bluuebunny/crossref_metadata_2025_split huggingface dataset:
Telomerase Reverse Transcriptase Promotes Proliferation, Reduces Apoptosis, and Enhances Autophagy in Cardiomyocytes During Myocardial Ischemia Reperfusion Injury
Authors: Fang Zhi , Li Jiao , Guo Yingqiang 
Published: June 2020

Abstract
Background: Telomerase reverse transcriptase (TERT) is reported to protect cells from ischemic injury in many diseases. However, the protective role of TERT in myocardial ischemia reperfusion injury (MIRI) remains unclear. The present study aimed to explore the protective roles of TERT in MIRI.Methods: Rat myocardial H9c2 cells were exposed to oxygen and glucose deprivation (OGD) followed by reperfusion to mimic in vivoMIRI. A TERT overexpression model was constructed by adenovirus infection. Cell viability was detected using the CCK8 assay. Immunohistochemicalstaining of Ki67 was used to detect cell proliferation. Apoptosis was detected by TUNEL and flow cytometry analysis of Annexin V-FITC and propidium iodide. Apoptosis-related protein CC3 and autophagy related protein LC3 were detected by western blot analysis. Results:TERT was increased in H9c2 cells after OGD. TERT overexpression promoted the proliferation, attenuated apoptosis, and enhanced autophagy in H9c2 cells after OGD.Conclusions:This study indicates that TERT plays a protective role via promoting proliferation, suppressing apoptosis, and enhancing autophagy in myocardial cells after MIRI. Further study of TERT is expected to reveal new treatment targets for myocardial ischemia-reperfusion injury.
Differential Diagnosis of Osteoarthritis and Rheumatoid Arthritis by Bioinformatics Analysis
Authors: Lin Qing , Pan Danhong , Huang Yanfeng , Wang Wenyi , Fu Changlong , Li Xihai , Ye Jinxia 
Published: June 2020

Abstract
Background: Osteoarthritis (OA) and rheumatoid arthritis (RA) is the most common joint disease. The aim of my current academic work is to identify important genes associated with OA and RA, clarify their underlying mechanisms, and define differences between OA and RA.Methods: Gene expression profiles of GSE55235 were available from Gene Expression Omnibus database. Differentially expressed genes between 1) OA tissues and normal tissues, 2) RA tissues and normal tissues, were picked out by GEO2R tool, Venn diagram software, and Volcanic map. Next, we made use of the Database for Annotation, Visualization and Integrated Discovery to analyze Kyoto Encyclopedia of Gene and Genome pathway and gene ontology. The protein-protein interaction of these DEGs was visualized by Cytoscape with Search Tool for the Retrieval of Interacting Genes. Of entire PPI network analyzed by Molecular Complex Detection plug-in and obtain central nodes. Then the central nodes were re-analysis via DAVID. We next obtained the intersection of the analysis results of GSE55457 and GSE55235 to verify the results. Finally, potential biomarkers were evaluated by receiver operating characteristic.Results: Twelve genes were found to be significantly enriched in the TNF signaling pathway in OA, and eleven genes were found to be significantly enriched in the Chemokine signaling pathway in RA. Receiver operating characteristic curve suggested that the detection of JUN in OA and CCL5, CXCL9, CXCL10, CXCL11, CXCL13 in RA exhibited a high diagnostic performance.Conclusions: We have identified six significantly DEGs on the basis of integrated bioinformatical methods, which could be potential targets for differential diagnosis for OA and RA.
Regional Differences in Semen Quality Between Guangzhou and Hong Kong in South China: A Cross-Sectional Study
Authors: Shi Xiao , Chan Carol Pui Shan , Chan David Yiu Leung , Quan Song , Li Tin-Chiu 
Published: June 2020

Abstract
Background: The geographic variation in semen quality has been reported in many countries. However, the situation in China is still unknown. To answer this question, we examined the variation in semen parameters between two cities in south China: Guangzhou (GZ) and Hong Kong (HK).Methods: Semen analysis data of 13507 subjects from GZ and 1106 subjects from HK were retrospectively analysed. In order to control for referral bias, we selected two well-defined subpopulations, namely, subpopulation Ⅰ: male partners of women with an underlying cause of subfertility, which is assumed to be similar to the general male population; subpopulation Ⅱ: normozoospermic men, which is assumed to represent men with normal spermatogenesis, sperm maturation and sperm transportation. In addition, we have also chosen to control for two well-recognized confounding variables, namely, age and abstinence time by using a case matching design and generalised additive models (GAM).Results: In using the case matching design, subjects from different cities with similar age and abstinence time were matched. The results of the paired T test showed that sperm concentration and motility of subjects in HK were significantly lower than that of subjects in GZ in both subpopulation Ⅰ and Ⅱ (P < 0.05); on the other hand, the sperm morphology of subjects in HK was significantly lower than that of subjects in GZ in subpopulation Ⅰ (P < 0.05) but not in subpopulation Ⅱ (P > 0.05).The results of GAM model showed that the sperm parameters were variated by age and/or abstinence time, however, the sperm concentration, motility and morphology of subjects in HK were significantly lower than that of subjects in GZ in both subpopulation Ⅰ and Ⅱ (P < 0.05). Conclusions: The semen quality of subjects in HK was significantly worse than that of subjects in GZ, which may be caused by environmental and lifestyle factors, given that the study subjects in both cities of the present study are of the same ethnic origin.Trial registration: Not applicable.
Development and Validation of a Clinical-Radiomic Model for Preoperative Prediction of Lymph Node Metastasis and Overall Survival in Rectal Cancer: A Retrospective Study
Authors: Zhu Yuzhou , Sun Kaibo , Yang Tinghan , Wu Qingbin , Shen Yinzhi , Zhang Zixin , Zhang Xubing , Wang Ziqiang 
Published: June 2020

Abstract
Background: Preoperative lymph node (LN) metastasis is essential to therapeutic strategies for rectal cancer (RC) patients without distal metastasis, and is one of the major predictive risk factors. Unfortunately, it is difficult to predict the preoperative LN metastasis. Thus, we established a clinical-radiomic model to assist in predicting LN metastasis and overall survival (OS) in RC patients preoperatively. Methods: The prediction model was established and validated in a primary cohort consisting of 150 patients with pathologically confirmed RC, and data was gathered from January 2013 and December 2015. Radiomic features were extracted from the CT images of portal venous phase (PVP). For selection of the features, LASSO regression method was used. We established a clinical-radiomic model by incorporating the radiomic features and independent clinical risk factors. Then we adopted this combined model to classify RC patients into high- and low-risk groups for 3-year OS analysis.Results: A total of 49 patients were proved to have LN metastasis pathologically, and 101 patients had no metastasis of LN. The Rad-score consisted of 2 selected features. The combined clinical-radiomic model included preoperative clinical T stage, preoperative clinical N stage and the Rad-score. The combined model showed good performance of discrimination, with a AUC of 0.847 in the training cohort and 0.782 in the validation cohort. Significant differences existed in OS between high- and low-risk groups in both the training (p=0.026) and validation (p=0.034) cohort. Conclusion: This combined clinical-radiomic model could be conveniently used to facilitate the preoperative prediction of LN metastasis and prognosis in patients with RC.Trial registration: This research was retrospectively registered at our institution’s medical ethics committee (NO.2019-1159)
Comprehensive Analysis of the Association Between the Glycolysis Prognostic Risk Signature and Immune Infiltration in Endometrial Cancer
Authors: Yang Xiao , Li Xingchen , Shen Boqiang , Zhou Jingyi , Cheng Yuan , Jia Yuanyuan , Wang Jianliu 
Published: June 2020

Abstract
Background: Glycolysis is the primary mechanism of energy metabolism in tumor cells. The purpose of this study is to develop a glycolysis-related risk signature for endometrial cancer and analyze its relationship with immune function.Methods: The mRNA expression profiling and clinical information of endometrial cancer were downloaded from TCGA database. GSEA was performed to screen out gene sets related to glycolysis, and the R software was used to screen DEGs. Univariate Cox and LASSO regression analyses were used to construct a glycolysis-related prognostic signature for endometrial cancer. WGCNA were performed to identify the potential mechanisms associated with the prognostic signature. Immune scores, stromal scores and ESTIMATE scores were calculated based on the R “ESTIMATE” algorithm. The “CIBERSORT” algorithm was used to evaluate the infiltration of immune cells. ROC curve, nomogram, gene alteration, coexpression analyses and PPIs were also performed. Results: We identified a glycolysis-related gene signature (PFKM, PSMC4, NUP85, PDHA1, CDK1, CLDN9, CENPA, GPI, NUP155 and GPCI) for predicting the prognosis of endometrial cancer. Based on this gene signature, the patients were divided into high- and low-risk subgroups. The overall survival of patients in the high-risk subgroup was significantly lower than that of the low-risk group. Multivariate Cox regression analysis results showed that the ten-gene signature was an independent prognostic factor for endometrial cancer. The ROC curve confirmed the accuracy of the prognostic signature (AUC=0.730). The immune scores and ESTIMATE scores of patients in the high-risk subgroup were lower than those of the low-risk subgroup, while the low immune score and ESTIMATE scores were closely related to the poor prognosis of patients. The high-risk group was associated with lower cellular immune infiltration of resting dendritic cells, resting memory T cells and Tregs, while the overall survival rate of resting dendritic cells and Tregs in the low-proportion group was significantly lower than that in the high-proportion group. Conclusions: we constructed a glycolysis-related ten-gene signature to predict the survival and prognosis of endometrial cancer. Our findings may help to elucidate the mechanism of glycolysis and provide new ideas for targeted therapy and prognosis of endometrial cancer.
Expression and Prognostic Roles of PRDXs Gene Family in Hepatocellular Carcinoma
Authors: Xu Mingxing , Xu Jianliang , Zhu Dun , Su Rishun , Zhuang Baoding , Xu Ruiyun , Li Lingli , Chen Shuxian , Ling Yunbiao 
Published: June 2020

Abstract
Background: As the second leading cause of cancer-related death in the world, the therapeutic effect and 5-year overall survival of hepatocellular carcinoma (HCC) are not optimistic. Previous researches indicated that the disorder of PRDXs was related to the occurrence and development of cancer. Methods: In this study,analyzing through CCLE, UALCAN, HCCDB and Human Protein Atlas database databases, PRDXs not only existedin various tumor cell lines, but alsohad maladjusted expression on mRNA and protein levelsin HCC tissues. Besides, the correlations between mRNA as well as methylation levels of PRDXs and clinical characterization wereevaluated using UALCAN. Results: Kaplan-Meier Plotter demonstrated that high expression of PRDX1 or low expression of PRDX2/3 suggested poor prognosis for HCC patients. The mutation frequency, type and biological interaction network of PRDXs were obtained from c-Bioportal. By LinkedOmics,PRDXs related differential expressions geneswere obtained, which were involved in several canonical pathways and certain amino acid metabolism, as well as miRNAs targeting PRDXs, some of which may effect on the progression of HCC. Conclusions: In conclusion, using online tools to analyze data based on several public database, it was found that disordered expression of PRDXs was correlated with the prognosis of HCC patients, suggesting that PRDXs may be new molecular targets for HCC therapy and prognosis prediction.
Laparoscopic Completion total Gastrectomy as an Alternative Procedure for Gastric Stump Cancer: A Case Control Study
Authors: Takahashi Tohru , Inaki Noriyuki , Saito Hiroshi , Sakimura Yusuke , Hayashi Kengo , Tsuji Toshikatsu , Yamamoto Daisuke , Kitamura Hirotaka , Kadoya Shinichi , Bando Hiroyuki 
Published: June 2020

Abstract
BackgroundComplete gastrectomy for gastric stump cancer can be challenging due to severe adhesions; therefore, advanced techniques are required to perform laparoscopic surgery. This study aimed to evaluate the clinical outcomes of laparoscopic completion total gastrectomy for the treatment of gastric stump cancer.MethodsPatient records from January 2010 to October 2018 were retrospectively evaluated. The patients were divided into two groups depending on whether they underwent open or laparoscopic gastrectomy. We compared patient characteristics; operative, clinical, and pathological data; survival rates; and prognosis between the groups.ResultsTwenty open and 17 laparoscopic completion total gastrectomies were performed. No significant differences in the distribution of the clinical T and N categories, clinical stage, and reconstruction methods of the initial gastrectomy between the two groups were observed. Laparoscopic gastrectomy resulted in a significantly longer operation time (230 vs. 182.5 min; p = 0.026), lower blood loss (14 vs. 105 mL; p = 0.0000179), and shorter period to the first flatus passage (2 vs. 3 days; p = 0.0000401) than open gastrectomy. No significant differences in the number of retrieved lymph nodes, duration of hospital stay, complication rate, and postoperative analgesic usage between the two groups were observed. No patients required conversion to open surgery in the laparoscopic-treatment group. Pathological findings revealed that the laparoscopic group had a smaller tumor size (not pathological T category) and less metastatic lymph nodes than the open group; this led to an earlier distribution of the pathological stage and better overall or disease-free survivals in the laparoscopic group.ConclusionsLaparoscopic completion total gastrectomy was safely conducted without complications and mortality implicating the oncological validity for the treatment of gastric stump cancer. With sophistication of laparoscopic skills and advanced technologies, laparoscopic completion total gastrectomy may be the best way to perform less invasive surgery in terms of decreased blood loss and earlier recovery of intestinal peristalsis.
Identification of a Methylation-Driven Gene Panel for Survival Prediction in Colon Cancer
Authors: Peng Yaojun , Zhao Jing , Yin Fan , Sharen Gaowa , Wu Qiyan , Sun Xiaoxuan , Yang Juan , Wang Huan 
Published: June 2020

Abstract
Background: Prediction and improvement of prognosis is important for effective clinical management of colon cancer patients. Accumulation of a variety of genetic as well as epigenetic changes in colon epithelial cells has been identified as one of the fundamental processes that drive the initiation and progression of colon cancer. This study aimed to explore functional genes regulated by DNA methylation and the potential of these DNA methylation changes to become biomarkers predictive of colon cancer prognosis.Methods: Methylation-driven genes (MDGs) were explored by applying an integrative analysis tool (MethylMix) to The Cancer Genome Atlas (TCGA) colon cancer project. TCGA colon cancer patients with available survival information (n=281) were randomly divided into training dataset (50%) for model construction and testing dataset (50%) for model validation. The prognostic MDG panel was identified in the training dataset by combining the Cox regression model with the least absolute shrinkage and selection operator regularization, a widely used approach to penalize the effect of multicollineatity. GSEA was employed to determine functional pathways associated with the prognostic 6-MDG panel. CD40 expression and methylation in colon cancer samples were also examined in datasets (expression profile [GSE8671] and methylation profile [GSE42752]) from Gene Expression Omnibus. Experimental confirmation of DNA methylation in colon cancer cell lines was performed using methylation specific PCR and bisulfite sequencing.Results: We identified and internal validated a prognostic methylation-driven gene panel consisting of six gene members (TMEM88, HOXB2, FGD1, TOGARAM1, ARHGDIB and CD40). High risk phenotype classified by the 6-MDGs panel was associated with cancer-related biological processes, including invasion and metastasis, angiogenesis and tumor immune microenvironment, among others. The prognostic value of the 6-MDGs panel was independent of TNM stage, and its combination with TNM stage and age could help improve survival prediction of colon cancer patients. Additionally, we validated that the expression of CD40 was regulated by promoter region methylation in colon cancer samples and cell lines. Conclusions: The proposed 6-MDGs panel represents a promising signature for estimating overall survival in patients with colon cancer.
A Report on COVID-19 Epidemic in Pakistan: An SEIR Fractional Model
Authors: Ahmad Zubair , Arif Muhammad , Ali Farhad , Khan Ilyas , Sooppy Kottakkaran 
Published: June 2020

Abstract
Recently, novel coronavirus is a serious global issue and having a negative impact on the economy of the whole world. Like other countries, it also effected the economy and people of Pakistan. According to the publicly reported data, the first case of novel corona virus in Pakistan was reported on 27th February 2020. The aim of the present study is to describe the mathematical model and dynamics of COVID-19 in Pakistan. To investigate the spread of coronavirus in Pakistan, we develop the SEIR time fractional model with newly, developed fractional operator of Atangana-Baleanu. We present briefly the analysis of the given model and discuss its applications using world health organization (WHO) reported data for Pakistan. We consider the available infection cases from 19th march 2020, till 31st march 2020 and accordingly, various parameters are fitted or estimated. It is worth noting that we have calculated the basic reproduction number which shows that virus is spreading rapidly. Furthermore, stability analysis of the model at disease free equilibrium DFE and endemic equilibriums EE is performed to observe the dynamics and transmission of the model. Finally, the AB fractional model is solved numerically. To show the effect of the various embedded parameters like fractional parameter on the model, various graphs are plotted. It is worth noting that the base of our investigation, we have predicted the spread of disease for next 200 days.
WITHDRAWN: Epidemic Big Bang: development and quarantine measures for Covid-19
Authors: Trigger Sergey , Czerniawski Eugeny 
Published: June 2020

Abstract
New discrete approximation for the infection spread is constructed based on COVID-19 epidemic data. We consider the epidemic as dependent upon four key parameters: the size of population involved, the mean number of dangerous contacts of one infected person per day, the probability to transmit infection due to such contact and the mean duration of disease. In the simplest case of free epidemic in an infinite population, the number of infected rises exponentially day by day. Here we show the model for epidemic process in a closed population, constrained by isolation, treatment and so on. The four parameters introduced here have the clear sense and are in association with the well-known concept of reproduction number in the continuous susceptible-infected-susceptible model. We derive these parameters from the adequate statistical data. On this basis, we also found the corresponding basic reproduction number mentioned above. Our approach allows evaluating the influence of quarantine measures on free pandemic process. We found a good correspondence of the theory and reliable statistical data. The model is quite flexible and it can be expanded for situations that are more complex.
Trends of Incidence and Prognosis of Upper Tract Urothelial Carcinoma
Authors: Mao Weipu , Xu Zhipeng , Li Jian , Chen Weijun , Kong Qingfang , Wu Jianping , Xu Bin , Chen Ming 
Published: June 2020

Abstract
Backgrud The purpose of this study was to investigate trends of incidence of upper tract urothelial carcinoma (UTUC) patients and establish reliable and practical nomogram based on significant clinical factors to predict the overall survival (OS) and cancer-specific survival (CSS) of UTUC patients.Methods The Surveillance, Epidemiology, and End Results (SEER) database extracts UTUC patients between 1988 and 2015. Incidence was calculated using joinpoint regression software, and trends were quantified by annual percentage change (APC). A nomogram was constructed using R software to predict the OS and CSS probabilities of a single patient. Results From 1988 to 2015, the incidence of UTUC showed a downward trend (1988: 1.57/100,000 to 2015: 1.51/100,000; APC=-0.1). After stratification according to sex, age and primary site, we found that the incidence of UTUC patients in male, 70+ years and renal pelvis were higher than those of female, <60 years,60-69 years and ureter UTUC patients. The nomogram based on age, sex, marital status, race, origin, primary site, histological type, grade, SEER stage, surgery, radiotherapy and chemotherapy variables showed good OS and CSS accuracy (OS: C-index=0.701, AUC=0.738; CSS: C-index=0.729, AUC=0.689). In addition, the calibration curves showed a good consistency between the predicted and actual 3-, 5- and 10-year OS and CSS rates of the nomogram.Conclusion In the past 30 years, the incidence of UTUC showed a general downward trend, and the prognostic nomogram we established can provide a personalized risk assessment for the survival of UTUC patients.
The Therapeutic Effect of Shugan Xiehuo Formula in Female Rat Model with Central Precocious Puberty
Authors: Yin Weiping , Li Songmei , Zhang Kun , Xu Ying , Ma Dianfei , Shi Tingting , Xiong Lei , Xia Jie 
Published: June 2020

Abstract
Background: Central precocious puberty (CPP) severely affected children’s physical and mental health, which needs to be treated promptly and effectively.Objective: To research the therapeutic effect of Shugan Xiehuo Formula (SXF) on CPP.Methods: CPP female rat model was established and treated by leuprolide and different dose of SXF. Sex organs volume and index were measured. The ovary and uterus was experienced HE staining. Concentration of follicle stimulating hormone (FSH), luteinizing hormone (LH), prolactin (PRL) and estradiol (E2) in peripheral blood was determined. Expression of gonadotropin-releasing hormone (GnRH), gonadotropin-releasing hormone receptor (GnRHR), estrogen receptor alpha (ERα) and G protein-coupled receptor 30 (GPR30) in hypophysis was investigated by qRT-PCR and Western Blot. GnRH expression in hypothalamus and GnRHR expression in ovary was detected by immunohistochemistry.Results: SXF reduced the volume of bilateral ovaries, uterus, hypothalamus and hypophysis in CPP female rat, and diminished the index of ovary, uterus, hypothalamus and hypophysis in CPP female rat (P < 0.05 or P < 0.01). SXF treatment inhibited follicles maturation and uterine wall thickening in CPP female rat. SXF declined FSH, LH, PRL and E2 concentration in peripheral blood in CPP female rat (P < 0.01or P < 0.001). SXF suppressed the expression of GnRH, GnRHR, ERα and GPR30 in hypophysis, the expression of GnRH in hypothalamus and GnRHR in ovary of CPP female rat (P < 0.05, P < 0.01 or P < 0.001).Conclusions: SXF had effective therapeutic effects on CPP female rat, which was worthy of promotion clinically.