bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Novel Risk Model for Mortality and Hospitalization following Cardiac Resynchronization Therapy in Patients with Non-ischemic Cardiomyopathy: The Alpha-score
Authors: Yang Shengwen , Liu Zhimin , Hu Yiran , Jing Ran , Hua Wei 
Published: December 2019

Abstract
Background: Non-ischemic cardiomyopathy (NICM) has been associated with a better left ventricle reverse remodeling response and improved clinical outcomes after cardiac resynchronization therapy (CRT). The aims of our study were to identify the predictors of mortality and heart failure hospitalization in patients treated with CRT and design a risk score for prognosis. Methods: A cohort of 422 consecutive NICM patients with CRT was retrospectively enrolled between January 2010 and December 2017. The primary endpoint was all-cause mortality and heart transplantation. Results: In a multivariate analysis, the predictors of all-cause death were left atrial diameter [Hazard ratio (HR): 1.056, 95% confidence interval (CI): 1.020-1.093, P=0.002]; non-left bundle branch block [HR: 1.793, 95% CI: 1.131-2.844, P =0.013]; high sensitivity C-reactive protein [HR: 1.081, 95% CI: 1.029-1.134 P= 0.002]; and N-terminal pro-B-type natriuretic peptide [HR: 1.018, 95% CI: 1.007-1.030, P =0.002]; and New York Heart Association class IV [HR: 1.018, 95% CI: 1.007-1.030, P =0.002]. The Alpha-score ( A trial diameter, non- L BBB, P ro-BNP, H s-CRP, NYH A class IV) was derived from each independent risk factor. The novel score had good calibration (Hosmer-Lemeshow test, P >0.05) and discrimination for both primary endpoints [c-statistics: 0.749 (95% CI: 0.694-0.804), P <0.001] or heart failure hospitalization [c-statistics: 0.692 (95% CI: 0.639-0.745), P <0.001]. Conclusion: The Alpha-score may enable improved discrimination and accurate prediction of long-term outcomes among NICM patients with CRT.
MEG3 promotes proliferation and inhibits apoptosis in osteoarthritis chondrocytes by miR-361-5p/FOXO1 axis
Authors: Wang Anying , Hu Naixia , Zhang Yefeng , Chen Yuanzhen , Su Changhui , Lv Yao , Shen Yong 
Published: December 2019

Abstract
Background: This study aimed to investigate the role of long non-coding RNA (lncRNA) maternally expressed 3 (MEG3) and related molecular mechanisms, in osteoarthritis (OA). Methods: Cartilage tissues of OA patients and healthy volunteers were isolated and cultured. After transfection with the appropriate construct, chondrocytes were classified into Blank, pcDNA3.1-NC, pcDNA3.1-MEG3, si-NC, si-MEG3, pcDNA3.1-NC + mimics NC, pcDNA3.1-MEG3 + mimics NC, pcDNA3.1-NC + miR-361-5p mimics and pcDNA3.1-MEG3 + miR-361-5p mimics groups. qRT-PCR was used to detect the expression of MEG3, miR-361-5p and FOXO1 . Western blot, luciferase reporter assay, RIP, CCK-8, and flow cytometry analysis were performed to reveal the morphology, proliferation, and apoptotic status of cartilage cells. Histological analysis and immunostaining were conducted in the OA rat model. Results: Expression of MEG3 and FOXO1 was significantly decreased in OA compared with the normal group, while the expression of miR-361-5p was increased. MEG3 might serve as a ceRNA of miR-361-5p in OA chondrocytes. Moreover, using western blot analyses and the CCK-8 assay, MEG3 was shown to target miR-361-5p/FOXO1, elevate cell proliferation, and impair cell apoptosis. Functional analysis in vivo showed that MEG3 suppressed degradation of the cartilage matrix. Conclusion: MEG3 can contribute to cell proliferation and inhibit cell apoptosis and degradation of extracellular matrix (ECM) via the miR-361-5p/FOXO1 axis in OA chondrocytes.
A large-scale comparative study of isoform expressions measured on four platforms
Authors: Zhang Wei , Petegrosso Raphael , Chang Jae Woong , Sun Jiao , Yong Jeongsik , Chien Jeremy , Kuang Rui 
Published: December 2019

Abstract
Background: Most eukaryotic genes produce different transcripts of multiple isoforms by inclusion or exclusion of particular exons. The isoforms of a gene often play diverse functional roles and thus it is necessary to accurately measure isoform expressions as well as gene expressions. While previous studies have demonstrated the strong agreement between mRNA-sequencing (RNA-seq) and array-based gene and/or isoform quantification platforms (Microarray gene expression and Exon-array), the more recently developed NanoString platform has not been systematically evaluated and compared, especially in large-scale studies across different cancer domains. Results: In this paper, we present a large-scale comparative study among RNA-seq, NanoString, array-based, and RT-qPCR platforms using 46 cancer cell lines across different cancer types. The goal is to understand and evaluate the calibers of the platforms for measuring gene and isoform expressions in cancer studies. We first performed NanoString experiments on 59 cancer cell lines with 403 custom-designed probes for measuring the expressions of 478 isoforms in 155 genes and additional RT-qPCR experiments for a subset of the measured isoforms in 13 cell lines. We then combined the data with the matched RNA-seq, Exon-array and Microarray data of 46 of the 59 cell lines for the comparative analysis. Conclusion: In the comparisons of the platforms for evaluating expressions at both isoform and gene levels, we found that (1) the degree of agreement across platforms on quantifying isoform expressions is lower than gene expressions; (2) NanoString and Exon-array are not consistent on isoform quantification even though both techniques are based on hybridization reactions; (3) RT-qPCR experiments are more consistent with RNA-seq and Exon-array quantification results on isoform-level compared to NanoString; (4) different RNA-seq isoform quantification algorithms showed inconsistent results, and two isoform quantification methods Net-RSTQ and eXpress are more consistent across the platforms in the comparison; and (5) RNA-seq has the best overall consistency with the other platforms on gene expression quantification.
Exploring the prevalence of gaming disorder and internet gaming disorder: a rapid scoping review
Authors: Darvesh Nazia , Radhakrishnan Amruta , Lachance Chantelle C , Nincic Vera , Sharpe Jane P , Ghassemi Marco , Straus Sharon E , Tricco Andrea C 
Published: December 2019

Abstract
Background: Internet gaming disorder (IGD) was included in the DSM-5 in 2013 as a condition requiring further research, and gaming disorder (GD) was included in the ICD-11 in 2018. Given the importance of including these conditions in diagnostic guidelines, a review was conducted to describe their prevalence. Methods: Using guidance from the Joanna Briggs Institute and the Preferred Reporting Items for Systematic reviews and Meta-Analyses extension for Scoping Reviews (PRISMA-ScR), we conducted a rapid scoping review. MEDLINE, Embase, PsycINFO, and the Cochrane library were searched for literature published from inception to July 2018. All review stages were pilot tested to calibrate reviewers. The titles/abstracts and full-text articles were screened by one reviewer to include quantitative primary studies that reported GD or IGD prevalence. Excluded citations were screened by a second reviewer to confirm exclusion. Charting was conducted by one reviewer and verified by another, to capture relevant data. Results were summarized descriptively in tables or text. Results: We assessed 5550 potentially relevant citations. No studies on GD were identified. We found 160 studies of various designs that used 35 different methods to diagnose IGD. Prevalence of IGD ranged from 0.21-57.50% in general populations, 3.20-91.00% in clinical populations, and 50.42-79.25% in populations undergoing intervention (severe cases). Most studies were conducted in the Republic of Korea (n=45), China (n=29), and the United States of America (n=20). Results are presented for severe IGD and by geographic region, gender/sex, and age groups (child, adolescent, adult). The five most frequently reported health-related variables were depression (67 times), internet addiction (54 times), anxiety (48 times), impulsiveness (37 times), and attention deficit hyperactivity disorder (24 times). Conclusion: Due to the variability in diagnostic approaches, knowledge users should interpret the wide IGD prevalence ranges with caution. In addition to further research on GD, consensus on the definition of IGD and how it is measured is needed, to better understand the prevalence of these conditions. Protocol registration : Open Science Framework https://osf.io/y2sr6/ , August 21 2018.
Comparison of Mifepristone plus Misoprostol with Misoprostol Alone for First Trimester Medical Abortion: A Systematic Review &amp; Meta -Analysis Protocol
Authors: Shimels Tariku , Abraha Mebratu , Shafie Mensur , Belay Lemi , Getnet Melsew 
Published: December 2019

Abstract
Background Original clinical trials have demonstrated that the combined mifepristone plus misoprostol has a marked effectiveness on first trimester abortion practices compared to the misoprostol alone regimen. However, there is no clear evidence if this effect holds consistent direction for all main outcomes and, whether subsequent complications or side effects are minimal or not. This review is intended to provide aggregated evidence for this question through comparison of the respective regimens based on findings from previous randomized control trial studies. Methods Randomized control trials which compared mifepristone plus misoprostol with misoprostol alone for first trimester medical abortion and published in English language will be included in the review. Articles attempted to evaluate procedures and mechanisms of first trimester abortion other than mifepristone plus misoprostol combined regimen with misoprostol alone will be excluded. An internet based search of different engines will be undertaken to identify articles on the proposed topic. Using text words contained in the titles and abstracts of relevant articles, a full search of PubMed/Medline, Cochrane CENTRAL, EMBASE, WHO international clinical Trial registry platform and google scholar will be made. Data on participants, study methods, interventions, and outcomes will be abstracted. Included studies will be pooled for meta-analysis. Results will be reported in odds or risk ratio at 95% confidence interval. Discussion This systematic review intends to review the available literature on effectiveness of mifepristone plus misoprostol as compared to misoprostol alone for inducing abortion in the first trimester of pregnancy. In addition, we anticipate that the review will evaluate and compare the incidence of potential complications and side effects following administration of the respective regimen in both populations. Systematic review registration number CRD42019134213
A Protocol on Antimicrobial effectiveness of adjunctive disinfection techniques during root canal therapy in patients with pulp necrosis and apical periodontitis. A Systematic Review &amp; Meta-analysis
Authors: Sadaf Durre , Ahmad Zubair , Onakpoya Igho - 
Published: December 2019

Abstract
Background The primary objective of root canal therapy is to eliminate bacteria from the root canal system of teeth. However, standard chemo-mechanical disinfection has been found unable to remove bacteria within the root canals. Clinicians tempted to use additional disinfection techniques to achieve adequate level of disinfection. There is no such systematic review that could comprehensively compare the efficiency of all currently used disinfection techniques. This systematic review aims to compare the antimicrobial effectiveness of various adjunctive disinfection techniques with standards chemo-mechanical disinfection technique(needle syringe irrigation) used during root canal therapy in patients with pulp necrosis and apical periodontitis.Methods A well-defined structured clinical question in the form of PICO (Patients/Problem, Intervention, Comparison, Outcome) is designed. The unit of analysis in this review is a tooth. Teeth with apical periodontitis is a problem (P). Interventions (I) are supplemental disinfection techniques that include photodynamic therapy, passive ultrasonic irrigation, and negative pressure techniques. Comparison (C) will be standard chemo-mechanical disinfection technique. Outcome (O) is the effectiveness of antimicrobial activity in the form of detection of bacteria and colony-forming units (CFU). Keywords, MeSH terms, and synonyms will be searched through previous literature, books, and Medline database. We will perform a comprehensive search strategy using electronic databases MEDLINE (Ovid), EMBASE (Ovid), and Cochrane library. Hand searching of top endodontic journals and reference lists of selected studies will be carried out. Selection of studies will be made under predefined inclusion and exclusion criteria. Data extraction of selected studies will be done with two reviewers using a structured data collection form. At the same time, the risk of bias using the Cochrane risk of bias assessment tools will be carried out. A qualitative and quantitative data synthesis will be done. The data will be presented in the form of tables of summary of findings.Discussion All potential clinical, methodological, and patient's related factors responsible for heterogeneity will be explored and discussed. We will also compare the results of our systematic review with existing literature. Strength and limitations of the systematic review will be discussed.Systematic Review registration Our protocol is registered with the International Prospective Register of Systematic Reviews (PROSPERO-CRD#42019099141).
Identification of potential targets of microRNA-101-3p in prostate cancer by bioinformatics analysis
Authors: Zhang Jiaojiao , Wang Ke , Bai Ruhai , Liang Hua , Zhang Guanjun , Gong Huilin 
Published: December 2019

Abstract
Background: MiR-101-3p, a tumor suppressor, has been implicated as a tumor suppressor miRNA in multiple primary malignancies including prostate cancer (PCa). This study aimed to explore target genes and relevant signaling pathways regulated by microRNA-101-3p (miR-101-3p) for further researches in PCa with bioinformatics analysis. Results: 565 target genes were appeared in all databases and enriched in positive regulation of transcription, which were mainly enriched in axon guidance and MAPK pathway. Two important modules were detected from PPI network. Ten hub genes were selected, including MAPK1, PIKFYVE, EGFR, SMARCA4, TOP2B, GSK3B, FOS, RAC1, BCL2 and TAF1. After thoroughly reviewing published literature, we found that 10 target genes and six signaling pathways were truly inhibited by miR-101-3p in various tissues or cells; some of these verified targets were in accordance with our present prediction. Conclusion: This study demonstrated that miR-101-3p target hub genes, including MAPK1, PIKFYVE, EGFR, SMARCA4, TOP2B, GSK3B, FOS, RAC1, BCL2 and TAF1, might promote the development of PCa. However, further experiments are still required to confirm potential functions of these miR-101-3p target genes and pathways in PCa.
A novel five-gene signature for predicting prognosis in liver cancer
Authors: Zhong Qiuyue , Shuai Yu , Luo Qiong , Feng Guangyong , Wu Mingna , Fan Erxi , Chen Qiying , Yue Guojun , Zhang Guihai 
Published: December 2019

Abstract
Purpose Liver cancer is one of the most common malignant tumors in China, ranked 5th among the malignant common tumors in the world, which is still difficult to diagnose early and treat effectively. Therefore, exploring some indicators for prognostic prediction is imperative in the treatment of liver cancer. Methods Liver cancer data was obtained from The Cancer Genome Atlas (TCGA). We obtained differentially expressed genes (DEGs) by R software from TCGA database. Risk scores were acquired to assess the weighted gene-expression levels by Cox regression analysis and predict the prognosis of patients with liver cancer. Using the KEGG and GO databases, pathway enrichment was performed by identifying the analysis of DEGs. The display of receiver-operating characteristic (ROC) curves and area under the curve (AUC) could show the validity and the prognostic value of this model in liver cancer. Results In total, 1897 DEGs of transcriptome genes in liver cancer and 1197 DEGs of clinical data were extracted from the TCGA database. We identified a novel five-gene signature associated with liver cancer, including CDCA8, NR0B1, GAGE2A, AC018641.1, and SPANXC. Among of them, CDCA8 and NR0B1 were negatively related to 5-year OS, displaying a worse prognosis (P < 0.05). In particular, we also found that GAGE2A is related to lymphatic metastasis from the clinical data analysis in liver cancer. Receiver-operating characteristic (ROC) curve assessed the accuracy and sensitivity of the gene signature. In the heat map, each of the five genes for patients was presented with the distribution of the risk score. Conclusions We figured out a novel five-gene signature for the prognosis of patients with liver cancer, which may be an effective predictor for patients’ prognosis in the future.
Portrayal of the human blood transcriptome of 3,388 adults and its relation to ageing and health
Authors: Maria Schmidt , Loeffler-Wirth Henry , Hopp Lydia , Arakelyan Arsen , Kirsten Holger , Krohn Knut , Burkhardt Ralph , Wirkner Kerstin , Thiery Joachim , Engel Christoph , Loeffler Markus , Binder Hans 
Published: December 2019

Abstract
Background: The blood transcriptome is expected to provide a detailed picture of organism’s physiological state with potential impact for applications in medical diagnostics and molecular and epidemiological research. We here present the first systematic analysis of blood specimen of 3,388 adult individuals collected in the Leipzig Research Center for Civilization Diseases, together with phenotype characteristics such as disease history, medication status, lifestyle factors and body mass index (BMI). Methods: Multidimensional Self Organizing Maps-portrayal was applied to study transcriptional states on a population-wide scale. The method permits a detailed description and visualization of the molecular heterogeneity of transcriptomes and of their association with different phenotypic features. Results: The diversity of transcriptomes is described by about one dozen modules of co-expressed genes of different functional context. We identify two major blood transcriptome types where type 1 accumulates more men, elderly and overweight people and it upregulates genes associating with inflammation and increased heme metabolism, while type 2 accumulates women, younger and normal weight participants and it associates with activated immune response, transcriptional, ribosomal, mitochondrial and telomere-maintenance cell-functions. We find a striking overlap of signatures shared by multiple diseases, ageing and obesity driven by an underlying common pattern, which reflects the increase in inflammatory processes. Conclusions: Our portrayal framework provides a holistic view on the diversity of the human blood transcriptome. It provides a tool for comparative analyses of transcriptional signatures and of associated phenotypes in population studies and medical applications.
How Iranian men perceive sexual and reproductive health? A qualitative study
Authors: Lotfi Razieh , Azin Seyed Ali , Hatefnia Effat , Amiri Mina , Simbar Masoumeh , Tehrani Fahimeh Ramezani 
Published: December 2019

Abstract
Background Despite the effective role of men in promoting their sexual and reproductive health, they have been often been overlooked for cultural and social issues and limited data are available in this context. In developing countries, the majority of men have limited knowledge and ability in terms of reproductive and sexual health. Hence, this study aimed to investigate male perceptions of sexual and reproductive health concepts.Materials and methods Using the conventional content analysis approach, a qualitative study was conducted on data retrieved through semi-structured interviews with 19 adult males aged 18 to 59 years, purposefully selected from among populations of health centers in the province of Alborz, Iran.Results Three main concepts and 9 categories emerged from the conventional content analysis: 1) Needs including “access to sexual and reproductive health services”, “awareness”, and “high-quality and safe sex”; 2) Responsibilities including “health- seeking behaviors”, “sexual skills”, “childbearing responsibilities” and “ethical commitment”; and 3) Social norms including “gender role attitudes”, and “changing marriage rules”.Conclusion This study showed that structural factors along with cultural and social norms affect sexual and reproductive health in men, who are men not adequately taken care and many of their sexual and reproductive health needs have not yet been addressed. Participants believed that men are responsible for their sexual reproductive health, although they have often difficulties fulfilling their responsibilities because of inadequate knowledge on the subject and the lack of access to sexual/ reproductive health services. Hence, along with socioeconomic changes, the health care system should be prepared to meet these needs and responsibilities using preventive strategies and programs.
Bortezomib in combination with fludarabine and cyclophosphamide for patients with relapsed or refractory mantle-cell lymphoma: results of the LYM-4003 study
Authors: Wang Xiao-xiao , Gao Yan , Jin Jie , Cao Jun-ning , Feng Ji-feng , Wang Hua-qing , Zhang Hui-lai , Cai Qing-qing , Li Zhi-ming , Huang Hui-qiang 
Published: December 2019

Abstract
Background The LYM-4003 study was initiated to identify the maximum tolerated dose (MTD) of cyclophosphamide when combined with bortezomib and fludarabine in a phase 1b trial, and to assess the efficacy and safety of this combination in a phase 2 trial in patients with relapsed or refractory MCL. Methods Patients with relapsed or refractory MCL who had received at least one previous lines of treatment were enrolled in this single-arm, open-label, phase 1/2 trial at six major cancer centers in China. In phase 1, to identify the MTD of cyclophosphamide, 3 patient cohorts received escalating doses (150, 200, and 250 mg/m2) of intravenous cyclophosphamide on days 1, 2 of each 28-day cycle. Patients also received bortezomib 1.3 mg/m2 on days 1, 4, 8 and 11, fludarabine 25 mg/m2 on days 1, 2, 3 of each 28-day cycle. In phase 2 study, patients received bortezomib and fludarabine plus the MTD of cyclophosphamide. Treatment in both phases to maximum 6 cycles of chemotherapy, continued until disease progression, or severe toxicity. The primary endpoint was overall response. The secondary endpoint was survival. We used the Kaplan-Meier method to estimate response duration, progression-free survival, and overall survival. Analysis was by intention to treat population. Results 40 patients were enrolled between April 8, 2011 and October 10, 2015, 9 in phase 1 and 34 (including three patients who received the MTD of cyclophosphamide in phase 1) in phase 2. In phase 1, we identified the MTD as 250 mg/m2 cyclophosphamide. In phase 2, grade 3–4 hematological toxicities included thrombocytopenia, leucopenia, neutropenia, and lymphopenia. Among 32 patients in phase 2, 23 (72%) had an overall response: 10 (31%) had a complete response and 13 (41%) had a partial response. The median follow-up time was 31.6 months. The median response duration was 26.3 months. The median progression-free survival was 21 months (95% CI 7.3–34.7), and the median overall survival was 32.4 months (95% CI 17.8–47.0). Conclusions Bortezomib in combination with fludarabine and cyclophosphamide is highly effective and well tolerated for patients with relapsed or refractory MCL. Trial registration ClinicalTrials.gov NCT01322776 (Registered on March 25, 2011)