bluuebunny/crossref_metadata_2025_split huggingface dataset:
Transcriptome of nasopharyngeal samples from COVID-19 patients and a comparative analysis with other SARS-CoV-2 infection models reveal disparate host responses against SARS-CoV-2
Authors: Islam Abul Bashar Mir Md. Khademul , Khan Md. Abdullah-Al-Kamran , Ahmed Rasel , Hossain Md. Sabbir , Kabir Shah Md. Tamim , Islam Md. Shahidul , Siddiki A. M. A. M. Zonaed 
Published: January 2021

AbstractBackgroundAlthough it is becoming evident that individual’s immune system has a decisive influence on SARS-CoV-2 disease progression, pathogenesis is largely unknown. In this study, we aimed to profile the host transcriptome of COVID-19 patients from nasopharyngeal samples along with virus genomic features isolated from respective host, and a comparative analyses of differential host responses in various SARS-CoV-2 infection systems.ResultsUnique and rare missense mutations in 3C-like protease observed in all of our reported isolates. Functional enrichment analyses exhibited that the host induced responses are mediated by innate immunity, interferon, and cytokine stimulation. Surprisingly, induction of apoptosis, phagosome, antigen presentation, hypoxia response was lacking within these patients. Upregulation of immune and cytokine signaling genes such asCCL4, TNFA, IL6, IL1A, CCL2, CXCL2, IFN,andCCR1were observed in lungs. Lungs lacked the overexpression of ACE2 as suspected, however, highACE2but lowDPP4expression was observed in nasopharyngeal cells. Interestingly, directly or indirectly, viral proteins specially non-structural protein mediated overexpression of integrins such asITGAV, ITGA6, ITGB7, ITGB3, ITGA2B, ITGA5, ITGA6, ITGA9, ITGA4, ITGAE,andITGA8in lungs compared to nasopharyngeal samples suggesting the possible way of enhanced invasion. Furthermore, we found comparatively highly expressed transcription factors such as CBP, CEBP, NFAT, ATF3, GATA6, HDAC2, TCF12 which have pivotal roles in lung injury.ConclusionsEven though this study incorporates a limited number of cases, our data will provide valuable insights in developing potential studies to elucidate the differential host responses on the viral pathogenesis in COVID-19, and incorporation of further data will enrich the search of an effective therapeutics.
Analysis and forecast of dengue incidence in urban Colombo, Sri Lanka
Authors: Erandi KKWH , Perera SSN , Mahasinghe AC 
Published: January 2021

Abstract
Background
Understanding the dynamical behavior of dengue transmission is essential in designing control strategies. Mathematical models have become an important tool in describing the dynamics of a vector borne disease. Classical compartmental models are well–known method used to identify the dynamical behavior of spread of a vector borne disease. Due to use of fixed model parameters, the results of classical compartmental models do not match realistic nature. The aim of this study is to introduce time in varying model parameters, modify the classical compartmental model by improving its predictability power.

Results
In this study, per–capita vector density has been chosen as the time in varying model parameter. The dengue incidences, rainfall and temperature data in urban Colombo are analyzed using Fourier mathematical analysis tool. Further, periodic pattern of the reported dengue incidences and meteorological data and correlation of dengue incidences with meteorological data are identified to determine climate data–driven per–capita vector density parameter function. By considering that the vector dynamics occurs in faster time scale compares to host dynamics, a two dimensional data–driven compartmental model is derived with aid of classical compartmental models. Moreover, a function for per–capita vector density is introduced to capture the seasonal pattern of the disease according to the effect of climate factors in urban Colombo.

Conclusions
The two dimensional data–driven compartmental model can be used to predict weekly dengue incidences upto 4 weeks. Accuracy of the model is evaluated using relative error function and the model can be used to predict more than 75% accurate data.
Modulation of BRD4 in HIV epigenetic regulation: implications for finding an HIV cure
Authors: Alamer Edrous , Zhong Chaojie , Hajnik Renee , Soong Lynn , Hu Haitao 
Published: January 2021

AbstractFollowing reverse transcription, HIV viral DNA is integrated into host cell genomes and establishes a stable latent infection, which has posed a major obstacle for obtaining a cure for HIV. HIV proviral transcription is regulated in cellular reservoirs by complex host epigenetic and transcriptional machineries. The Bromodomain (BD) and Extra-Terminal Domain (ET) protein, BRD4, is an important epigenetic reader that interacts with acetyl-histones and a variety of chromatin and transcriptional regulators to control gene expression, including HIV. Modulation of BRD4 by a pan BET inhibitor (JQ1) has been shown to activate HIV transcription. Recent studies by my group and others indicate that the function of BRD4 is versatile and its effects on HIV transcription may depend on the partner proteins or pathways engaged by BRD4. Our studies have reported a novel class of small-molecule modulators that are distinct from JQ1 but induce HIV transcriptional suppression through BRD4. Herein, we reviewed recent research on the modulation of BRD4 in HIV epigenetic regulation and discussed their potential implications for finding an HIV cure.
Association between breakfast skipping and metabolic outcomes by sex, age, and work status stratification
Authors: Heo Jun , Choi Won-Jun , Ham Seunghon , Kang Seong-Kyu , Lee Wanhyung 
Published: January 2021

Abstract
Background
The association between breakfast skipping and abnormal metabolic outcomes remains controversial. A comprehensive study with various stratified data is required.

Objective
The aim of this study was to investigate the relationship between abnormal metabolic outcomes and breakfast skipping by sex, age, and work status stratification.

Methods
We used data from the Korea National Health and Nutrition Examination Surveys from 2013 to 2018. A total of 21,193 (9022 men and 12,171 women) participants were included in the final analysis. The risk of metabolic outcomes linked to breakfast skipping was estimated using the negative binomial regression analysis by sex, work status, and age stratification.

Results
A total of 11,952 (56.4%) participants consumed breakfast regularly. The prevalence of abnormal metabolic outcomes was higher among those with irregular breakfast consumption habits. Among young male workers, negative binomial regression analysis showed that irregular breakfast eaters had a higher risk of abnormal metabolic outcomes, after adjusting for covariates (odds ratio, 1.15; 95% confidence interval, 1.03–1.27).

Conclusions
The risk of abnormal metabolic outcomes was significant in young men in the working population. Further studies are required to understand the association of specific working conditions (working hours or shift work) with breakfast intake status and the risk of metabolic diseases.
Cardiovascular health impacts of wildfire smoke exposure
Authors: Chen Hao , Samet James M. , Bromberg Philip A. , Tong Haiyan 
Published: January 2021

AbstractIn recent years, wildland fires have occurred more frequently and with increased intensity in many fire-prone areas. In addition to the direct life and economic losses attributable to wildfires, the emitted smoke is a major contributor to ambient air pollution, leading to significant public health impacts. Wildfire smoke is a complex mixture of particulate matter (PM), gases such as carbon monoxide, nitrogen oxide, and volatile and semi-volatile organic compounds. PM from wildfire smoke has a high content of elemental carbon and organic carbon, with lesser amounts of metal compounds. Epidemiological studies have consistently found an association between exposure to wildfire smoke (typically monitored as the PM concentration) and increased respiratory morbidity and mortality. However, previous reviews of the health effects of wildfire smoke exposure have not established a conclusive link between wildfire smoke exposure and adverse cardiovascular effects. In this review, we systematically evaluate published epidemiological observations, controlled clinical exposure studies, and toxicological studies focusing on evidence of wildfire smoke exposure and cardiovascular effects, and identify knowledge gaps. Improving exposure assessment and identifying sensitive cardiovascular endpoints will serve to better understand the association between exposure to wildfire smoke and cardiovascular effects and the mechanisms involved. Similarly, filling the knowledge gaps identified in this review will better define adverse cardiovascular health effects of exposure to wildfire smoke, thus informing risk assessments and potentially leading to the development of targeted interventional strategies to mitigate the health impacts of wildfire smoke.
Community health workers’ involvement in the prevention and control of non-communicable diseases in Wakiso District, Uganda
Authors: Musoke David , Atusingwize Edwinah , Ikhile Deborah , Nalinya Sarah , Ssemugabo Charles , Lubega Grace Biyinzika , Omodara Damilola , Ndejjo Rawlance , Gibson Linda 
Published: January 2021

Abstract
Background
Community health workers (CHWs) are an important cadre of the global health workforce as they are involved in providing health services at the community level. However, evidence on the role of CHWs in delivering interventions for non-communicable diseases (NCDs) in Uganda is limited. This study, therefore, assessed the involvement of CHWs in the prevention and control of NCDs in Wakiso District, Uganda with a focus on their knowledge, attitudes and practices, as well as community perceptions.

Methods
A cross-sectional study using mixed methods was conducted which involved a structured questionnaire among 485 CHWs, and 6 focus group discussions (FGDs) among community members. The study assessed knowledge, perceptions including the importance of the various risk factors, and the current involvement of CHWs in NCDs, including the challenges they faced. Quantitative data were analysed in STATA version 13.0 while thematic analysis was used for the qualitative data.

Results
The majority of CHWs (75.3%) correctly defined what NCDs are. Among CHWs who knew examples of NCDs (87.4%), the majority mentioned high blood pressure (77.1%), diabetes (73.4%) and cancer (63.0%). Many CHWs said that healthy diet (86.2%), physical activity (77.7%), avoiding smoking/tobacco use (70.9%), and limiting alcohol consumption (63.7%) were very important to prevent NCDs. Although more than half of the CHWs (63.1%) reported being involved in NCDs activities, only 20.9 and 20.6% had participated in community mobilisation and referral of patients respectively. The majority of CHWs (80.1%) who were involved in NCDs prevention and control reported challenges including inadequate knowledge (58.4%), lack of training (37.6%), and negative community perception towards NCDs (35.1%). From the FGDs, community members were concerned that CHWs did not have enough training on NCDs hence lacked enough information. Therefore, the community did not have much confidence in them regarding NCDs, hence rarely consulted them concerning these diseases.

Conclusions
Despite CHWs having some knowledge on NCDs and their risk factors, their involvement in the prevention and control of the diseases was low. Through enhanced training and community engagement, CHWs can contribute to the prevention and control of NCDs, including health education and community mobilisation.
Immigration, perceived discrimination and mental health: evidence from Venezuelan population living in Peru
Authors: Mougenot Benoît , Amaya Elard , Mezones-Holguin Edward , Rodriguez-Morales Alfonso J. , Cabieses Báltica 
Published: January 2021

Abstract
Background
The association between international migration and mental health is conditioned to several factors, and discrimination may play a significant role. Currently, Peru is one of the principal Venezuelan migrant-receiving countries in Latin America. There are around one million Venezuelan refugees and migrants in the country. This study evaluates the association between self-perceived discrimination and mental health problems in Venezuelan population living in Peru.

Method
We analyzed data from the Venezuelan Population Residing in Peru Survey 2018, a nationally representative urban sample aimed at collecting information on several dimensions of Venezuelan population wellbeing. We applied logistic regression models to assess the association between self-perceived discrimination and mental health problems. Moreover, we applied the propensity score matching method as a robustness check of our results.

Results
Of 9487 Venezuelans surveyed, 6806 included complete information. From this sample, 6.3% reported mental health problems related to fear, anger, anxiety, or stress. Logistic regression models showed that Venezuelans who perceived being discriminated against had 2.4 higher odds of presenting mental health problems than their non-discriminated counterparts. Moreover, propensity score matching models showed that Venezuelans who perceived being discriminated against increased by 3.5 percentage points their probability of presenting mental health problems compared to their non-discriminated counterparts.

Conclusions
There is evidence that self-perceived discrimination is associated with mental health deterioration in Venezuelan migrants living in Peru. Our findings are relevant in the current geopolitical context and could be useful in the decision making processes in international health.
Oxidative stress and DNA damage in agricultural workers after exposure to pesticides
Authors: Ledda Caterina , Cannizzaro Emanuele , Cinà Diana , Filetti Vera , Vitale Ermanno , Paravizzini Gianluca , Di Naso Concettina , Iavicoli Ivo , Rapisarda Venerando 
Published: January 2021

Abstract
Background
Recent epidemiological studies on workers describe that exposure to pesticides can induce oxidative stress by increased production of free radicals that can accumulate in the cell and damage biological macromolecules, for example, RNA, DNA, DNA repair proteins and other proteins and/or modify antioxidant defense mechanisms, as well as detoxification and scavenger enzymes. This study aimed to assess oxidative stress and DNA damage among workers exposed to pesticides.

Methods
For this purpose, 52 pesticide exposed workers and 52 organic farmers were enrolled. They were assessed: the pesticide exposure, thiobarbituric acid reactive substances (TBARS), total glutathione (TG), oxidized glutathione levels (GSSG), and 8-oxo-7,8-dihydro-2′-deoxyguanosine (8-oxodG), levels.

Results
Correlation between pesticide exposure was positively associated with high TBARS and 8-oxodG levels (p <  0.001). A negative association was founded with TG and GSSG and pesticide exposure.

Conclusions
The present investigation results seem to indicate a mild augment in oxidative stress associated with pesticide exposure, followed by an adaptive response to increase the antioxidant defenses to prevent sustained oxidative adverse effects stress.
Ethnoecology of miriti (Mauritia flexuosa, L.f.) fruit extraction in the Brazilian Amazon: knowledge and practices of riverine peoples contribute to the biodiversity conservation
Authors: Barros Flávio Bezerra , de Sousa Fagner Freires , de Andrade Josiele Pantoja , Ramos Fabrício Menezes , Vieira-da-Silva Camila 
Published: January 2021

Abstract
Background
This article presents, from an ethnoecological perspective, the worldviews, traditional knowledge, and cultural practices of Amazonian riverine people involved in the extraction of miriti fruits (Mauritia flexuosa L.f.), in a context of increasing market demand for miriti fruits and of pressure for the intensification of açaí (Euterpe oleracea Mart.) production on the Sirituba island, in Abaetetuba, Brazil.

Methods
Methods used were participant observation and non-directive interviews with 22 extractive families of miriti from the Santa Maria and Costa Sirituba communities, on Sirituba Island, in Abaetetuba, Pará, Brazil. Non-structured interviews were used to analyze the knowledge about the species, history of miriti extraction, the traditions, and innovations related to this activity over time. Participant observation took place when riverine individuals were working with miriti fruits, in order to grasp the “codes” that permeate the human-nature relationships embedded in this production system.

Results
It was verified that the riverine peoples have a great knowledge about the palm tree, which is reflected in their own classification systems and management practices that allow the sustainable extraction of the fruits, avoiding, for example, cutting the miriti palms. In addition, a reciprocity relationship was observed between riverine peoples and miriti palm that are personified and preserved, contributing to the conservation of the species in the floodplain, even with the intensification of açaí (Euterpe oleracea Mart.) production. Another important aspect is the collective work involving all the members of the family, which allows the appropriation of the knowledge about the extraction of miriti by the young, allowing the resistance of the tradition that remains strong, contributing to the sustainability of the practice and conservation of biodiversity in the Amazonian floodplain.

Conclusion
The k-c-p complex inherent to the riverine universe allows, even in face of the growing commercial demand for miriti fruits and the unchallenged increase in the extraction of this product, the conservation of floodplain biodiversity. Thus, we emphasize the importance of traditional knowledge and practices for biodiversity preservation, and they use them to guide public policies and natural resource management systems, aiming for sustainable ways to manage and use biodiversity.
Effect of collaborative quality improvement on stillbirths, neonatal mortality and newborn care practices in hospitals of Telangana and Andhra Pradesh, India: evidence from a quasi-experimental mixed-methods study
Authors: Zamboni Karen , Singh Samiksha , Tyagi Mukta , Hill Zelee , Hanson Claudia , Schellenberg Joanna 
Published: January 2021

Abstract
Background
Improving quality of care is a key priority to reduce neonatal mortality and stillbirths. The Safe Care, Saving Lives programme aimed to improve care in newborn care units and labour wards of 60 public and private hospitals in Telangana and Andhra Pradesh, India, using a collaborative quality improvement approach. Our external evaluation of this programme aimed to evaluate programme effects on implementation of maternal and newborn care practices, and impact on stillbirths, 7- and 28-day neonatal mortality rate in labour wards and neonatal care units. We also aimed to evaluate programme implementation and mechanisms of change.

Methods
We used a quasi-experimental plausibility design with a nested process evaluation. We evaluated effects on stillbirths, mortality and secondary outcomes relating to adherence to 20 evidence-based intrapartum and newborn care practices, comparing survey data from 29 hospitals receiving the intervention to 31 hospitals expected to receive the intervention later, using a difference-in-difference analysis. We analysed programme implementation data and conducted 42 semi-structured interviews in four case studies to describe implementation and address four theory-driven questions to explain the quantitative results.

Results
Only 7 of the 29 intervention hospitals were engaged in the intervention for its entire duration. There was no evidence of an effect of the intervention on stillbirths [DiD − 1.3 percentage points, 95% CI − 2.6–0.1], on neonatal mortality at age 7 days [DiD − 1.6, 95% CI − 9–6.2] or 28 days [DiD − 3.0, 95% CI − 12.9—6.9] or on adherence to target evidence-based intrapartum and newborn care practices. The process evaluation identified challenges in engaging leaders; challenges in developing capacity for quality improvement; and challenges in activating mechanisms of change at the unit level, rather than for a few individuals, and in sustaining these through the creation of new social norms.

Conclusion
Despite careful planning and substantial resources, the intervention was not feasible for implementation on a large scale. Greater focus is required on strategies to engage leadership. Quality improvement may need to be accompanied by clinical training. Further research is also needed on quality improvement using a health systems perspective.
Economic evaluation of a web-based menu planning intervention to improve childcare service adherence with dietary guidelines
Authors: Reeves Penny , Edmunds Kim , Szewczyk Zoe , Grady Alice , Yoong Sze Lin , Wolfenden Luke , Wyse Rebecca , Finch Meghan , Stacey Fiona , Wiggers John , Searles Andrew 
Published: January 2021

Abstract
Background
Despite the known benefits of healthy eating in childhood, few Australian childcare services provide food that is consistent with dietary guidelines. The effectiveness of a web-based menu planning intervention to increase childcare service provision of healthy foods and decrease provision of discretionary foods in long day-care services in Australia was assessed in a randomised controlled trial. Here we consider the costs, consequences, cost-effectiveness and budget impact of the intervention using data collected within the trial.

Methods
The prospective trial-based economic evaluation involved 54 childcare services across New South Wales (NSW), Australia. Services were randomised to a 12-month intervention or usual care. The intervention involved access to a web-based menu planning and decision support tool and online resources. Effectiveness measures included mean number of food groups, overall menu and individual food group compliance with dietary guidelines, and mean servings of food groups at 12 months. Costs (reported in $AUD, 2017/18) were evaluated from both health sector and societal perspectives. The direct cost to support uptake of the intervention was calculated, as were costs to each childcare service. The incremental cost of the intervention was calculated as the net difference in the cost to undertake menu planning and review plus the direct cost of the intervention. Incremental cost-effectiveness ratios (ICERs) including uncertainty intervals were estimated for differences in costs and effects between intervention and control groups. A relative value index was calculated to determine overall value for money.

Results
Over the 12 months of the trial, we calculated a difference in cost between usual practice and intervention groups of − $482 (95% UI − $859, − $56). While the measured increase in menu and food group compliance within the trial did not reach statistical significance, there were significant improvements in mean servings of fruit and discretionary food, represented in the cost-consequence analysis. The calculated relative value index of 1.1 suggests that the intervention returns acceptable value for money for the outcomes generated.

Conclusion
Compared to usual practice, web-based programmes may offer an efficient and sustainable alternative for childcare services to improve the provision of healthy foods to children in their care.

Trial registration
Australian New Zealand Clinical Trials Registry ACTRN12616000974404