bluuebunny/crossref_metadata_2025_split huggingface dataset:
Investigation of Aberrantly Methylated Differentially Expressed Genes in Pancreatic Cancer by Integrated Bioinformatics Analysis
Authors: xue Cailin , gao Peng , zhang Xudong , cui Xiaohan , jin Lei , zhu Chunfu , qin Xihu 
Published: January 2021

Abstract
Background: Abnormal methylation of DNA sequences plays an important role in the development and progression of pancreatic cancer (PC). The purpose of this study was to identify abnormal methylation genes and related signaling pathways in PC by comprehensive bioinformatic analysis of three datasets in the Gene Expression Omnibus (GEO). Methods: Datasets of gene expression microarrays (GSE91035, GSE15471) and gene methylation microarrays (GSE37480) were downloaded from the GEO database. Aberrantly methylated-differentially expressed genes (DEGs) were analysis by GEO2R software. GO and KEGG enrichment analyses of selected genes were performed using DAVID database. A protein–protein interaction (PPI) network was constructed by STRING and visualized in Cytoscape. Core module analysis was performed by Mcode in Cytoscape. Hub genes were obtained by CytoHubba app. in Cytoscape software. Results: A total of 267 hypomethylation-high expression genes, which were enriched in biological processes of cell adhesion, biological adhesion and regulation of signaling were obtained. KEGG pathway enrichment showed ECM-receptor interaction, Focal adhesion and PI3K-Akt signaling pathway. The top 5 hub genes of PPI network were EZH2, CCNA2, CDC20, KIF11, UBE2C. As for hypermethylation-low expression genes, 202 genes were identified, which were enriched in biological processes of cellular amino acid biosynthesis process and positive regulation of PI3K activity, etc. The pathways enriched were the pancreatic secretion and biosynthesis of amino acids pathways, etc. The five significant hub genes were DLG3, GPT2, PLCB1, CXCL12 and GNG7. In addition, five genes, including CCNA2, KIF11, UBE2C, PLCB1 and GNG7, significantly associated with patient's prognosis were also identified. Conclusion: Novel genes with abnormal expression were identified, which will help us further understand the molecular mechanism and related signaling pathways of PC, and these aberrant genes could possibly serve as biomarkers for precise diagnosis and treatment of PC.
Assessment of Computed Tomography-Defined Muscle and Adipose Tissue Features in Relation to Length of Hospital Stay and Recurrence of Hypertriglyceridemic Pancreatitis
Authors: Yu Huajun , Huang Yingbao , Chen Lifang , Shi Liuzhi , Yang Yunjun , Xia Weizhi 
Published: January 2021

Abstract
Background: Analytic morphometric assessment has recently been proposed to be applied to the study of acute pancreatitis (AP). However, the relationship between body composition and the outcomes of hypertriglyceridemic pancreatitis (HTGP) is still unclear. The aim of this study was to evaluate body composition in relation to the length of hospital stay (LOS) and recurrence of HTGP.Methods: Patient characteristics, admission examination data, body composition parameters, LOS, and recurrence within 1 year were collected from the institutional pancreatitis database and follow-up records. Logistic regression analysis was used to identify risk factors for LOS and recurrence of HTGP.Results: Of the 196 included patients, 158 (80.6%) were men and 53 (27.0%) were sarcopenic. The average LOS was 15.83±10.02 days. The recurrence rate of HTGP was 36.7%. Multivariate analysis with multiple linear regression suggested that subcutaneous fat area (SFA) (p=0.019) and high-density lipoprotein-cholesterol (HDL-C) (p=0.001) were independently associated with the LOS for HTGP after adjusting for age and sex. The multivariate adjusted hazard ratios for SFA and HDL-C, with respect to the relationship between body parameters and LOS, were 1.008 (95% confidence interval [CI], 1.001–1.015) and 0.090 (95% CI, 0.022–0.361), respectively. No significant differences were observed between the AP and recurrent AP (RAP) groups in terms of characteristics, admission examination data, and body composition parameters.Conclusion: SFA and HDL-C are associated with LOS in patients with HTGP. The body composition of patients at the first symptom onset of HTGP cannot predict recurrence.
Hepatitis B in Pregnant Females. A Cross Sectional Study in Nile Delta, Egypt
Authors: Elkadeem Mahmoud , Elnaggar Ramy 
Published: January 2021

Abstract
Background &Aim:Hepatitis B infection is a worldwide health problem. Egypt classified as an area of intermediate endemicity. Hepatitis B has high materno-fetal transmission. The aim of this study was to assess hepatitis B virus infection in Egyptian pregnant females in Nile Delta as regards risk factors and magnitude of the problem.Methods:This cross sectional study was performed on 1948 pregnant females. Historical and sociodemographic data were collected through short simple questionnaire. They were screened for hepatitis B surface antigens. Positive ones were subjected to test hepatitis B e antigen and viral load by real time polymerase chain reaction.Results: Thirty patients (1.54%) were hepatitis B surface antigen positive. Only two of them (6.67%) were hepatitis B e antigen positive with high viral load. Others were hepatitis B e antigen negative and low viral load. Family history of hepatitis B, occupation, age more than 27 years, and history of surgical or dental procedures were significant risk factors associated with hepatitis B acquisition.Conclusion: Screening for hepatitis B is important as a part of antenatal care mainly in the presence of risk factors to follow up mother, and protect fetus so as to prevent wide spread of hepatitis B in Egypt.
Predisposing Conditions for Condylar Luxation After Intraoral Vertical Ramus Osteotomy&nbsp;
Authors: Rokutanda Satoshi , Yamada Shin-Ichi , Yanamoto Souichi , Sakamoto Hiroshi , Omori Keisuke , Rokutanda Hiromi , Yoshimi Tomoko , Fujishita Ayumi , Morita Yukiko , Yoshida Noriaki , Umeda Masahiro 
Published: January 2021

Abstract
Intraoral vertical ramus osteotomy (IVRO) is a surgical procedure for the treatment of mandibular prognathism and temporomandibular disorders. However, the improvement of temporomandibular disorders after surgery is considered to be due to the anterior and downward movement of the mandibular condyle, which may lead to condylar sag, and in the worst case, condylar luxation. In this retrospective cohort study, we examined factors potentially associated with condylar luxation. Univariate analysis indicated that condylar luxation was significantly associated with the following factors: magnitude of setback (P = 0.001); presence of temporomandibular joint (TMJ) symptoms (P = 0.002); occlusal cant correction ≥ 2 mm (P = 0.018); and mandibular condyle deformation (P < 0.001). The magnitude of setback (P = 0.035) and the presence of TMJ symptoms (P = 0.008) remained significant in the multivariate analysis. In the receiver operating characteristic curve, the cut-off value of the magnitude of setback for condylar sag and condylar luxation after IVRO was 3.25 mm. Thus, the risk of condylar luxation after IVRO is increased with a smaller magnitude of setback (≤ 3.25 mm) and the presence of TMJ symptoms. These factors should be carefully evaluated by surgeons during treatment planning for IVRO.
Pediatric Traumatic Cataracts : 10 Year-experience of a Tertiary Referral Center&nbsp;
Authors: Gunaydın Nesrin Tutas , Oral Ayse Aydın 
Published: January 2021

Abstract
Background: To evaluate the factors influencing final visual acuity in pediatric traumatic cataracts. Methods: Data of patients who presented with traumatic cataracts were reviewed retrospectively. We evaluated sex; age at trauma; trauma type, cause, and zone; duration between the time of trauma and cataract surgery; surgical method used; time, location, and type of intraocular lens (IOL) implantation; initial and final corrected distance visual acuity (CDVA); amblyopia rate and complications. Results: In all, 61 eyes of 59 patients with cataracts after trauma, under 16 years of age, were included. The mean age of the children was 7.2 ± 3.9 years. Primary IOL implantation was performed in 70.9% of eyes. The CDVA was 0.7 LogMAR or better in 16.3% of the 49 eyes where the visual acuity could be measured at the time of trauma and in 69.1% of 55 eyes in which it could be measured after treatment. The evaluation of factors potentially influencing the final visual acuity revealed that eyes that had undergone posterior capsulotomy (PC) and anterior vitrectomy (AV) during cataract surgery had significantly better final vision compared to eyes that did not undergo these procedures. Conclusion: Good visual results can be obtained in children with traumatic cataracts using PC and AV together with lens aspiration and IOL implantation, followed by effective amblyopia treatment and close monitoring.
Circulation Patterns of Human Seasonal Influenza a Virus in Chile Before H1N1pdm09 Pandemic
Authors: Mena Juan , Tapia Rodrigo , Verdugo Claudio , Avendaño Luis , Parra-Castro Paulina , Medina Rafael , Barriga Gonzalo , Neira Victor 
Published: January 2021

Abstract
Understanding the diversity and circulation dynamics of seasonal influenza viruses is key to public health decision-making. The limited genetic information of pre-pandemic seasonal IAVs in Chile has made it difficult to accurately reconstruct the phylogenetic relationships of these viruses within the country. The objective of this study was to determine the genetic diversity and estimate the antigenic evolution of pre-pandemic human seasonal IAVs in Chile. We sequenced the complete genome of 42 historic IAV obtained between 1996 to 2007. The phylogeny was determined using HA sequences and complemented using other segments. Time-scale phylogenetic analyses revealed that diversity of pre-pandemic human seasonal IAVs in Chile have been influenced by continuous introductions of new A/H1N1 and A/H3N2 lineages and constant viral exchange between Chile and the rest of the countries every year. Besides, wide genetic and antigenic diversity was observed co-circulating in some years and introduced lineages every year become extinct at the end of each season. These results provide important knowledge about genetic diversity and evolutionary patterns of pre-pandemic human seasonal IAVs in Chile, which can help to design optimal surveillance systems and prevention strategies in the country, however, future studies with current sequences should be conducted.
Seven Autophagy-Related lncRNAs Associated With Clinical Prognosis in Hepatocellular Carcinoma.
Authors: Zhou Yaping , Yang Liu , Zhang Xiangxin , Zhao Xiaotong , Fu Jianfeng , Wang Lu 
Published: January 2021

Abstract
Background: LncRNA may be involved in the occurrence, metastasis, and chemical reaction of hepatocellular carcinoma (HCC) through various pathways associated with autophagy. Therefore, it is urgent to reveal more autophagy-related lncRNAs, explore these lncRNAs' clinical significance, and find new targeted treatment strategies. Methods: In our study, RNA-seq and clinical data of normal and HCC patients were obtained from the TCGA database, and autophagy genes were obtained from the human autophagy database. Results: The risk prediction model containing seven autophagy-related lncRNAs was constructed. Overall survival (OS) curves show that the high-risk group patients significantly shorter than the low-risk group (P=2.292e-10), and the five years survival rate of the high-risk group (HR 0.286, 95%CI 0.199-0.411) is less than half of the low-risk group (HR 0.694, 95%CI 0.547-0.77). Univariate Cox regression indicated that risk score of the risk prediction model (P<0.001, 95%CI 1.210-1.389 ), T (P<0.001, 95%CI 1.443-2.287), and stage (P<0.001 ,95%CI 1.466-2.408 ) were independent prognostic indicators. However, only the risk score remains the independent prognostic indicator(P<0.001, 95%CI 1.197-1.400 ) based on the multivariate analysis. This risk model's prediction efficiency is significantly higher than other clinicopathological factors for 1-, 3- and 5-year survival rate prediction (AUC are 0.853, 0.794, and 0.764, respectively). Remarkably, the 7 autophagy-related lncRNAs may participate in Spliceosome, Cell cycle, RNA transport, DNA replication, and mRNA surveillance pathway and be related to the biological process of RNA splicing and mRNA splicing. Conclusion: In conclusion, the 7 autophagy-related lncRNAs might be promising prognostic and therapeutic targets for HCC.
Profiling of Pulmonary Fungal Pathogens and the Prevalence of Pulmonary Tuberculosis Fungal Co-Infection in Presumptive Tuberculosis Patients Referred to Saint Peter’s Tuberculosis Referral Hospital, Addis Ababa, Ethiopia
Authors: Bitew Adane , Bati Solomon 
Published: January 2021

Abstract
Background: The burden of pulmonary mycosis is increasing and often misdiagnosed as pulmonary tuberculosis in developing countries where the prevalence of pulmonary tuberculosis is high. Objective: To determine the prevalence of pulmonary mycosis and pulmonary tuberculosis fungal co-infections. Methods: A hospital-based, cross-sectional study was conducted between October 2019 and May 2019. Sputum was collected from 636 study subjects. Part of the sputum was inoculated onto Brain Heart Infusion agar and fungi were identified following standard microbiological procedures. The remaining part of the sample was used for the investigation of pulmonary tuberculosis by GeneXpert.Results: Among 636 sputum samples, 75.9% (483), 25.6% (163), and 20% (127) were positive for fungal pathogens, pulmonary tuberculosis, and pulmonary tuberculosis fungal co-infection, respectively. Of 690 fungal isolates, 81.4% were yeasts compromising of 46.3% Candida albicans 52.7% Non-albicans Candida species, and 1.0% Cryptococcus neoformans. The remaining 128 (18.6%) isolates were molds, where Aspergillus species (79; 61.7%), Penicillium species (16; 12.5%), Scedosporium apiospermum (13; 10.2%), and Fusarium species (10;7.8%) being the major isolates. The isolation rate of fungi was higher in males (51.6%) than in females (48.4%). There was no statistically significant association between the prevalence of pulmonary fungal pathogens and sex (P=0.239). Patients in the age group of 35-44 and above were slightly more affected than younger age groups. The association of fungal pathogens and age was not statistically significant (P=0.50). Conclusions: Our study revealed a high prevalence of pulmonary fungal pathogens (75.4%) and pulmonary fungal co-infection (20%). The isolation rate of Non-albicans Candida species out-numbered that of C. albicans. High prevalence of pulmonary fungal pathogens in our study, especially in cases where sputum for pulmonary tuberculosis was negative alerts, the need to employ conventional microbiology tests along with clinical and radiological evidence.
Development of A Prognostic Index and Screening of Prognosis Related Genes Based on an Immunogenomic Landscape Analysis of Bladder Cancer
Authors: Qu GenYi , Yang Guang , Xu Yong , Xiang Maolin , Tang Cheng 
Published: January 2021

Abstract
Background: Bladder cancer (BLCA) is one of the most common urinary tract malignant tumors. It is associated with poor outcomes, and its etiology and pathogenesis are not fully understood. There is great hope for immunotherapy in treating many malignant tumors; therefore, it is worthwhile to explore the use of immunotherapy for BLCA.Methods: Gene expression profiles and clinical information were obtained from The Cancer Genome Atlas (TCGA), and immune-related genes (IRGs) were downloaded from the Immunology Database and Analysis Portal. Differentially-expressed and survival-associated IRGs in patients with BLCA were identified using computational algorithms and Cox regression analysis. We also performed functional enrichment analysis. Based on IRGs, we employed multivariate Cox analysis to develop a new prognostic index.Results: We identified 261 IRGs that were differentially expressed between BLCA tissue and adjacent tissue, 30 of which were significantly associated with the overall survival (all P<0.01). According to multivariate Cox analysis, nine survival-related IRGs (MMP9, PDGFRA, AHNAK, OAS1, OLR1, RAC3, IGF1, PGF, and SH3BP2) were high-risk genes. We developed a prognostic index based on these IRGs and found it accurately predicted BLCA outcomes associated with the TNM stage. Intriguingly, the IRG-based prognostic index reflected infiltration of macrophages.Conclusions: An independent IRG-based prognostic index provides a practical approach for assessing patients' immune status and prognosis with BLCA. This index independently predicted outcomes of BLCA.
PTPN2&nbsp;Expression in Cystadenocarcinoma Ovary and It’s Clinical Value Based on TCGA&nbsp;Database
Authors: Li Qian , Chen Yannan , Yang Li , Fan Yaguang , Li Feiyan , Zhang Feng , Ren Chenchen , Liu Jiaxi 
Published: January 2021

Abstract
Ovarian serous cystadenocarcinoma (OV) is a malignant tumor that often has a poor prognosis because of its late detection. The expression of PTPN2 is associated with a variety of tumors, but its effect on OV is not well understood. Therefore, we analyzed the relationship between PTPN2 and the prognosis of OV. Analysis of patients with OV using The Cancer Genome Atlas revealed an association between PTPN2 expression and the prognosis of OV. We established a model of the relationship between these factors by logistic regression, which showed a significant correlation between the tumor grade and decreased expression of PTPN2. Kaplan-Meier survival analysis showed that low PTPN2 expression was associated with poor overall survival. Further analysis of the expression of immune cells in OV using the ssGSEA package revealed a significant correlation between the expression level of PTPN2 in OV and the numbers of mast, gamma delta, helper, and central memory T cells. We also found differences between the phenotypic pathways associated with low PTPN2 expression and pathways of genes and proteins that determine epithelial-mesenchymal transformation. Finally, a network diagram of protein molecular interactions was drawn using the STRING database, which showed that PTPN2 was closely related to the signal converter and transcriptional activator family and Janus kinase family. Thus, PTPN2 shows potential for use as a prognostic biomarker in OV and is associated with immune infiltration.
The Fatigue Behavior and Mechanism of Large FV520B-I Specimens in a Very High Cycle Regime
Authors: Zhang Han , Zhang Ming , Li Li Meng , Xie Bao Hai , Zhang Jun Li 
Published: January 2021

Abstract
We examined the fatigue properties in very high cycle regime of large FV520B-I specimens in an ultrasonic fatigue test. The fatigue mechanism in very high cycle regime didn’t change and the fatigue properties obviously degraded as the specimen size enlarged. The fatigue life decreased and the S-N curve moved downward due to the increase of inclusion size in large specimens. The maximum inclusion sizes in specimens were predicted by the method of statistics of extreme value. The prediction of fatigue strength using the modified Murakami model was closer to the test result, and the fitting of fatigue life using the corrosion fatigue crack initiation life model was less effective compared with the fitting of small specimen test results
Missed Nursing Care: Concept Analysis Using the Hybrid Model
Authors: Rahimi Shoeleh , Khankeh Hamid Reza , Sharifi Azam , Mohammadian Batol 
Published: January 2021

Abstract
Background and Objectives: Miss care is a quality index, which has been identified for nursing care and patient safety recently. However, no precise definition is available for the clinical dimensions and features of this concept. Thus, the present study aimed to analyze the concept of miss nursing care based on the hybrid model.Design: A concept analysis was conducted using a three-phase(theoretical phase, fieldwork phase and final analysis phase) hybrid method.Methods:In the theoretical phase, the concept of miss care was explored in reliable databases from 1998 up to 2018. Using COREQ guidelines ,in the field work phase, in-depth interviews were conducted with six nurses and the data were analyzed using content analysis method. In the last phase, the final analysis was carried out.Results: The results indicated miss care as a healthcare error as a kind of negligence in which the nurse provides unmanaged patient care due to the adversity of organizational and process background factors, which results in the negligence of essential cares and leads to consequences for both the patient and the nurse.Conclusion: Based on the present concept analysis, unmanaged care was the main feature of miss care, which had not been included in the previous definitions. Nurses can create an accurate structure for nursing care and reduction of miss care through performance of process-based care and determination of nursing care priorities. Further studies are recommended to compare this concept to similar ones to determine the clinical distinctions.
Effects of a Single Bout of Exercise on Memory and Attention Following One Night of Sleep Loss: Results of a Randomised Controlled Pilot Study
Authors: Fleckenstein Johannes , Gerten Sina , Banzer Winfried 
Published: January 2021

Abstract
BackgroundSleep-loss is a severe problem in night-shift workers. It causes fatigue and a decrease in awareness that may be counter-acted by exercise. This randomised controlled study in 22 university students investigated the effects of exercise on cognitive and physical performance following sleep deprivation. MethodsWe were comparing a single bout of a 20-minutes circuit training to control in an experimental setting of overnight sleep loss. Outcomes included memory, cognitive tasks, and physical parameters. The occurrence of false memories was considered being the main outcome.ResultsExercise did not exert significant effects on false memories (p = 0.456). We could detect a trend to significanxe (p < 0.01) assessing cognitive dimensions, i.e. selective and sustained attention, and visual scanning speed. This revealed strong effects of exercise on attention (p = 0.091; Cohen’s d = 0.76; ∆14%), cognitive performance, performance speed, and perceived sleepiness (p = 0.008; d = 0.60; ∆2.4 cmVAS). ConclusionsThis study failed to show effects of exercise on memory function. Still, medium to strong effects on attention and consciousness can be considered clinically relevant. The results of this study encourage further research to determine its practicability and meaningfulness among night-shift workers.Trial registrationGerman Clinical Trials Register, DRKS00010655, registered 21. June 2016.