bluuebunny/crossref_metadata_2025_split huggingface dataset:
Involvement of NF-κB1 and the Non-canonical NF-κB Signaling Pathway in the Pathogenesis of Acute Kidney Injury in Shiga-toxin-2-induced Hemolytic-uremic Syndrome in Mice
Authors: Sobbe Isabelle V. , Krieg Nadine , Dennhardt Sophie , Coldewey Sina M. 
Published: May 2020

ABSTRACT
The hemolytic-uremic syndrome (HUS) is a thrombotic microangiopathy which can occur as a severe systemic complication after an infection with Shiga-toxin-(Stx)-producing Escherichia coli (STEC). Elevated levels of proinflammatory cytokines associated with the classical nuclear factor kappa-light-chain-enhancer of activated B-cells (NF-κB) signaling pathway were detected in the urine of HUS patients. Thus, we hypothesize that the immune response of the infected organism triggered by Stx can affect the kidneys and contributes to acute kidney injury. Hitherto, the role of the classical and non-canonical NF-κB signaling pathway in HUS has not been evaluated systematically in vivo. We aimed to investigate in a murine model of Shiga toxin-induced HUS-like disease, whether one or both pathways are involved in the renal pathology in HUS. In kidneys of mice subjected to Stx or sham-treated mice, protein or gene expression analyses were performed to assess the expression of receptors activating the classical and non-canonical pathway, such as Fn14 and CD40, levels of NF-κB1/RelA and NF-κB2/RelB including its upstream signaling proteins, and expression of cytokines as target molecules of both pathways. In line with a higher expression of Fn14 and CD40, we detected an enhanced translocation of NF-κB1 and RelA as well as NF-κB2 and RelB into the nucleus accompanied by an increased gene expression of the NF-κB1-target cytokines Ccl20, Cxcl2, Ccl2, Cxcl1, IL-6, TNF-α, Cxcl10, and Ccl5, indicating an activation of the classical and non-canonical NF-κB pathway. Thereby, we provide, for the first time, in vivo evidence for an involvement of both NF-κB signaling pathways in renal pathophysiology of STEC-HUS.
Saving Lives and Improving the Quality of Pediatric Resuscitation Across the World
Authors: Kessler David O. , Stone Kimberly P. , Chang Todd P. , Dolby Tom , Gray Rebecca , Shilkofski Nicole A. , Deutsch Ellen , Duval-Arnould Jordan , Nadkarni Vinay M. , Cheng Adam , Pusic Martin , Hunt Elizabeth A. 
Published: May 2020

Summary Statement
The International Network for Simulation-based Pediatric Innovation, Research, and Education co-hosted a novel research accelerator meeting with the International Pediatric Simulation Society in May of 2019 in Toronto. The purpose of the meeting was to bring together healthcare simulation scientists with resuscitation stakeholders to brainstorm strategies for accelerating progress in the science of saving pediatric lives from cardiac arrest. This was achieved by working in teams to draft targeted requests for proposals calling the research community to action investigating this topic. During the 1-day meeting, groups were divided into 6 teams lead by experts representing specific domains of simulation research. Teams developed a pitch and presented a sample request for proposals to a panel of expert judges, making a case for why their domain was the most important to create a funding opportunity. The winner of the competition had their specific request for proposal turned into an actual funding opportunity, supported by philanthropy that was subsequently disseminated through International Network for Simulation-based Pediatric Innovation, Research, and Education as a competitive award. An inspired donor supported an award for the second-place proposal as well, evidence of early research acceleration catalyzed from this conference. This article is a summary of the meeting rationale, format, and a description of the requests for proposals that emerged from the meeting. Our goal is to inspire other stakeholders to use this document that leverages simulation and resuscitation science expertise, as the framework to create their own funding opportunities, further accelerating pediatric resuscitation research, ultimately saving the lives of more children worldwide.
COVID-19 in Uganda: Predicting the impact of the disease and public health response on disease burden
Authors: Bell David , Hansen Kristian Schultz , Kiragga Agnes N. , Kambugu Andrew , Kissa John , Mbonye Anthony K. 
Published: May 2020

AbstractObjectiveCOVID-19 transmission and the public health ‘lock-down’ response are now established in sub-Saharan Africa, including Uganda. Population structure and prior morbidities differ markedly between these countries from those where outbreaks were previously established. We predicted the relative impact of COVID-19 and the response in Uganda to understand whether the benefits could be outweighed by the costs.Design and settingAge-based COVID-19 mortality data from China were applied to the population structures of Uganda and countries with previously established outbreaks, comparing theoretical mortality and disability-adjusted life years (DALYs) lost. Based on recent Ugandan data and theoretical scenarios of programme deterioration, we predicted potential additional disease burden for HIV/AIDS, malaria and maternal mortality.Main outcome measuresDALYs lost and mortality.ResultsBased on population age structure alone Uganda is predicted to have a relatively low COVID-19 burden compared to equivalent transmission in China and Western countries, with mortality and DALYs lost predicted to be 12% and 19% that of Italy. Scenarios of ‘lockdown’ impact predict HIV/AIDS and malaria equivalent to or higher than that of an extensive COVID-19 outbreak. Emerging HIV/AIDS and maternal mortality data indicate that such deterioration could be occurring.ConclusionsThe results predict a relatively low COVID-19 impact on Uganda associated with its young population, with a high risk of negative impact on non-COVID-19 disease burden from a prolonged lockdown response. The results are likely to reflect the situation in other sub-Saharan populations, underlining the importance of tailoring COVID-19 responses to population structure and potential disease vulnerabilities.Transparency statementThe lead author affirms that the manuscript is an honest, accurate, and transparent account of the study being reported; that no important aspects of the study have been omitted; and that there are no discrepancies from the study as originally planned.
Preventive behavior of Vietnamese people in response to the COVID-19 pandemic
Authors: Thang Thang Van , Nguyen Nhan Phuc Thanh , Hoang Tuyen Dinh , Tran Vi Thao , Vu Cuc Thi , Nelson Siewe Joseph , Colebunders Robert , Dunne Michael 
Published: May 2020

We sought to evaluate the adherence of Vietnamese adults to COVID-19 preventive measures, and gain insight into the effects of the epidemic on the daily lives of Vietnamese people. An online questionnaire survey was organized from March 31 to April 6, 2020. The questionnaire assessed preventive behavior using multiple answer responses to indicate the extent of adherence. In total, 2175 respondents completed the questionnaire (age range: 18-69 years). The mean adherence scores for personal and community preventive measures were 7.23 ± 1.63 (range 1-9) and 9.57 ± 1.12 (range 1-11), respectively. Perceived adaptation of the community to lockdown (β=2.64, 95% CI 1.25	−4.03), fears/worries concerning one′s health (β=2.87, 95% CI 0.04-5.70), residing in large cities (β=19.40, 95% CI 13.78-25.03), access to official COVID19 information sources (β=16.45, 95% CI 6.82-26.08), and belonging to the healthcare sector (β=22.53, 95% CI 16.00-29.07) were associated with a higher adherence score to anti	−COVID instructions. The study indicates excellent preventive behavior of the Vietnamese population which explains the low number of COVID-19 infections and zero recorded mortality up to the first week of May 2020. Further monitoring is recommended to assess the sustainability of COVID-19 prevention via behavior change in the medium and long-term.
Assessment of dispersion of airborne particles of oral/nasal fluid by high flow nasal cannula therapy
Authors: Jermy Mark C , Spence Callum JT , Kirton Robert , O'Donnell Jane F , Kabaliuk Natalia , Gaw Sally , Jiang Yannan , Zainol Abidin Zulkhairi , Dougherty Ronald L , Rowe Philip , Mahaliyana Anjula , Gibbs Amelia , Roberts Sally 
Published: May 2020

Background
Nasal High Flow (NHF) therapy delivers flows of heated humidified gases up to 60 LPM (litres per minute) via a nasal cannula. Particles of oral/nasal fluid released by patients undergoing NHF therapy may pose a cross-infection risk, which is a potential concern for treating COVID-19 patients.
Methods
Liquid particles within the exhaled breath of healthy participants were measured with two protocols: (1) high speed camera imaging and counting exhaled particles under high magnification (6 participants) and (2) measuring the deposition of a chemical marker (riboflavin-5-monophosphate) at a distance of 100 and 500 mm on filter papers through which air was drawn (10 participants). The filter papers were assayed with HPLC. Breathing conditions tested included quiet (resting) breathing and vigorous breathing (which here means nasal snorting, voluntary coughing and voluntary sneezing). Unsupported (natural) breathing and NHF at 30 and 60 LPM were compared.
Results
(1)	Imaging: During quiet breathing, no particles were recorded with unsupported breathing or 30 LPM NHF (detection limit for single particles 33 microns). Particles were detected in 2 of 6 participants at 60 LPM quiet breathing at approximately 10% of the rate caused by unsupported vigorous breathing. Unsupported vigorous breathing released the greatest numbers of particles. Vigorous breathing with NHF at 60 LPM, released half the number of particles compared to vigorous breathing without NHF.
(2)	Chemical marker tests: No oral/nasal fluid was detected in quiet breathing without NHF (detection limit 0.28 microlitres/m3). In quiet breathing with NHF at 60 LPM, small quantities were detected in 4 out of 29 quiet breathing tests, not exceeding 17 microlitres/m3. Vigorous breathing released 200-1000 times more fluid than the quiet breathing with NHF. The quantities detected in vigorous breathing were similar whether using NHF or not.
Conclusion
During quiet breathing, 60 LPM NHF therapy may cause oral/nasal fluid to be released as particles, at levels of tens of microlitres per cubic metre of air.
Vigorous breathing (snort, cough or sneeze) releases 200 to 1000 times more oral/nasal fluid than quiet breathing. During vigorous breathing, 60 LPM NHF therapy caused no statistically significant difference in the quantity of oral/nasal fluid released compares to unsupported breathing.

NHF use does not increase the risk of dispersing infectious aerosols above the risk of unsupported vigorous breathing. Standard infection prevention and control measures should apply when dealing with a patient who has an acute respiratory infection, independent of which, if any, respiratory support is being used.
Income-based inequalities in self-reported moderate-to-vigorous physical activity among adolescents in England and the United States: a cross-sectional study
Authors: Scholes Shaun , Mindell Jennifer S 
Published: May 2020

ABSTRACTObjectiveQuantify inequalities in self-reported moderate-to-vigorous physical activity (MVPA) in England and the United States (US).DesignPopulation-based cross-sectional study.Participants4019 adolescents aged 11–15 years in England (Health Survey for England 2008, 2012, 2015) and 4312 aged 12–17 years in the US (National Health and Nutrition Examination Survey 2007–16).Main outcome measuresThree aspects of MVPA: (1) doing any, (2) average min/day (MVPA: including those who did none), and (3) average min/day conditional on participation (MVPA-active). Using hurdle models, inequalities were quantified using the absolute difference in marginal means (average marginal effects: AMEs).ResultsIn England, adolescents in high-income households were more likely than those in low-income households to have done any formal sports/exercise in the last seven days (boys: 11%; 95% CI: 4% to 17%; girls: 13%; 95% CI: 6% to 20%); girls in high-income households did more than their low-income counterparts (MVPA: 6 min/day, 95% CI: 2 to 9). Girls in low-income households spent more time in informal activities than girls in high-income households (MVPA: 21 min/day; 95% CI: 10 to 33), whilst boys in low-income versus high-income households spent longer in active travel (MVPA: 21 min/week; 95% CI: 8 to 34). In the US, in a typical week, recreational activity was greater among high-income versus low-income households (boys: 15 min/day; 95% CI: 6 to 24; girls: 19 min/day; 95% CI: 12 to 27). In contrast, adolescents in low-income versus high-income households were more likely to travel actively (boys: 11%; 95% CI: 3% to 19%; girls: 10%; 95% CI: 3% to 17%) and do more.ConclusionsPolicy actions and interventions are required to increase MVPA across all income groups in England and the US. Differences in formal sports/exercise (England) and recreational (US) activities suggest that additional efforts are required to reduce inequalities.
Social heterogeneity and the COVID-19 lockdown in a multi-group SEIR model
Authors: Dolbeault Jean , Turinici Gabriel 
Published: May 2020

AbstractThe goal of the lockdown is to mitigate and if possible prevent the spread of an epidemic. It consists in reducing social interactions. This is taken into account by the introduction of a factor of reduction of social interactions q, and by decreasing the transmission coefficient of the disease accordingly. Evaluating q is a difficult question and one can ask if it makes sense to compute an average coefficient q for a given population, in order to make predictions on the basic reproduction rate ℛ0, the dynamics of the epidemic or the fraction of the population that will have been infected by the end of the epidemic. On a very simple example, we show that the computation of ℛ0 in a heterogeneous population is not reduced to the computation of an average q but rather to the direct computation of an average coefficient ℛ0. Even more interesting is the fact that, in a range of data compatible with the Covid-19 outbreak, the size of the epidemic is deeply modified by social heterogeneity, as is the height of the epidemic peak, while the date at which it is reached mainly depends on the average ℛ0 coefficient. This paper illustrates more technical results that can be found in [4], with new numerical computations. It is intended to draw the attention on the role of heterogeneities in a population in a very simple case, which might be difficult to apprehend in more realistic but also more complex models.
Data-driven analysis on the simulations of the spread of COVID-19 under different interventions of China
Authors: Tian Ting , Zhang Jingwen , Lin Shiyun , Jiang Yukang , Tan Jianbin , Li Zhongfei , Wang Xueqin 
Published: May 2020

ABSTRACTSince February 2020, COVID-19 has spread rapidly to more than 200 countries in the world. During the pandemic, local governments in China have implemented different interventions to efficiently control the spread of the epidemic. Characterizing transmission of COVID-19 under some typical interventions is essential to help countries develop appropriate interventions. Based on the pre-symptomatic transmission patterns of COVID-19, we established a novel compartmental model: Baysian SIHR model with latent Markov structure, which treated the numbers of infected and infectious individuals without isolation to be the latent variables and allowed the effective reproduction number to change over time, thus the effects of policies could be reasonably estimated. By using the epidemic data of Wuhan, Wenzhou and Shenzhen, we migrated the corresponding estimated policy modes to South Korea, Italy, and the United States and simulated the potential outcomes for these countries when they adopted similar policy strategies of three cities in China. We found that the mild interventions implemented in Shenzhen were effective to control the epidemic in the early stage, while more stringent policies which were issued in Wuhan and Wenzhou were necessary if the epidemic was more severe and needed to be controlled in a short time.
The specificity of Japanese PCR assays for SARS-CoV-2 exceeds 99.7%
Authors: Tsukadaira Akihiro , Nishie Kenichi 
Published: May 2020

AbstractThe Japanese government arranged a total of three charter flights to evacuate Japanese residents out of Wuhan Jan 29, 30, and 31, 2020. The project to rescue Japanese residents can be recognized as a randomized sampling study for the COVID-19 epidemic in Wuhan at that time. Jan 23, Jonathan MR et al stated in the medRxiv, in 14 days’ time (Feb 4, 2020), the number of infected people in Wuhan is estimated to be greater than 190 thousand (prediction interval, 132,751 to 273,649). In our study, the estimation of the COVID-19 cases in Wuhan around Jan 29, 30 and 31, 2020 exceeds the lower prediction 132,751 in the prior probability: 0.0134. Our statistical analysis is consistent with Jonathan MR et al, if the specificity of SARS–CoV–2 PCR assays in Japan exceeds 99.7%.
IL-6 inhibition in critically ill COVID-19 patients is associated with increased secondary infections
Authors: Kimmig Lucas M. , Wu David , Gold Matthew , Pettit Natasha N , Pitrak David , Mueller Jeffery , Husain Aliya N. , Mutlu Ece A. , Mutlu Gökhan M. 
Published: May 2020

ABSTRACTBackgroundAnti-inflammatory therapies such as IL-6 inhibition have been proposed for COVID-19 in a vacuum of evidence-based treatment. However, abrogating the inflammatory response in infectious diseases may impair a desired host response and predispose to secondary infections.MethodsWe retrospectively reviewed the medical record of critically ill COVID-19 patients during an 8-week span and compared the prevalence of secondary infection and outcomes in patients who did and did not receive tocilizumab. Additionally, we included representative histopathologic post-mortem findings from several COVID-19 cases that underwent autopsy at our institution.Results111 patients were identified, of which 54 had received tocilizumab while 57 had not. Receiving tocilizumab was associated with a higher risk of secondary bacterial (48.1% vs. 28.1%, p=0.029 and fungal (5.6% vs. 0%, p=0.112) infections. Consistent with higher number of infections, patients who received tocilizumab had higher mortality (35.2% vs. 19.3%, p=0.020). Seven cases underwent autopsy. In 3 cases who received tocilizumab, there was evidence of pneumonia on pathology. Of the 4 cases that had not been given tocilizumab, 2 showed evidence of aspiration pneumonia and 2 exhibited diffuse alveolar damage.ConclusionsExperimental therapies are currently being applied to COVID-19 outside of clinical trials. Anti-inflammatory therapies such as anti-IL-6 therapy have the potential to impair viral clearance, predispose to secondary infection, and cause harm. We seek to raise physician awareness of these issues and highlight the need to better understand the immune response in COVID-19.
dadasnake, a Snakemake implementation of DADA2 to process amplicon sequencing data for microbial ecology
Authors: Weiβbecker Christina , Schnabel Beatrix , Heintz-Buschart Anna 
Published: May 2020

AbstractBackgroundAmplicon sequencing of phylogenetic marker genes, e.g. 16S, 18S or ITS rRNA sequences, is still the most commonly used method to determine the composition of microbial communities. Microbial ecologists often have expert knowledge on their biological question and data analysis in general, and most research institutes have computational infrastructures to employ the bioinformatics command line tools and workflows for amplicon sequencing analysis, but requirements of bioinformatics skills often limit the efficient and up-to-date use of computational resources.Resultsdadasnake wraps pre-processing of sequencing reads, delineation of exact sequence variants using the favorably benchmarked, widely-used the DADA2 algorithm, taxonomic classification and post-processing of the resultant tables, and hand-off in standard formats, into a user-friendly, one-command Snakemake pipeline. The suitability of the provided default configurations is demonstrated using mock-community data from bacteria and archaea, as well as fungi.ConclusionsBy use of Snakemake, dadasnake makes efficient use of high-performance computing infrastructures. Easy user configuration guarantees flexibility of all steps, including the processing of data from multiple sequencing platforms. dadasnake facilitates easy installation via conda environments. dadasnake is available athttps://github.com/a-h-b/dadasnake.
Risk interactions of coronavirus infection across age groups after the peak of COVID-19 epidemic
Authors: Yu Xinhua 
Published: May 2020

AbstractBackgroundthe COVID-19 pandemic has incurred significant disease burden worldwide, particularly on elderly population. This study aims to explore how risks of infection interact across age groups using data from South Korea.MethodsDaily new COVID-19 cases from March 10 to April 30, 2020 were scraped from online open sources. A multivariate vector autoregressive model for time series count data was used to examine the risk interactions across age groups. Case counts from previous days were included as predictors to dynamically examine the change of risk patterns.ResultsIn South Korea, the risk of coronavirus infection among elderly people was significantly affected by other age groups. An increase of virus infection among people aged 20-39 was associated with a double risk of infection among elderly people. Meanwhile, an increase in virus infection among elderly people was also significantly associated with risks of infection among other age groups. The risks of infection among younger people were relatively unaffected by that of other age groups.ConclusionsProtecting elderly people from coronavirus infection could not only reduce the risk of infection among themselves but also ameliorate the risks of virus infection among other age groups. Such interventions should be effective and for long term.