bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of a novel epithelial-mesenchymal transition-related gene signature for the prognosis prediction of endometrial carcinoma
Authors: Ruan Tianyuan , Wan Jing , Liu Li , Song Qian , Chen Peigen , Li Xiaomao 
Published: May 2021

Abstract
Background Endometrial cancer (EC) is the most prevalent gynecological malignant tumor worldwide. The prognosis of EC patients with distant metastasis is poor. Epithelial‐mesenchymal transition (EMT) plays a crucial role in tumor invasiveness and metastasis. the expression profile of EMT-related gene and their prognostic value and therapy target potential have not been systematically explored in endometrial cancer.MethodThe RNA-Seq expression profile and corresponding clinical data of EC patients were downloaded from The Cancer Genome Atlas database and the Gene Expression Omnibus (GEO) databases. A 9 EMT-related genes (EPHB2, TUFT1, CDKN2A, ONECUT2, RBP2, KLF8, E2F1, SIX1, ERBB2) prognosis risk model of EC was built by combining a machine learning algorism and multivariate Cox regression. Estimation of STromal and Immune cells in MAlignant Tumor tissues using Expression data (ESTIMATE) and Cibersort was applied to acquire for tumor purity and immune cell infiltration of high and low risk group. Also, response to immune checkpoint blockades (ICB) therapy and drug sensitivity were separately evaluated in TIDE and GDSC database for the EC patients.ResultA 9 prognostic EMT-related genes (ERGs) signature was constructed according to TCGA-UCEC and then verified in the GEO dataset. EC Patients were assigned to high- and low-risk group according to the signature, and significant survival difference were discovered between the two groups. Furthermore, ERGs signature was identified as an independent prognostic factor in the multivariate Cox regression and the ROC curve revealed a high sensitivity and specificity to the model (0.78 at 2 years and 0.83 at 5 years). Furthermore, quantitative prognostic nomogram was constructed to predict survival time in EC patients. This ERGs signature was also significantly correlated with tumor purity and immune cell infiltration, which in compliance to the prediction that clinical response to ICB therapy were better in the high-risk group base on TIDE database. In addition, 8 chemical components which the high-risk group may be more sensitive to were screened out and analyzed.Conclusions We identified a novel EMT‐related gene signature for predicting prognosis of EC patients and molecular understanding of EMT and immune microenvironment of EC. This may facilitate the decision-making during EC treatment.
Comprehensive Analysis of Eph-Ephrin as Novel DLBC Biomarkers for Molecular Subtyping and the Predictability in Prognosis and Drug Response
Authors: Li Xiaoxi , Zhang Chenxiao , Deng Minyao , Qian Hui 
Published: May 2021

Abstract
Background: Receptor tyrosine kinases (RTKs) are key signal molecules for sustaining proliferative signaling and abnormal of RTKs appears in many cancers, including Lymphoid Neoplasm Diffuse Large B-cell Lymphoma (DLBC).Methods: Cluster analysis based on RNA-seq and RPPA data were calculated to establish novel signature for molecular subtyping of DLBC. Principal component analysis (PCA) was used to evaluation relationship of selected genes.Results: EPHB4, EPHB6, EFNA3, EFNA4, EFNB1 are 5 specific genes in DLBC and their expression level are significantly relevant to poor prognosis. Integration analysis of DLBC Expr-Ab signature discovered five DLBC related Eph-Ephrin genes may be involved in epigenetic regulation in DLBC progress. Four novel clusters based on Expr-Ab are generated and we first link five Eph-Ephrin to well-defined oncogenes as following: EPHB4-BCL6; EFNA3/EFNA4-MYC; EPHB6-EZH2; EFNB1-Epigenetic modulators. Drug response data involving 13 traditional and targeting drugsConclusions: Expr-Ab signature we established in this study indicates the power of both RNA-seq and RPPA data in developing and evaluating precision regimens. We also highlight Eph-Ephrin, as surface proteins, are powerful potentially biomarkers. Our finding underlines Eph-Ephrin as biomarkers for predicting prognosis and precision regimen for patients with lymphoma.
Identification of Multi-omics Biomarkers and Construction of the Novel Prognostic Model for Hepatocellular Carcinoma
Authors: Yan Xiaokai , Xiao Chiying , Yue Kunyan , Chen Min , Zhou Hang 
Published: May 2021

Abstract
Background: Change in the genome plays a crucial role in cancerogenesis and many biomarkers can be used as effective prognostic indicators in diverse tumors. Currently, although many studies have constructed some predictive models for hepatocellular carcinoma (HCC) based on molecular signatures, the performance of which is unsatisfactory. To fill this shortcoming, we hope to construct a novel and accurate prognostic model with multi-omics data to guide prognostic assessments of HCC. Methods: The TCGA training set was used to identify crucial biomarkers and construct single-omic prognostic models through difference analysis, univariate Cox, and LASSO/stepwise Cox analysis. Then the performances of single-omic models were evaluated and validated through survival analysis, Harrell’s concordance index (C-index), and receiver operating characteristic (ROC) curve, in the TCGA test set and external cohorts. Besides, a comprehensive model based on multi-omics data was constructed via multiple Cox analysis, and the performance of which was evaluated in the TCGA training set and TCGA test set. Results: We identified 16 key mRNAs, 20 key lncRNAs, 5 key miRNAs, 5 key CNV genes, and 7 key SNPs which were significantly associated with the prognosis of HCC, and constructed 5 single-omic models which showed relatively good performance in prognostic prediction with c-index ranged from 0.63 to 0.75 in the TCGA training set and test set. Besides, we validated the mRNA model and the SNP model in two independent external datasets respectively, and good discriminating abilities were observed through survival analysis (P < 0.05). Moreover, the multi-omics model based on mRNA, lncRNA, miRNA, CNV, and SNP information presented a quite strong predictive ability with c-index over 0.80 and all AUC values at 1,3,5-years more than 0.84.Conclusion: In this study, we identified many biomarkers that may help study underlying carcinogenesis mechanisms in HCC, and constructed five single-omic models and an integrated multi-omics model that may provide effective and reliable guides for prognosis assessment and treatment decision-making.
Reducing exposure to COVID-19 by improving access to fever clinics: An empirical research of the Shenzhen area of China
Authors: Yong Qing , Liu Dinglong , Li Guoqi , Wu Wanshan , Sun Wenjie , Liu Sijing 
Published: May 2021

Abstract
Background:The current 2019 coronavirus disease (COVID-19) pandemic is hitting citizen's life and health like never before, with its significant loss to human life and a huge economic toll. In this case, the fever clinics (FCs) were still preserved as one of the most effective control measures in China, but this work is based on experience and lacks scientific and effective guidance. Here, we use travel time to link facilities and populations at risk of COVID-19 and identify the dynamic allocation of patients’ medical needs, and then propose the optimized allocation scheme of FCs。Methods:We selected Shenzhen, China, to collect geospatial resources of epidemic communities (ECs) and FCs to determine the ECs' cumulative opportunities of visiting FCs, as well as evaluate the rationality of medical resources in current ECs. Also, we use the Location Set Covering Problem (LSCP) model to optimize the allocation of FCs and evaluate efficiency. Results:Firstly, we divide the current ECs into 3 groups based on travel time and cumulative opportunities of visiting FCs within 30 minutes: Low-satisfied communities (22.06%), medium- satisfied communities (59.8%), and high-satisfied communities (18.14%) with 0,1-2 and no less than 3 opportunities of visiting FCs. Besides, our work proposes two allocation schemes of fever clinics through the LSCP model. Among which, selecting secondary and above hospitals as an alternative in scheme 1, will increase the coverage rate of hospitals in high-satisfied and medium-satisfied communities from 59.8 percent to 80.88 percent. In scheme 2, selecting primary and above hospitals as an alternative will increase the coverage rate of hospitals in medium-satisfied and large-satisfied communities to 85.29 percent, with the average travel time reducing from 22.42 minutes to 17.94 minutes.Conclusions: The optimized allocation scheme can achieve two objectives: a. equal access to medical services for different types of communities has improved while reducing the overutilization of high-quality medical resources. b. the travel time for medical treatment in the community has reduced, thus improving medical accessibility. On this basis, during the early screening in prevention and control of the outbreak, the specific suggestions for implementation in developing and less developed countries are made.
Application of CD54 in Diagnosing Bone Marrow Involvement by using Flow Cytometry in Patients with Diffuse Large B-cell Lymphoma
Authors: Wang Wei , Li Yan , Rivera Xavier Rivera , Zhao Linjun , Mei Di , Hu Wenqing , Bin Jiang 
Published: May 2021

Abstract
BackgroundFlow cytometry plays a key role in detecting bone marrow (BM) involvement in patients with diffuse large B-cell lymphoma (DLBCL). To improve its detection sensitivity, we need to explore novel markers. In this study, we detected the expression CD54 on lymphoma cells in BM specimens from DLBCL patients and clarified its diagnostic significance in BM involvement by DLBCL.MethodsWe collected BM specimens from 76 patients with DLBCL (germinal center B-cell (GCB) = 25, non-GCB = 51) and 10 control patients without lymphoma. We detected and compared the expression of CD54 on lymphoma cells and normal mature B cells by using 10-color panels. ResultsNormal plasma cells expressed a higher level of CD54 as compared with hematogones (p < 0.05) and normal mature B cells (p < 0.05). Lymphoma B cells expressed a higher level of CD54 compared to normal mature B cells (p < 0.05). Additionally, lymphoma cells of the non-GCB subtype frequently expressed a higher level of CD54 in comparison to the GCB subtype (p < 0.05). And the high expression of CD54 was not related to plasmacytoid differentiation. ConclusionAberrant expression of CD54 on lymphoma cells is frequently seen in patients’ BM specimens involved by DLBCL, especially in the non-GCB subtype. CD54 could be used as a new marker to gate on lymphoma cells and improve the detection sensitivity of BM involvement in patients with DLBCL.
Increased glucosylceramide production leads to decreased cell energy metabolism and lowered tumor marker expression in non-cancerous liver cells
Authors: Wegner Marthe-Susanna , Schömel Nina , Olzomer Ellen M , Trautmann Sandra , Olesch Catherine , Byrne Frances L , Brüne Bernhard , Gurke Robert , Ferreirós Nerea , Weigert Andreas , Geisslinger Gerd , Hoehn Kyle L 
Published: May 2021

Abstract
Hepatocellular carcinoma (HCC) is one of the most difficult cancer types to treat. Liver cancer is often diagnosed at late stages and therapeutic treatment is frequently accompanied by development of multidrug resistance. This leads to poor outcomes for cancer patients. Understanding the fundamental molecular mechanisms leading to liver cancer development is crucial for developing new therapeutic approaches, which are more efficient in treating cancer. Mice with a liver specific UDP-glucose ceramide glucosyltransferase (UGCG) knockout (KO) show delayed diethylnitrosamine (DEN)-induced liver tumor growth. Accordingly, the rationale for our study was to determine whether UGCG overexpression is sufficient to drive cancer phenotypes in liver cells. We investigated the effect of UGCG overexpression (OE) on normal murine liver (NMuLi) cells. Increased UGCG expression results in decreased mitochondrial respiration and glycolysis, which is reversible by treatment with EtDO-P4, an UGCG inhibitor. Furthermore, tumor markers such as FGF21 and EPCAM are lowered following UGCG OE, which could be related to glucosylceramide (GlcCer) and lactosylceramide (LacCer) accumulation in glycosphingolipid-enriched microdomains (GEMs) and subsequently altered signaling protein phosphorylation. These cellular processes lead to decreased proliferation in NMuLi/UGCG OE cells. Our data show that increased UGCG expression itself does not induce pro-cancerous processes in normal liver cells, which indicates that increased GlcCer expression leads to different outcomes in different cancer types.
Effects of changes of osteocyte shape on fluid flow and fluid shear stress of loaded bone
Authors: Yu WeiLun , Huo Xuyang , Li Hongliang , Yang Fengjian , Qi Qiuju , Wu Xiaogang , Chen Weiyi 
Published: May 2021

Abstract
Background: Load-induced pressure gradients (PG) result in interstitial fluid flow in bone tissue, which is not only provides sufficient nutrient supply and metabolic pathway for the bone cells, but also enables bone cells to accept external mechanical signals. Methods: We calculate the number and distribution of bone canaliculus around the osteocyte based on the varying shape of osteocyte, and then use these calculated parameters and other microstructure data of bone tissue to estimate the anisotropy permeability of the lacunar–canalicular. Finally, according to the calculated parameters, the poroelastic finite element models of the osteon are established, and the influence of the osteocyte shape on the fluid flow properties of osteon under the axial displacement load is analyzed. Two kinds of boundary conditions are considered on the cement line of osteon, elastic restrained (BC1) and displacement confined (BC2). Results: In the range of parameters we studied, the changes of osteocyte shape (Case1-Case6) make the maximum value of PG, pore pressure (PP), fluid velocity (FV) and fluid shear stress (FSS) 33.36%, 67.67%, 8.6% and 26.6% larger than the Reference model in BC1, respectively. And the maximum value of PG, PP, FV and FSS are 65.39%, 67.67%, 8.4% and 29% larger than reference model in BC2. The maximum PG, PP, FV and FSS in BC2 are 96.72%, 95.51%, 97.87% and 97.13% larger than that in BC1, respectively. The permeability of elongated osteocyte model (Case 3, Case 4 and Case 6) have a difference of one magnitude order in X and Y direction. Conclusion: The changes of osteocyte shape has a significant impact on the degrees of anisotropy for fluid flow and porous media of osteon. This model can facilitate better accurately quantifying the fluid flow in lacuna-canalicular system.
Design of logic configuration platform for large power grid security and stability simulation based on object-oriented
Authors: Xuetao Yang , Dunwen Song , Shiying Ma 
Published: May 2021

Abstract
In response to the multi-state simulation business process requirements of large power grids in actual engineering, this paper designs a set of logic configuration platform for large power grid security and stability simulation. In order to improve the application adaptability of the existing configuration software, firstly, the overall architecture and visual operation interface design of the large power grid security and stability simulation logic configuration platform were proposed. Secondly, the key technology of realization of generalized large-scale power grid simulation logic configuration platform was discussed in depth from the aspects of logic compilation and engine implementation. Based on the configuration platform, the innovative application of the intelligent large-scale grid operation arrangement system is realized. System development replaces the engineering customization mode of conventional manual software coding with visual logic configuration mode, which greatly improves the engineering adaptability of multi-state large power grid simulation business requirements.
Antimicrobial Use by Backyard Food Animal Producers in Ecuador: A Qualitative Study
Authors: Waters William F. , Baca Martin , Graham Jay P. , Butzin-Dozier Zachary , Vinueza Lenin 
Published: May 2021

Abstract
Background: Antimicrobials are widely used throughout the world in food animal production for controlling and preventing disease and for promoting growth. But this trend also has the potential for promoting antimicrobial resistance, which represents a threat to human, animal, and environmental health. The use of antimicrobials and the potential effects of antimicrobial dependence has often been associated with large-scale food animal production. But rural households also engage in small-scale agricultural production, often operating literally in backyards. While some small-scale producers use veterinary antimicrobials, most do not. This paper examines knowledge and attitudes to understand alternative practices. Methods: Qualitative field research was based on four focus group discussions (FGDs) with backyard food animal producers in six communities near Quito, Ecuador and two FGDs with veterinarians. FGDs were supplemented by structured observations and key informant interviews. They were recorded with digital audio devices and transcriptions were analyzed independently by two researchers using a three-stage coding procedure. Open coding identifies underlying concepts, while axial coding develops categories and properties, and selective coding integrates the information in order to identify the key dimensions of the collective qualitative data.Results: The qualitative data analysis shows that first, backyard food animal producers use few purchased inputs, including antimicrobials for keeping small numbers of animals and poultry for predominantly non-commercial household consumption and they use traditional veterinary remedies at little or no cost. Second, indigenous households and other small-scale producers in the Ecuadorian highlands and other parts of the Andean region retain traditional views of human productive activity as a component of the physical and spiritual environment. Conclusions: Backyard food animal producers in the Ecuadorian highlands implement complex household survival strategies based on both economic calculations and sociocultural underpinnings that shape perceptions, attitudes, and practices. They use traditional veterinary remedies in lieu of antimicrobials in most cases because limited production of food animals in small spaces allows them to contribute to a predictable household food supply, while at the same time conforming to traditional concepts of human and environmental health.
Implementation of Social Needs Screening in Primary Care: A Qualitative Study Using the Health Equity Implementation Framework
Authors: Drake Connor , Batchelder Heather , Lian Tyler , Cannady Meagan , Weinberger Morris , Eisenson Howard , Esmaili Emily , Lewinski Allison , Zullig Leah L. , Haley Amber , Edelman David , Shea Christopher M. 
Published: May 2021

Abstract
Background: Screening in primary care for unmet individual social needs (e.g., housing instability, food insecurity, unemployment, social isolation) is critical to addressing the deleterious effects on patients’ health outcomes. Evidence is needed regarding approaches to implementing such screening in routine clinical encounters to enhance social care integration. To our knowledge, this is the first study to apply an implementation science framework to identify implementation factors and best practices.Methods: Guided by the Health Equity Implementation Framework (HEIF), we collected qualitative data from providers and patients to evaluate barriers and facilitators to implementing the Protocol for Responding to and Assessing Patients’ Assets, Risks, and Experiences (PRAPARE), a standardized social needs screening and response protocol, in a federally qualified health center. Eligible patients (n = 2,192) who received the PRAPARE as a standard of care at three of the center’s clinics (Adult Medicine, Family Medicine, and Pediatrics) were invited to participate in semi-structured interviews. We also obtained front-line clinician perspectives in a semi-structured focus group. We used HEIF domains to inform a directed content analysis.Results: Patients and clinicians (i.e., case managers) reported implementation barriers and facilitators across multiple levels (e.g., clinical encounters, patient and provider factors, inner context, outer context, and societal influence). Implementation barriers included structural and policy level determinants related to resource availability, discrimination, and administrative burden. Facilitators included evidence-based clinical techniques for shared decision making (e.g., motivational interviewing), team-based staffing models, and beliefs related to alignment of the PRAPARE with patient-centered care. We found high levels of patient acceptability and opportunities for adaptation to increase equitable adoption and reach.Conclusion: Our results provide practical insight into the implementation of the PRAPARE or similar social needs screening and response protocols in primary care. Our findings highlight the dynamic relationship between barriers and facilitators to implementation at the individual encounter, organizational, community, and societal levels. Future research should focus on developing discrete implementation strategies to promote social needs screening and response, and associated multisector care coordination to improve health outcomes and equity for vulnerable and marginalized patient populations.
The effects of Dynamic® taping on vertical jumps in adolescent volleyball players with low medial longitudinal arch: a cross sectional study
Authors: Ercan Dilek Hande , Kafa Nihan , Güzel Nevin Atalay , Akarçeşme Cengiz 
Published: May 2021

Abstract
Background: Taping is one of the conservative intervention methods used by health professionals for a long time to provide mechanical support for the musculoskeletal system. However, there is insufficient evidence to demonstrate its effect on Dynamic® taping. The purpose of this study to investigate how Dynamic® taping affected vertical jump and medial longitudinal arch (MLA) height in adolescent volleyball players with a low MLA. Methods: In the study, 23 female athletes participated with the mean age of 15.22±1.54 years. On the first day, athletes who were evaluated without a tape and they received Dynamic® taping the next day. Then they were re-evaluated with the taping on. All athletes jumped on eight different surfaces, first with shoes and then barefoot (without shoes). The distance of navicular drop was evaluated with the navicular drop test and vertical jump height was measured with the device VERT® (Mayfonk Athletic, USA). For the statistical analysis, the software SPSS version 22.0 for IBM (SPSS Inc., Chicago, Il, USA) and dependent groups student’s t-test was used. P-value accepted as 0.05 and cases where P < .05 were considered statistically significant. Results: The distance of navicular drop both in the right and left feet decreased in a statistically significant (P < .05) extent following Dynamic® taping. Comparing the vertical jump heights on eight different types of floor surface, before and after taping, with and without shoes, it was found that there was no statistically significant difference for all cases (P > .05). Conclusions: This was the first study to investigate the effectsg of Dynamic® taping on vertical jump and MLA height in adolescent volleyball players with low MLA height. As a result of the study, it was found that Dynamic® taping did not have a statistically significant effect on the vertical jump height, but it decreased navicular drop distance at statistically significant levels. Dynamic® tape application can be used as an easy-to-apply practical treatment agent to support the MLA in asymptomatic adolescent athletes with an increasing navicular drop. Trial registration: Before starting the study, approval from Gazi University Ethics Commission dated 20/11/2018 and numbered 14574941-050.99- 153747 was obtained.