There is an opportunity for primary research in the area of health systems and high performance.
Scoping review registration: https://osf.io/hdyrq
Comparing Risk of Post Infection Erectile Dysfunction Following SARS Coronavirus 2 Stratified by Acute and Long COVID, Hospitalization Status, and Vasopressor Administration
Authors: Grutman Aurora , Gilliam Kelli , Maremanda Ankith , Able Corey , Choi Una , Alshak Mark , Kohn Taylor 
Published: February 2024

Abstract

No study has yet assessed the risk of developing erectile dysfunction (ED) after a diagnosis of long COVID-19, especially when compared to those diagnosed with only acute COVID or cases in which more severe treatment is required. To assess these risks, we queried the TriNetX COVID-19 Research Network from December 1st 2020 through June 2023. Men aged ≥ 18 diagnosed with long COVID-19 were compared to those diagnosed with acute COVID-19 and analyses were performed to compare men who were/were not hospitalized within 1 month of acute COVID diagnosis and men who did/did not need vasopressors. Cohorts were propensity score matched and compared for differences in new ED diagnosis and/or prescription of phosphodiesterase-5 inhibitors (PDE5i). After propensity score matching, the long and acute COVID cohorts included 2839 men with an average age of 54.5±16.7 years and 55.1±17.1 respectively. Men with long COVID-19 were more likely to develop ED or be prescribed PDE5i (3.63%) when compared to men with only acute COVID-19 infections (2.61%) [RR 1.39; 95% CI 1.04, 1.87]. There was no statistically significant risk of developing ED or being prescribed PDE5i for individuals who received vasopressors [RR 0.922; 95% CI 0.774,1.098] or were hospitalized [RR 0.933; 95% CI 0.824,1.056].
Connectivity modelling identifies sources and sinks of coral recruitment within reef clusters
Authors: Ani Chinenye J. , Haller-Bull Vanessa , Gilmour James , Robson Barbara J. 
Published: March 2024

Abstract

Connectivity aids the recovery of populations following disturbances, such as coral bleaching and tropical cyclones. Coral larval connectivity is a function of physical connectivity and larval behaviour. In this study, we used OceanParcels, a particle tracking simulator, with 2D and 3D velocity outputs from a high resolution hydrodynamic-biogeochemical marine model (RECOM) to simulate the dispersal and settlement of larvae from broadcast spawning Acropora corals in the Moore Reef cluster, northern Great Barrier Reef, following the annual spawning events in 2015, 2016 and 2017. 3D velocity simulations showed 19.40-68.80% more links and sinks than those of 2D simulations. Although the patterns of connectivity among sites vary over days and years, coral larvae consistently dispersed from east to west in the cluster domain, with some sites consistently acting as sources or sinks for local larval recruitment. Results can inform coral reef intervention plans through climate change, such as the design of marine protected areas and the deployment of proposed interventions within reef clusters. For example, the wider benefits of interventions (e.g., deployment of heat adapted corals) may be optimised when deployed at locations that are a source of larvae to others within comparable habitats across the reef cluster.
Genomic characterization of multi drug resistant ESBL-producing Escherichia coli isolates from patients and patient environments in a teaching hospital in Ghana
Authors: Yeboah Esther Eyram Asare , Agyepong Nicholas , Mbanga Joshua , Amoako Daniel Gyamfi , Abia Akebe Luther King , Owusu-Ofori Alexander , Essack Sabiha Yusuf 
Published: February 2024

Abstract
Background: ESBL-producing Escherichia coli pose a growing health risk in community and healthcare settings. We investigated the resistome, virulome, mobilome, and genetic relatedness of multidrug-resistant (MDR) E. coli isolates from patients and their environment in a Ghanaian teaching hospital.
Twenty-three MDR ESBL-producing or carbapenem resistant E. coli isolates from a collection of MDR GNB from patients and environments were selected for genomic analyses. Whole genome sequencing and bioinformatics tools were used to analyze genomic characteristics and phylogeny.
Results: ESBL E. coli rectal carriage prevalence and acquisition incidence among patients were 13.65% and 11.32% respectively. blaTEM-1B (10 isolates) and blaCTX-M-15 (12 isolates) were commonly associated with IncFIB plasmid replicons and co-occurred with aminoglycoside, macrolide, and sulfamethoxazole/trimethoprim resistance. Insertion sequences, transposons, and class I integrons were found with blaCTX-M-15. Carriage and environmental isolates carried multiple virulence genes, with terC being the most prevalent in 21 isolates. Seventeen sequence types (STs) were identified, including two novel STs (ST13846). Phylogenetic analysis grouped the isolates into four main clusters, with one outlier. High genetic relatedness was observed between two carriage isolates of ST940 and between a carriage isolate and an environmental isolate of ST648. Isolates with different STs, collected at different times and locations, also showed genetic similarities.
Conclusion: We identified ESBL-producing E. coli with diverse genomic characteristics circulating in different directorates of the hospital. Clonal relatedness was observed among isolates from patients and the environment, as well as between different patients, suggesting transmission within and between sources.
Elevated total serum IgM predicts the presence of antiphospholipid antibodies in dysautonomia patients
Authors: Schofield Jill R , MA Jill Brook , Calaprice-Whitty Denise 
Published: March 2024

Abstract

Objective: Dysautonomia is an abnormal clinical state with multiple etiologies, including autoimmunity. Antiphospholipid antibodies (aPL) are among the autoantibodies that have been associated with autonomic dysfunction. We have observed that an elevated total serum IgM appears to be associated with the presence of aPL in dysautonomia patients.
Methods: This is a retrospective study analyzing the clinical characteristics of 45 consecutive patients with cardiac autonomic dysfunction and a persistently elevated total serum IgM.
Results: 93% of patients were female with a mean age of 32.7 years. Most patients had severely disabling disease, with a mean Karnofsky-like functional ability score of 42% (normal 100%). 93% of patients tested persistently positive for one or more aPL and all patients tested persistently positive for aPL and/or Sjogren’s antibodies. One third of patients experienced one or more thrombotic events and 58% of patients attempting pregnancy experienced pregnancy morbidity. Lastly, 78% of aPL-positive patients treated with antithrombotic therapy experienced 50 to 100% improvement in one or more symptoms (e.g., migraine, cognitive dysfunction) recognized to be responsive to antithrombotic therapy in a subset of aPL-positive patients and 73% of patients treated with and tolerating immune modulatory therapy experienced a positive response.
Conclusions: We propose total serum IgM as a reliable and inexpensive test that can be used to identify dysautonomia patients at risk for persistent aPL-positivity. These patients are important to identify as they have a significant risk for thrombosis and pregnancy morbidity and often experience significant symptomatic improvement with antithrombotic therapy and/or immune modulatory therapy.