bluuebunny/crossref_metadata_2025_split huggingface dataset:
Locally Activated Mitophagy Contributes to a “built-in” Protection Against Early Burn-wound Progression in Rats Following a Regulation of HIF-1α
Authors: Guo Songxue , Fang Quan , Chen Leilei , Yu Meirong , Chen Yike , Li Nan , Han Chunmao , Hu Xueqing 
Published: August 2020

Abstract
Background: Deep burn wounds undergo a dynamic progression in the initial or periburn area after insults. The zone of stasis has a higher risk of deterioration and is considered a salvageable target for burn-wound progression. Few studies have explored the role of mitochondrial damage in this process and potential “built-in” self-defense within the human body.Methods: A classic “comb” scald rat model was established in this study. Histological and blood-flow observation were processed based on hematoxylin-eosin staining and laser analysis. Oxidative and apoptotic status were analyzed by commercial kits. Transmission electron microscope, immunofluorescence staining, and western blot were applied to detect the mitophagy happened in the zone of stasis and potential regulators. Adenovirus-based gene-silence contributed to determine the role of HIF-1 as a regulatory mediator. Results: We found that burn insults caused typical ischemia and histological deterioration in the zone of stasis, in parallel with increases in oxidative stress and apoptosis. Mitochondrial damage was also involved in the aforementioned changes. Furthermore, we detected typical mitophagy in burn wounds, which was contradictory to the burn-wound conversion. HIF-1 expression was closely related to the level of mitophagy, while BNIP3 and PARKIN are involved downstream. Conclusion: We demonstrate that burn-induced mitochondrial impairment contributes to the mobilization of injurious mechanisms in the zone of stasis and that mitophagy provides a more beneficial way to protect against burn-wound progression via the elimination of damaged mitochondria. Our findings offer insights into mitochondrial quality control in burn-wound progression and suggest the novel concept that HIF-1 may be a potential therapeutic target due to its possible regulatory effects upstream of BNIP3- or PARKIN-mediated mitophagy.
Clinic Correlation and Prognostic Value of P4HB and GRP78 Expression in Gastric Cancer
Authors: Zhang Chenfei , Zhao Wenjing , Zhang Xingsong , Wu Tongyu , Zhang Xunlei , Song Li , Xu Weiwei , Chen Xudong , Yang Lei 
Published: August 2020

Abstract
Background: Prolyl 4-hydroxylase, beta polypeptide (P4HB) and Glucose‑regulated protein 78 (GRP78) represent for poor prognosis of various cancers, while rare research investigate correlation of them. This study aimed to explore the correlation and prognostic value of P4HB and GRP78 expression combined with clinical features in gastric cancer (GC).Methods: 150 GC tissue samples evaluated P4HB and GRP78 protein expression by immunohistochemistry separately. Association of the expression with clinicopathological features was analyzed. To explore correlation between their mRNAs and pathways, bioinformatics analyses were performed. Kaplan-Meier analyses were taken to compare survival curves. Univariate and multivariate Cox regression models were used to analyze potential prognostic factors of overall survival (OS). Basing on the multivariate Cox regression model, a prognostic nomogram was constructed, discrimination ability and clinical usefulness of which were compared to TNM stageResults: P4HB and GRP78 expression were both associated with tumor invasion and lymph node metastasis. P4HB protein positive correlated with GRP78, as the same tendency of mRNAs in both GC tissue and cell databases. Bioinformatics analyses indicated that P4HB and GRP78 may be associated with protein folding and response to ER stress, as well as with the protein processing in ER pathway. High single expression or co-expression of P4HB and GRP78 indicated a shorter OS. When stratified by postoperative adjuvant chemotherapy, high co-expression was only represented for unfavorable prognosis in the group with chemotherapy, especially in advanced stage. Multivariate Cox regression analysis identified differentiation (P = 0.020, HR = 1.846, 95% CI: 1.099-3.101), TNM stage (P < 0.001, HR = 3.124, 95% CI: 1.870-5.217), postoperative adjuvant chemotherapy (P = 0.005, HR = 0.507, 95% CI: 0.317-0.810) and P4HB and GRP78 co-expression (P = 0.002, HR = 2.304, 95% CI: 1.355-3.915) were independent prognostic factors for OS. The nomogram was better than TNM stage in discrimination ability and clinical usefulness from the receiver operating characteristic (ROC) and decision curve analysis (DCA) curves.Conclusion: P4HB may positive correlate with GRP78 expression in GC. Co-expression of them can be an independent prognostic factor, serving as a predictive biomarker for GC patients, especially for advanced stage with postoperative adjuvant chemotherapy. And the nomogram may be better than TNM stage in discrimination ability and clinical usefulness.
Comparison of Shiraz Trauma Transfusion Score (STTS) Potency With Common Scoring Systems for Trauma in Predicting the Short and Long Term Mortality of Injured Patients
Authors: Rahbari Sepideh Vosooghi , Hosseinpour Hamidreza , Karoobi Mohamadreza , Abolghasemi Hojat , Shahabinezhad Ali , Paydar Shahram 
Published: August 2020

Abstract
background: Trauma is the leading cause of death in people under 40 years of age worldwide. Various studies have been conducted focused on reducing the annual mortality rate due to trauma. One of the most important measures is reducing the time between the incident and the treatment set up, therefore estimation of the severity of trauma and progressing to mortality before further evaluation is justified. Numerous trauma scoring systems have been apllied worldwide as models for predicting mortality of trauma patients in short and long term periods based on clinical and laboratory data. In this study we aim to compare different trauma scoring systems (such as GAP, MGAP, RTS, TRISS) with a relatively new model – Shiraz Trauma Transfusion Score (STTS) – and to discribe the best qualities of these scoring systems for trauma patients in short (less than 24 hours) and long (more than 24 hours) term.Methods: In this cross-sectional study, data from hospitalized trauma patients in Rajaei hospital (center B) of Shiraz, Iran from May to November 2016 were collected and analyzed. Collected data consisted of age, sex, hospital admission duration, mechanism of trauma along with clinical data for calculating different trauma scoring systems, were recorded. Results: while RTS and STTS were the best predictors of mortality in trauma patients in the first 24 hours (sensitivity of 100.00%), GAP and MGAP were the best predictors of the patients’ survival (specificity of 93.83% and 92.59%). GAP and ISS were the best predictors of mortality in trauma patients for more than 24 hours (sensitivity of 82.02%). On the other hand, TRIS and RTS was the best predictors of patients' survival (specificity of 82.59% and 80.26%).Conclusion: Our study findings suggest that the utility and applicability of Shiraz Trauma Transfusion Score(STTS) in predicting mortality is not only comparable with other commonly used scoring methods but it may be of more value in short term mortality prediction.
Prognostic signature of ovarian cancer based on 14 tumor microenvironment genes
Authors: Nie Xiazi , Song Lina , Li Xiaohua , Wang Yirong , Qu Bo 
Published: August 2020

Abstract
Background

Ovarian cancer is one of the lethal gynecological in women. Tumor microenvironment (TME) is emerging as a pivotal biomarker for patients’ therapeutic sensitivity and prognosis. In this study, we proposed to explore the prognostic role of TME-related genes in ovarian cancer.
Methods

The data of whole genome expression profiles and detailed clinicopathological information of three cohorts of ovarian cancer patients from the Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO). Univariate Cox regression analysis was used to screen TME-related genes with significantly prognostic value based on TCGA cohort. LASSO Cox regression analysis was adapted to the construction of prognostic model. Ovarian cancer cohorts from GEO were used as validation set for verifying the reliability of the prognostic model. Relative infiltrating proportion of 22 immune cells were estimated through CIBERSORT software.
Results

This study identified a total of 14 TME-related genes that finally incorporated into the prognostic model. The risk score that calculated through the prognostic model was proved as an independent prognostic signature in ovarian cancer. Nomogram that contains TNM stage and risk score could reliably predict the long-term overall survival probability. Additionally, risk score was significantly associated with the relative infiltrating proportion of several immune cells in ovarian cancer and mRNA levels of some immune checkpoint genes.
Conclusions

This study constructed a prognostic model for ovarian cancer, which was closely associated with the prognosis and immune status. This should provide novel clue for prognosis study in ovarian cancer.
Impact of Superselective Intra-Arterial and Systemic Chemoradiotherapy for Gingival Carcinoma; Analysis of Treatment Outcomes and Prognostic Factors
Authors: Mukai Yuki , Hayashi Yuichiro , Koike Izumi , Koizumi Toshiyuki , Sugiura Madoka , Oguri Senri , Takano Shoko , Kioi Mitomu , Sato Mizuki , Mitsudo Kenji , Hata Masaharu 
Published: August 2020

Abstract
Background: We compared outcomes and toxicity between radiation therapy (RT) with concurrent retrograde super-selective intra-arterial chemotherapy (IACRT) and RT with concurrent systemic chemoradiotherapy (SCRT), for gingival carcinoma (GC).　Methods: We included 84 consecutive patients who were treated for GC ≥ stage III, from 2006 to 2018, in this retrospective analysis (IACRT group: n=66; SCRT group: n=18).Results: Median follow-up time was 24 (range: 1–124) months. The median prescribed dose was 60 (6–70.2) Gy (IACRT group: 60 Gy; SCRT group:69 Gy). At 3 years, the two groups significantly differed in overall survival (OS; IACRT: 78.75%, 95% confidence interval [CI]: 66.00–87.62; SCRT: 50.37%, 95% CI: 27.58–73.0; P = 0.039), progression-free survival (PFS; IACRT: 75.64%, 95% CI: 62.69–85.17; SCRT: 41.96%, 95% CI: 17.65–70.90; P = 0.028) and local control (LC; IACRT: 77.17%, 95% CI: 64.23–86.41; SCRT: 41.96%, 95% CI: 17.65–70.90; P = 0.015). In univariate analysis, age ≥ 65, decreased performance status (PS) and SCRT were significantly associated with worse outcomes (P < 0.05). In multivariate analysis, age ≥ 65 years, clinical stage IV, and SCRT were significantly correlated with poor OS (P < 0.05). Patients with poorer PS had significantly worse PFS.Conclusions: This is the first report to compare outcomes from IACRT and SCRT among patients with GC. IACRT is an effective and organ-preserving treatment for GC.Trial registration: retrospectively registered
Dorsal tongue versus ventrolateral tongue leukoplakia: An anatomical perspective on clinicopathological characteristics and treatment outcomes
Authors: Yang Shih-Wei , Lee Yun-Shien , Chang Liang-Che , Yang Cheng-Han , Luo Cheng-Ming 
Published: August 2020

Abstract
Background

Among the risks of malignant transformation of oral leukoplakia, tongue has been identified as a high-risk site. Only little information exists on the clinicopathological characteristics and treatment outcomes specific to leukoplakia of the dorsum of the tongue. The comparison of clinicopathological characteristics of the dorsal tongue and ventrolateral tongue leukoplakia is not available in the literature. The purpose of this study is to investigate the clinicopathological characteristics and treatment outcomes between dorsal and ventrolateral tongue leukoplakia.
Methods

The demographic data and pathological results of the patients who received carbon dioxide laser surgery for tongue leukoplakia from 2002 to 2019 were retrospectively reviewed and analyzed statistically.
Results

Of 144 enrolled, there were 108 males and 36 females with a mean age 52.17 ± 11.72. The follow-up time was 4.58 ± 4.53 years. Thirty patients had postoperative recurrence (20.83%). Twelve patients developed malignant transformation (8.33%). Annual transformation rate was 2.28%. In comparison of dorsal and ventrolateral tongue leukoplakia, there were no differences in the time to the development of carcinoma (2.62 ± 1.69 VS 3.98 ± 2.77 years), overall cumulative malignant transformation rates (7.50% VS 7.69%), and annual transformation rates (2.86% VS 1.93%). The prevalence of ventrolateral tongue leukoplakia is higher than the dorsal tongue leukoplakia (P < 0.001)
Conclusions

Dorsal tongue leukoplakia is not as frequently encountered clinically as ventrolateral tongue leukoplakia. The response to laser therapy of dorsal tongue and ventrolateral tongue leukoplakia are comparable in postoperative recurrence and postoperative malignant transformation.
Development and validation of a novel five-gene-based RNA binding protein associated prognostic model for human colon cancer
Authors: Liu Haoling , Bai Qingquan , Lu Zhaoyang , Song Xuan , Jin Ye , Liu Yao , Meng Fanzheng , Guo Hongrui , Pei Tiemin , Liang Shuhang , Song Ruipeng , Liang Yingjian , Wang Jiabei , Yin Dalong , Qu Zhibo , Guo Huaxin , Jiang Hongchi , Yang Haiyan 
Published: August 2020

Abstract
BackgroundDysregulation of RNA binding protein (RBP) expression has been reported in various malignant tumors, and it is related to the occurrence and development of cancer. However, the role of RBPs in colon cancer remains unclear.MethodsWe downloaded the RNA sequencing data of colon cancer from The Cancer Genome Atlas (TCGA) database, and determined the differently expressed RBPs between normal and cancer tissues. Then, through a series of bioinformatics analysis, we systematically studied the expression and prognostic value of these RBPs.ResultA total of 490 different expression differently expressed RBPs were identified, including 323 up-regulated and 167 down. regulated RBPs. Five RBPs (PNLDC1, NSUN6, NOL3, PPARGC1A, LRRFIP2) were identified as prognosis related genes for the construction of prognostic model. Further analysis showed that the overall survival rate (OS) of patients in the high-risk subgroup was worse than that in the low-risk subgroup based on this model. The area under the characteristic curve of time-dependent receiver was 0.691 in TCGA and 0.624 in GEO, which confirmed the prognostic model to be a good one. We also established a nominal map based on the internal validation in 5 RBPs mRNAs and TCGA sequeues, showing a good ability to differentiate colon cancer.ConclusionsWe screened RBPs expression differences between colon cancer and adjacent non tumor colon tissues using the TCGA database to identify potential gene biomarkers.Besides,a very effective prediction model was constructed and tested based on the differential expression of RBPs using the TCGA and Gene Expression Omnibus (GEO) database.We also Validated of the relationship between the expression of five RBPs and prognosis
The Physiological Condition of Host Affects more Significantly Gut Microbiome than Diet
Authors: Chung Hea-Jong , Lkhagva Enkhchimeg , Hong Seong-Tshool 
Published: August 2020

Abstract
Background: The gut microbiome, which is composed of trillions of microbes, plays a fundamental role in human health and disease. Each individual has a unique profile of gut microbiome which plays specific functions in its host. Although multiple factors might affect the diversity of gut microbiome, physiological condition and diet are considered as main determining factors for gut microbiome diversity.Results: We performed a comparative study to elucidate which one between physiological condition and diet affects more significantly gut microbiome diversity by comparing the effect of a vegetarian diet and a light physical exercise. Although both Physical exercise and vegetarian diet affected significantly the composition of gut microbiome, the patterns of affection were different. The physical exercise increased the populations of Firmicutes and Actinobacteria, whereas the vegetarian diet increased the populations of Bacteroidetes and Actinobacteria. Flourishing of Megamonas funiformis was most notable by the physical exercise while flourishing Prevotella and decreasing Bacteroides was most notable by the vegetarian diet. Maximum-likelihood phylogenetic tree analysis comprising all of the taxa, the taxonomic α-diversity measurement by ACE richness, Shannon and Simpson, and HCL heatmap analysis at Genus level showed that the physical exercise affected the microbial community more significantly than diet shift, and the diversities of gut microbiome were slightly decreased in both cases. Both NMDS heatmap and Fast UniFrac analysis further confirmed that physical exercise affected the composition of gut microbiome more significantly than vegetarian diet. The NMDS plots based on Bray-Curtis distances validated that the original composition of gut microbiome became diverged into a different direction by either physical exercise or vegetarian diet. Conclusion: The physiological condition of host contributes more significantly to the composition of gut microbiome than diet, which means that the composition of gut microbiome is more significantly affected by a host factor than diet. This work also would provide a new theoretical basis why physical exercises is more health-beneficial than vegetarian diets.
DLDTI: A Learning-based Framework for Drug-target Interaction Identification Using Neural Networks and Network Representation
Authors: Zhao Yihan , Zheng Kai , Guan Baoyi , Guo Mengmeng , Song Lei , Gao Jie , Qu Hua , Wang Yuhui , Shi Dazhuo , Zhang Ying 
Published: August 2020

Abstract
Background: Drug repositioning, the strategy of unveiling novel targets of existing drugs could reduce costs and accelerate the pace of drug development. To elucidate the novel molecular mechanism of known drugs, considering the long time and high cost of experimental determination, the efficient and feasible computational methods to predict the potential associations between drugs and targets are of great aid.Methods: A novel calculation model for drug-target interaction (DTI) prediction based on network representation learning and convolutional neural networks, called DLDTI， was generated. The proposed approach simultaneously fuses the topology of complex networks and diverse information from heterogeneous data sources, and copes with the noisy, incomplete, and high-dimensional nature of large-scale biological data by learning the low-dimensional and rich depth features of drugs and proteins. The low-dimensional feature vectors were used to train DLDTI to obtain the optimal mapping space and to infer new DTIs by ranking candidates according to their proximity to the optimal mapping space. More specifically, based on the results from the DLDTI, we experimentally validate the predicted targets of tetramethylpyrazine (TMPZ) on atherosclerosis progression in vivo.Results: The experimental results show that the DLDTI model achieves promising performance under 5-fold cross-validations with AUC values of 0.9172, which is higher than the methods using different classifiers or different feature combination methods mentioned in this paper. For the validation study of TMPZ on atherosclerosis, a total of 288 targets were identified and 190 of them were involved in platelet activation. The pathway analysis indicated signaling pathways, namely PI3K/Akt, cAMP and calcium pathways might be the potential targets. Effects and molecular mechanism of TMPZ on atherosclerosis were experimentally confirmed in animal models.Conclusions: DLDTI model can serve as a useful tool to provide promising DTI candidates for experimental validation. Based on the predicted results of DLDTI model, we found TMPZ could attenuate atherosclerosis by inhibiting signal transductions in platelets. The source code and datasets explored in this work are available at https://github.com/CUMTzackGit/DLDTI.
Factor VIII Inhibitor Bypass Activity (FEIBA) for the Reduction of Transfusion in Cardiac Surgery: A Randomized, Double-Blind, Placebo-Controlled, Pilot Trial
Authors: Sera Valerie A , Stevens Ann E , Song Howard K , Rodriguez Victor M , Tibayan Frederick A , Treggiari Miriam 
Published: August 2020

Abstract
Background Uncontrolled bleeding after cardiac surgery can be life threatening. Factor eight inhibitor bypassing activity (FEIBA) is a prothrombin complex concentrate empirically used as rescue therapy for correction of refractory bleeding diathesis post cardiopulmonary bypass (CPB). FEIBA use as rescue therapy for bleeding diathesis after CPB has been associated with a low incidence of complications and a reduction in transfusion requirement and re-exploration. The feasibility and efficacy of early administration of FEIBA after termination of CPB have not been studied.Methods We designed a small randomized, double-blinded, placebo-controlled pilot trial to determine the feasibility of a larger trial testing the hypothesis that FEIBA decreases transfusion requirements after CPB. Twelve adult patients undergoing elective major aortic cardiovascular surgery at a tertiary referral hospital were equally randomized to receive a single dose of either FEIBA or matched placebo intraoperatively at the end of CPB. The study was designed to evaluate the feasibility of a larger pivotal trial to determine the effectiveness of FEIBA in reducing the total volume of blood products transfused perioperatively, and its safety profile.Results There were no protocol deviations or events of unblinding, and adverse events were not different between groups. Patients in the FEIBA group were older, more likely to be female, had higher BMI, lower hematocrit, and longer hypothermic circulatory arrest. There were no differences in post randomization blood product transfusions (difference FEIBA vs. placebo: -899 mL; 95%CI: -5,206 to 3,409, p = 0.65).Conclusions This pilot trial confirmed the adequacy of the trial design that involved the early, blinded administration of FEIBA, by demonstrating excellent protocol adherence. We conclude that a larger trial establishing the effectiveness of early prothrombin complex concentrate administration to reduce the use of blood products in the setting of high-risk cardiac surgery is feasible.Trial Registration: ClinicalTrials.gov Identifier: NCT02577614
No detection of SARS-CoV-2 RNA on urethral swab in patients with positive naso-pharyngeal swab
Authors: Spirito Lorenzo , Pinchera Biagio , Patrì Angela , Delfino Mario , Imbimbo Ciro , Salvatore Paola , Gentile Ivan , Fabbrocini Gabriella 
Published: August 2020

Abstract
Background

The recent SARS-CoV-2 infection is the cause of one of the most important pandemics that history has ever experienced. SARS-CoV-2 can lead to a MOF (Multiple Organ Failure) that is critical for life of patients. Viral RNA is found in human tissues as lung, intestine, testicle, kidney, etc. and it is the reason to theorize different ways of transmission of the virus in addition to respiratory droplets. The aim of our study was to evaluate the presence of SARS-CoV-2 in urethral swabs.
Methods

We enrolled 10 patients with SARS-CoV-2 infection who attended the Infectious Diseases Unit of the A.O.U. Federico II of Naples, from March 2020 to April 2020. For each patient, one urethral swab was collected at the time of SARS-CoV-2 infection.
Results

All ten patients had a negative urethral swab for SARS-CoV-2 RNA when the rhino-oropharyngeal swab was found to be positive for SARS-CoV-2 RNA. Our data show for the first time that the virus would not affect the urinary tract and therefore would not be found in the urine and even less would it be transmissible through the urine. This result was independent of the stage of the disease, in fact, regardless of the severity of the clinical conditions, all patients had a negative urethral swab for SARS-CoV-2 RNA.
Conclusion

This observation, which needs to be further investigated with further studies and a larger sample, could be the cornerstone for understanding the role of SARS-CoV-2 in relation to the genitourinary system.