bluuebunny/crossref_metadata_2025_split huggingface dataset:
What is the Impact of Enterococcus Faecalis Infection on Gastric Cancer; Friend or Foe?
Authors: Türk Seyhan , Türk Can , Temirci Elif Sena , Malkan Umit Yavuz , Ucar Gulberk , Ozguven Sukru Volkan 
Published: September 2020

Abstract
Background: Enterococcus faecalis (E. faecalis) is an important commensal microbiota member of the human gastrointestinal tract. Many studies have shown that infection rates with E. faecalis increase significantly in gastric cancer. The infections that developed during the cancer progress are definitive scientific evidence, but it is still not clear whether this effect is in the benefit (decrease in metastasis) or damage of the host (increase in proliferation, invasion, stem cell like phenotype) due to the infection factor. These opposed data can provide significant contrubition in the understanding of cancer progress when it is analyzed detailed. Methods: In this study, we determined altered genes related to E. faecalis infection in gastric cell line MKN74 and relevant pathways to figure out whether infection slows or accelerates cancer progression. The gene expression data were retrieved from Array Express (E-MEXP-3496). Variance, t-test and linear regression analysis, hierarchical clustering, network, and pathway analysis were performed. Results: We determined 12 genes corresponding 15 probesets expressions were downregulated following the live infection of gastric cancer cells with E. faecalis. We identified the network between these genes and the pathways to which they belong. Pathway analysis results have shown that these genes are mostly associated with cancer cell proliferation. Conclusions: Almost all of the genes that we detected as significantly downregulated have an adverse effect especially on the proliferation of cancer cells in the process of infection. In this case, it seems that E. faecalis infection may be an important factor that slows gastric cancer proliferation.
Optimizing Literature Search: TEMAS, A New Text-Mining Algorithm-Assisted Search Tool
Authors: Bonnet Emmanuel , Jean-Pierre Daurès , Paul Landais 
Published: September 2020

Abstract
Background: Literature search is challenging when thousands of articles are potentially involved. To facilitate literature search we created TEMAS a Text Mining Algorithm-assisted Search tool that we compared to a PubMed reference search (RS) in the context of etiological epidemiology.Methods: The 4 steps of TEMAS are: 1) a classic PubMed global search 2) a first sort removing articles without abstracts or containing off-topic terms 3) a clustering step with a descending hierarchical classification regrouping articles in independent classes 4) a final sort extracting from the targeted class the abstracts containing the terms of interest, with a link to the corresponding PubMed articles. Validation was performed for risk factors of breast cancer. We estimated the precision and recall rate compared to RS. Average precision and discounted cumulative gain (DCG) were also computed to perform a ranking-based evaluation. We also compared TEMAS results with articles selected in two meta-analyses.Results: For risk factors of breast cancer, breastfeeding, mammographic density, oral contraceptive, and menarche were explored. TEMAS consistently increased precision vs RS (from 23% to 32%), with a recall rate from 95% to 97%, and divided the number of selected articles to read from 2.3 to 4.8 times. Mean average precision for 100 articles was 47.4% for TEMAS vs 20.9% for PubMed ranked by best match, and DCG showed a consistent improvement for TEMAS compared to PubMed best match.Discussion: TEMAS divided the results of a literature search by 3.2, and improved the precision rate, the average precision, and the DCG compared to RS for epidemiological studies. Reducing the number of selected articles inevitably impacted the recall rate. However, it remained satisfactory and did not bias the corpus of information. Moreover, the recall rate was 100% for the two meta-analyses we analyzed, which suggests that the loss of recall rate observed above concerned articles not relevant enough to be included in the meta-analyses.Conclusion: TEMAS provides a user-friendly interface for non-specialists of literature search confronted with thousands of articles and appeared useful for meta-analyses.
Prevalence of Unrecognized Depression and Associated Factors Among Newly Diagnosed People Living with HIV/AIDS in West Shoa Zone, Ethiopia 2019, Cross-Sectional Study
Authors: Tiki Takele Kejela , Tusa Teferra Likassa , Tadesse Esayas , Gobena Mulugeta 
Published: September 2020

Abstract
Background: Clinical depression has been associated with various chronic disease conditions. The chronic course of HIV, fostered by the use of antiretroviral therapy in infected patients, puts them at risk of developing clinical depression which unfortunately, is often undiagnosed and therefore untreated. This study aimed to assess Prevalence of unrecognized depression and associated factors among newly diagnosed people living with HIV/AIDS in west shoa zone, oromia regional state, central Ethiopia. Method: Institutional-based cross-sectional study was implemented in 2019. A total of 429 newly diagnosed HIV-positive patients who had regular visit at selected public health facilities in west shoa zone, oromia regional state, central Ethiopia were included in the study. Systematic random sampling technique was used to recruit study participants. Patient Health Questionnaire item nine (PHQ-9) was used to assess depressive symptoms. In addition to this, HIV perceived stress scale was used to assess HIV-related perceived stress. Result: A total of 429 study participants were included in the study, giving a response rate of 100%. The mean age of the respondents was 37 years (SD ± 10.04). This study revealed that 47.3% of HIV-positive patients had depression. Patients who had opportunity infection [AOR = 2.15, (95% CI 1.41, 3.29)], HIV-related perceived stress [AOR = 2.23, (95% CI 1.44, 3.46)] and CD4 cell count < 200 [AOR = 1.94, (95% CI 1.25, 3.02)] were more likely to have depression as compared to individuals who had no opportunity infection, no perceived HIV stress and CD4 cell count > 200, respectively.Conclusion and recommendation: Having HIV-related perceived stress and opportunity infection of participant had statistically significant association with undiagnosed depressive. Training of health workers in ART clinics and availing manuals on assessing mental health issues is useful to screen and treat depression among HIV patients.
The economic burden of influenza-like illness among children, chronic disease patients and the elderly in China: a national cross-sectional survey
Authors: Lai Xiaozhen , Rong Hongguo , Ma Xiaochen , Hou Zhiyuan , Li Shunping , Jing Rize , Zhang Haijun , Lyu Yun , Wang Jiahao , Feng Huangyufei , Peng Zhibin , Feng Luzhao , Fang Hai 
Published: September 2020

Abstract
Background: The disease burden of seasonal influenza is substantial in China, while there is still a lack of nation-wide economic burden estimates. This study aims to examine influenza-like illness (ILI) prevalence, healthcare seeking behaviors, economic impact of ILI and its influencing factors among children, chronic disease patients and the elderly during the 2018–19 influenza season.Methods: From August to October 2019, 6668 children’s caregivers, 1735 chronic disease patients, and 3849 elderly people were recruited from ten provinces in China to participate in an on-site survey. The economic burden of ILI consisted of direct (medical or non-medical) and indirect burden, and multivariate linear regression was adopted to predict the influencing factors of total economic burden.Results: There were 45.73% children, 16.77% chronic disease patients and 12.70% elderly people reporting ILI, and most participants chose “Outpatient service only”, “Over-the-counter (OTC) medication only” or “Outpatient + OTC” after ILI. The average total economic burden of ILI was 1848 yuan (USD266.1) for children, 1105 yuan (USD159.1) for chronic disease patients and 2064 yuan (USD297.2) for the elderly. Multivariate linear regression showed that boys, the only child in family, and urban adult residents tended to have larger economic burden after ILI.Conclusions: Large economic burden of ILI was highlighted, especially among the elderly with less income and larger medical burden, as well as children with higher prevalence and higher self-payment ratio. It is important to adopt targeted interventions for high-risk groups, and this study can help national-level decision-making on the introduction of influenza vaccination as public health project.
Impact of Antibiotics Residues on Food Microbiological Quality in Togo: Cases of Chicken Meat and Eggs
Authors: GAMBOGOU Banfitebiyi , GNAMEY Abla Judith Estelle , MENSAH Raouf T. , DIABANGOUAYA Délia Carmen , KANGNI-DOSSOU Messanh , AMEYAPOH Yaovi A. 
Published: September 2020

Abstract
Purpose: The use of antibiotics in veterinary medicine has greatly promoted the intensification of animal production in recent decades. However, the improper use of these veterinary antibiotics causes their residues to be present in foodstuffs of animal origin and thus creates public health issues. Thus, the aim of this study is to assess the impact of the presence of antibiotic residues on bacteriological quality of meat and chicken eggs in Togo.Methodology: a survey was carried out among hundred chicken farmers in six markets in the city of Lomé. Then, AFNOR's routine method and the rapid Test method (Premi test) were used to assess the bacteriological quality and the presence of antibiotics in Chicken meats (54 samples) and eggs (36 samples). The statistical analysis is done with software SPSS v25.Results: The results of surveys of our operators have shown that broilers and laying hens are the most represented in the six markets. None of the interviewees ever received any training in biosecurity, food security and good hygiene practice. Out of 90 samples analyzed, 18.89% are positive for antibiotic residues with 99.51% of correlation between antibiotic residues and origin of the sample (p<0.05). Regarding microbiological quality, 16,7% (13/78) of compliance sample are positive to antibiotic residues and 33.3% (4/12) of no compliance sample are positive for antibiotic residues with 92.91% of correlation between microbiology quality and antibiotics residues (p <0.05).Conclusion: The presence of antibiotic residues in the chicken meat and eggs influence the detection of microorganisms. This leads to a food security problem in Togo.
Age-Related Increase in Caveolin-1 Expression Facilitates Cell-To-Cell Transmission of α-Synuclein in Neurons
Authors: Ha Tae-Young , Choi Yu Ree , Noh Hye Rin , Cha Seon-Heui , Kim Jae-Bong , Park Sang Myun 
Published: September 2020

Abstract
Background: Parkinson's disease (PD) is the second most prevalent neurodegenerative disease, with aging being considered the greatest risk factor for developing PD. Caveolin-1 (Cav-1) is known to participate in the aging process. Recent evidence indicates that prion-like propagation of misfolded α-synuclein (α-syn) released from neurons to neighboring neurons plays an important role in PD progression. In the present study, we explored the association between cav-1 and cell-to-cell transmission of α-syn.Methods: Using SH-SY5Y cells and primary neurons overexpressing WT and Y14A cav-1, we investigated the effect of cav-1 expression on the uptake of α-syn using a dual chamber system. Additionally, we investigated the effect of cav-1 expression on the formation of Lewy body-like inclusions using co-culture assay and microfluidic chamber assay.Results: We demonstrated that cav-1 expression in the brain increased with age, and considerably increased in the brain of A53T α-syn transgenic mice. Cav-1 overexpression facilitated the uptake of α-syn into neurons and formation of additional Lewy body-like inclusion bodies, phosphorylation of cav-1 at tyrosine 14 was found to be crucial for this process. Conclusions: This study demonstrates the relationship between age and α-syn spread and will facilitate our understanding of the molecular mechanism of the cell-to-cell transmission of α-syn.
Hybrid Semantic Recommender System for Chemical Compounds in Large-Scale Datasets
Authors: Barros Márcia , Moitinho André , Couto Francisco M. 
Published: September 2020

Abstract
The increasing number of Chemical Compounds is a challenge for the researchers to explore such datasets. In this work, we propose the use of Recommender Systems in the exploration of new Chemical Compounds of interest to scientific researchers. Our approach consists in a Hybrid recommender model suitable for implicit feedback datasets and focused in retrieving a ranked list according to the relevance of the items. The model integrates collaborative-filtering algorithms for implicit feedback (Alternating Least Squares (ALS) and Bayesian Personalized Ranking(BPR)) and a new content-based algorithm, based on the semantic similarity of the Chemical Compounds in the ChEBI ontology. The algorithms were assessed on an implicit dataset of Chemical Compounds, CheRM-20, with more than 16.000 items (Chemical Compounds). The Hybrid model was able to improve the results of the collaborative-filtering algorithms, with increases of more than 10 percentage points in most of the assessed evaluation metrics.
Predictive values of neutrophil-to-lymphocyte ratio on disease severity and mortality in COVID-19 patients: a systematic review and meta-analysis
Authors: Li Xiaoming , Liu Chao , Mao Zhi , Xiao Minglu , Wang Li , Qi Shuang , Zhou Feihu 
Published: September 2020

Abstract
Background：Coronavirus disease 2019 (COVID-19), a highly infectious disease, has been rapidly spreading all over the world and posted a great threat to global public health. Patients diagnosed with severe or critical cases have a poor prognosis. Hence, it is crucial for us to identify potential severe or critical cases early, and give timely treatments for the targeted patients. In the clinical practice of treating COVID-19 patients, we have observed that the neutrophil-to-lymphocyte ratio (NLR) of severe patients is higher than that in mild patients. We performed this systematic review and meta-analysis to evaluate the predictive values of NLR on disease severity and mortality in COVID-19 patients. Methods: We searched PubMed, EMBASE, China National Knowledge Infrastructure (CNKI) and Wanfang databases to identify eligible studies (up to August 11, 2020). Two authors independently screened studies and extracted data. The methodological quality of the included studies was assessed by Quality Assessment of Diagnostic Accuracy Studies 2 (QUADAS-2).Results: Thirteen studies involving 1579 patients reported the predictive value of NLR on disease severity. The pooled sensitivity (SEN), specificity (SPE) and area under curve (AUC) were 0.78 (95% CI 0.70-0.84), 0.78 (95% CI 0.73-0.83) and 0.85 (95% CI 0.81-0.88), respectively. Ten studies involving 2967 patients reported the predictive value of NLR on mortality. The pooled SEN, SPE and AUC were 0.83 (95% CI 0.75-0.89), 0.83 (95% CI 0.74-0.89) and 0.90 (95% CI 0.87-0.92), respectively. Conclusions: NLR has good predictive values on disease severity and mortality in COVID-19 patients. Evaluating NLR can help clinicians identify potentially severe cases early, conduct early triage and initiate effective management in time, which may reduce the overall mortality of COVID-19. Moreover, we can better allocate scarce medical resources in this unprecedented time. Trial registration: This meta-analysis was prospectively registered on PROSPERO database (Registration number: CRD42020203612).
The Relationship Between Harmful Noise and Cognitive Component
Authors: Alimoradi Hadi , Madaveri Rohollah Fallah , Nazari Mahsa , sakhvidi Mohammad javad zare , Nodoushan Reza Jafari 
Published: September 2020

Abstract
Objective & Aim: People who are exposed to noise on a daily basis, exposure to this risk factor as a physical stressor can have immediate and delayed detrimental effects on concentration, attention, high blood pressure, and so on. Method: The present study examines a set of cognitive factors to assess negative emotional states in depression, anxiety, and stress in a noisy work environment. This case study was performed on 1000 workers of Isfahan Steel Industry. ISO9612 (2009) standard and K&B sound level meter were used to measure the noise pressure level. At the same time, the DASS questionnaire was used to measure the severity of the symptoms of depression, anxiety, and stress. Results: Based on the findings of the study, the age factor on depression, the marital status factor on anxiety and the work shift factor showed a significant effect on employee stress (p <0.05). There was no significant difference in anxiety and depression variables between the case and control groups (p> 0.05). Conclusion: Due to significant positive relationship between the level of intensity and stress in case it is necessary to effective preventive measures to prevent psychological trauma and protect the health of workers in this industry are necessary.
The Comparison of Survival Between Active Surveillance or Watchful Waiting with Focal Laser Ablation in Patients with Low-Risk Prostate Cancer
Authors: Li Jiakun , Qiu Shi , Jin Kun , Cai Boyu , Yuan Qiming , Xiong Xingyu , Tang Liansha , Jin Di , Zhou Xianghong , Bao Yige , Yang Lu , Wei Qiang 
Published: September 2020

Abstract
IntroductionProstate cancer (PCa) is the second most common cancer in men. Some trials of focal laser ablation (FLA) in men with PCa have shown exciting results. Both active surveillance or watchful waiting (AS/WW) and FLA can avoid the complications caused by radical treatment, how to choose between them in clinical practice needs further study. Therefore, this study aims to compare and analyze the effects of them based on the overall survival (OS) and cancer-specific survival (CSS) for obtaining better long-term benefits.MethodWe included patients with low-risk PCa from the Surveillance Epidemiology and End Results database of 2010-2016. Multivariate Cox’s proportional hazard analysis were conducted of OS and CSS in two groups. For eliminating bias, this study applied a serious of sensitive analyses. Moreover, Kaplan-Meier curves were plotted for survival status.ResultTotally 18,841 patients with low-risk PCa were included with median 36.00 months follow-up time. According to the multivariate Cox proportional hazard regression, FLA group presented inferior survival benefits in OS than AS/WW group (HR 2.13, 95% CI 1.37-3.33, p < .05). After adjusting for confounders, the result consisted with before (HR 1.69, 95% CI 1.0- 2.81, p < .05). In sensitivity analysis, the inverse probability of treatment weighing model indicated the same result in OS.ConclusionCompared with standard treatment, AS/WW and FLA had the advantages of less side effects and avoiding over treatment. For patients with low-risk PCa, our study suggested that AS/WW could obtain more survival benefits. More relevant researches and more data will be need for further researches.
Analysis of the Spatial Distribution of Aedes Albopictus by Indicator Kriging in an Urban Area of Shanghai, China
Authors: Zhou Yibin , Liu Hongxia , Leng Peien , Zhu Jiang , Yao Shenjun , Zhu Yiyi , Wu Huanyu 
Published: September 2020

Abstract
Background: Aedes albopictus is a well-recognized vector of major arboviral diseases and a primary pest in tropical and temperate regions of China. The current monitoring system, based on sub-district scale, in most cities of China for the spread of Ae. albopictus has not taken spatial distribution for the analysis of density of species. So it is not accurate enough for epidemic investigations, especially in big cities like Shanghai.Methods: In this study, a new surveillance program integrate the actual monitoring locations was used to investigate the temporal and spatial distribution of Ae. albopictus abundance in an urban area of Shanghai, China, from 2018 to 2019 by using the mosquito-oviposition trap (MOT) method. The study area of 14 sub-districts was divided into 133 grids with a side length of approximately 500 m. The vector abundance and spatial structure of Ae. Albopictus were predicted by the indicator Kriging based on eight MOTs in each grid. Meanwhile, the light trap (LT) method was also used for the analysis and compared with the MOT method.Results: A total of 8,192 MOTs were placed in the study area in 2018, and 7,917 (96.6%) were retrieved with a positive rate of 6.45%, while in 2019, 22,715 (97.0%) of 23,408 MOTs were recovered with a positive rate of 5.44%. When using the LT method, 273 (93.5%) and 312 (94.5%) adult female Ae. albopictus were gathered in 2018 and 2019, respectively. The Ae. albopictus populations in the urban area of Shanghai increased slowly from May, reached a peak in July, and declined gradually from September. The MOT positivity index (MPI) showed a significant positive spatial autocorrelation across the study area, while LT collections indicated a non-significant spatial autocorrelation. The MPI was suitable for spatial interpolation by using the indicator Kriging, and showed different hotspots in different years.Conclusions: The new surveillance system integrate geographic information can help improve our understanding of the spatial and temporal distribution of Ae. albopictus in urban areas of Shanghai and could provide a practical method for decision-makers to implement vector control and management of mosquitoes.
PGM5-AS1 Inhibits the Malignant Phenotype of Colon Cancer Cells by Regulating PAEP and NME1
Authors: Hui Bingqing , Lu Chen , Wang Jing , Xu Yetao , Yang Yuchen , Ji Hao , Li Xiaofei , Xu Lingyan , Wang Jiawei , Wang Keming , Gu Yan-Hong 
Published: September 2020

Abstract
Background: An increasing number of long non-coding RNAs (lncRNAs) is recognized to be associated with drug resistance in CRC.Methods: For identifying differentially expressed target genes regarding PGM5-AS1, RNA transcriptome sequencing was performed. The mechanism by which PGM5-AS1 regulates its target genes was explored by performing experiments such as fluorescent in situ hybridization assay, dual luciferase reporter gene assay and RNA immunoprecipitation. Results: The lncRNA PGM5-AS1 was identified by analyzing data from the original microarray data set of colon cancer (GSE75970). PGM5-AS1 additionally suppressed acquired oxaliplatin resistance in CRC cells. Malignant phenotype of PGM5-AS1 was inhibited by recruiting SRSF3 to activate alternative splicing and being a sponge specific to hsa-miR-423-5p.Conclusions: Downregulation of PGM5-AS1 in oxaliplatin-resistant colon cancer tissues and cell lines is induced by transcriptional inhibition of GFI1B. PGM5-AS1 recruited SRSF3 to activate alternative splicing to downregulate the expression of PAEP. In addition, PGM5-AS1 could competitively bind with hsa-miR-423-5p to upregulate the expression of NME1. PGM5-AS1 inhibits the proliferation, invasion, migration and acquired oxaliplatin resistance of colon cancer cells through these two pathways.