bluuebunny/crossref_metadata_2025_split huggingface dataset:
Construction and Validation of a Robust Genomic Classifier for High-Risk Sporadic Type 2 Papillary Renal Cell Carcinoma: Support More Accurate Utilization of mTOR inhibitors
Authors: Tian Xi , Xu Wen-Hao , Anwaier Aihetaimujiang , Wang Yue , Gan Hua-Lei , Luo Wen-Jie , Wang Hong-Kai , Wan Fang-Ning , Zhu Yu , Cao Da-Long , Shi Guo-Hai , Qu Yuan-Yuan , Zhang Hai-Liang , Ye Ding-Wei 
Published: March 2021

Abstract
To construct a robust genomic classifier for high-risk sporadic type 2 papillary renal cell carcinoma (sPRCC2) and identify potential therapeutic targets. A cohort from The Cancer Genome Atlas and two datasets from Gene Expression Omnibus were examined. Common differentially expressed genes were screened, and the ConsensusClusterPlus package was used to identify potential high-risk molecular subtypes of sPRCC2. Targeting protein for Xklp2 (TPX2) expression was used to simulate the classifier according to the logistic model. Ninety-two samples from Fudan University Shanghai Cancer Center (FUSCC) were obtained, and TPX2 immunostaining was performed to validate the predictive ability of the genomic classifier. Retrospective analysis was used to compare drug efficacy between the groups. High-risk sPRCC2 had worse overall (hazard ratio [HR] = 7.804) and disease-free survival (HR = 8.777) than low-risk sPRCC2, and the tumor and lymph node stages were significantly higher in high-risk sPRCC2. Gene set enrichment analysis revealed significant enrichment of genes in the mammalian target of rapamycin (mTOR) complex 1 signaling pathway in the high-risk group. In the FUSCC cohort, high-risk sPRCC2 (high TPX2 expression) was significantly correlated with worse overall and progression-free survival. Retrospective analysis indicated that mTOR inhibitor (everolimus) had greater efficacy in the high-risk group than in the low-risk group (overall response rate: 28.6% vs. 16.7%) and that everolimus had greater efficacy than sunitinib in the high-risk group (overall response rate: 28.6% vs. 20%). This study successfully constructed a genomic classifier for identifying high-risk sPRCC2. mTOR inhibitors may have good efficacy in patients with high-risk sPRCC2.
Exploration of Temporal-Spatially Varying Impacts on COVID-19 Cumulative Case in Texas Using Geographically Weighted Regression (GWR)
Authors: WU XIU , Zhang Jinting 
Published: March 2021

Abstract
Since COVID-19 is extremely menacing human’s health, it is a significant to expose on its fator’s impacts for curbing the virus spreading. To tackle the complexity of COVID-19 expansion in spatial-temporal scale, This research is approriatedly analyzed the spatial-temporal heterogeneity at county-level in Texas. First,factors impacts of COVID-19 are captured on social, economic, and environmental multiple-facets and the Communality is extracted through Principal Component Analysis (PCA). Second, this research is used COVID-19 CC as the dependent variable and the common factors as the independent variable. According to the virus prevailing hierarchy, spatial-temporal disparity is are categorized four quarters in the modeling GWR analysis according to the virus prevailing hierarchy. The findings are exibited that GWR models provided higher fitness, more geodata-oriented information than OLS models. In Texas El Paso, Odessa, Midland, Randall and Potter County areas, population, hospitalization, and age structure presented static, positive influences on COVID-19 cumulative casesm, indicating they should be adopt stringent stratgies in curbing COVID-19. Winter is the most sensitive season for the virus spreading, implying the last quarter should be pay more attention to prevent the virus and take pracutions. This research are expected to provide references for preventing and controlling COVID-19 and related infectious dieseaces, evidences for disease surveillance and response systems to facilitate the appropriate uptake and reuse of geographical data.
Utilization of complementary and traditional medicine practitioners among older adults in India: results of a national survey in 2016-2017
Authors: Peltzer Pengpid , Peltzer Karl 
Published: March 2021

Abstract
Background: Lack of information exists about the use of traditional and complementary medicine (TCM) use among older adults in India, which led to studying the estimates of past-12 month Ayurveda/Yoga/Naturopathy/Unani/Siddha/Homeopathy (AYUSH) and traditional health practitioner (THP) utilization in India. Methods: The study included 72,262 individuals (45 years and older) from the cross-sectional 2017-2018 Longitudinal Ageing Study in India (LASI) Wave 1.Results: The prevalence of past 12-month AYUSH practitioner utilization was 6.5%, THP 7.0%, and AYUSH or THP 13.0%. In the adjusted logistic regression analysis, functional disability (Adjusted Odds Ratio-AOR: 1.25, 95% Confidence Interval-CI: 1.09-1.42), having pain (AOR: 1.47, 95% CI: 1.31-1.65) and current tobacco use (AOR: 1.30, 95% CI: 1.14-1.48) were positively and male sex (AOR: 0.78, 95% CI: 0.69-0.88), higher education (AOR: 0.92, 95% CI: 0.80-0.99), scheduled caste (AOR: 0.48, 95% CI: 0.36-0.63), high subjective socioeconomic status (AOR: 0.66, 95% CI: 0.57-0.77), urban residence (AOR: 0.65, 95% CI: 0.57-0.75) and having a health insurance cover (AOR: 0.38, 95% CI: 0.32-0.44) were negatively associated with AYUSH practitioner utilization in the past 12 months. In a second adjusted logistic regression analysis, sleep problems (AOR: 1.30, 95% CI: 1.14-1.48), depressive symptoms (AOR: 1.14, 95% CI: 1.02-1.28) functional disability (AOR: 1.14, 95% CI: 1.01-1.30), having pain (AOR: 1.51, 95% CI: 1.35-1.70), current tobacco use (AOR: 1.27, 95% CI: 1.13-1.43) and having underweight (AOR: 1.15, 95% CI: 1.02-1.31) were positively associated with past 12-month THP utilization. Furthermore, having health insurance cover (AOR: 0.44, 95% CI: 0.38-0.51), overweight or obesity (AOR: 0.84, 95% CI: 0.72-0.97), having two or more chronic conditions (AOR: 0.60, 95% CI: 0.50-0.72), urban residence (AOR: 0.24, 95% CI: 0.20-0.28), high subjective socioeconomic status (AOR: 0.81, 95% CI: 0.70-0.96), and higher education (AOR: 0.42, 95% CI: 0.34-0.52) were negatively associated with past 12-month THP utilization.Conclusion: A moderate prevalence of TCM use among older adults in India was found and several factors associated with its use were identified.
Development and validation of a prediction rule of major adverse cardiac and cerebrovascular event for high-risk STEMI patients after primary percutaneous coronary intervention
Authors: Zhao Xiaoxiao , Liu Chen , Zhou Peng , Sheng Zhaoxue , Li Jiannan , Zhou Jinying , Chen Runzhen , Wang Ying , Chen Yi , Song Li , Zhao Hanjun , Yan Hongbing 
Published: March 2021

Abstract
Background and Aims We aimed to develop a clinical prediction tool to improve the prognostication of major adverse cardiac and cerebrovascular events (MACCE) among high-risk myocardial infarction (MI) patients undergoing primary PCI. Methods Among 4151 consecutive MI patients who underwent primary percutaneous coronary intervention (PPCI) from FuWai Hospital in BeiJing, China (January 2010 and June 2017), and a prediction rule was derived from derivation and internally validation cohort to predict MACCE after PPCI. Subject must have met at least one clinical criterion and at least one angiographic criterion to be eligible for treatment in the study. The predictive values of markers and clinical variables were assessed with least absolute shrinkage and selection operator (LASSO) regression. The most important variables were included in the score with weights proportional to the model coeﬃcients. Results The full model included 7 variables, and the risk score was total 160 points. The full model had similar discriminatory value across pre-specified subgroups and was well calibrated. Derivation cohort models predicting MACCE events had C statistics of 0.695 and 0.673, respectively. The areas under curve (AUC) of the survival receiver operator characteristic curve (ROC) were 0.991 and 0.883 in derivation and validation cohort among 3-year follow-up for predicting the MACCE events. The relative high risk group was observed to have significantly greater likelihood of occurrence of all-caused death, recurrence MI, heart failure, ischemic stroke, hemorrhagic stroke and revascularization compared with the low risk group (p<0.05 respectively). Conclusion The predicted model was internally validated and calibrated in large cohorts of patients with high risk MI receiving primary PCI therapy to predict the MACCE event and showed modest accuracy in derivation and validation cohorts.
Effect of CYP3A4 and CYP3A5 genetic polymorphism on individualized application of fentanyl in thoracoscopic surgery
Authors: Shengyan Wang , Yibing Yao , Min Kong , Xuyan Zhou , Xu Shen 
Published: March 2021

Abstract
Background: Studies have confirmed that CYP3A4 and CYP3A5 genotypes affect fentanyl metabolism in vivo. This study explores the application value of CYP3A4 and CYP3A5 genetic polymorphism in the individualized use of fentanyl in thoracoscopic surgery. Patients and Methods: One hundred American Society of Anesthesiologists physical status I or II patients, aged 40–65 years, with a body mass index of <30 kg/㎡ were scheduled for thoracoscopic surgery for lung cancer under general anesthesia. The patients were divided into the wild homozygote group (group I), heterozygote group (group II), and mutant homozygote group (group III) according to gene detection results. The induction dose of fentanyl was 6 µg/kg, 5 µg/kg, and 4 µg/kg, respectively; the background infusion rate of patient-controlled intravenous analgesia (PCIA) was 2 mL/h, 1.5 mL/h, and 1 mL/h, respectively; the patient-controlled analgesia (PCA) dose was 2 mL, 1.5 mL, and 1 mL, respectively; the locking time was 15 min; and the visual analog scale (VAS) score of ≤ 3 was used as the effective analgesia. The operation and recovery times were recorded. Surgical plethysmography index (SPI) and blood glucose levels were recorded on admission, immediately after tracheal intubation, during skin cutting, during surgery for 1 h, and during skin suturing. Furthermore, the VAS and Bruggemann comfort scale (BCS) scores were recorded in the resting states of immediate consciousness and 6 h, 12 h, 24 h, and 48 h after the operation. The total fentanyl consumption, the effective times of PCIA compression, and the incidence of adverse drug reactions (nausea, vomiting, itching, sleepiness, and respiratory depression) were recorded during the operation and within 48 h after the operation. Results: No significant intergroup differences in terms of SPI and blood glucose levels (p > 0.05) were observed. No statistically significant difference in VAS and BCS scores was found after operation (p > 0.05). The intraoperative and postoperative fentanyl doses and the amount of effective PCA decreased in all groups (p < 0.05). There were no significant differences in the incidence of adverse reactions within 48 h after surgery between all groups (p > 0.05). Conclusion: This study suggests that it is feasible to use individualized application of fentanyl according to CYP3A4 and CYP3A5 genotypes
Longitudinal peculiarities of planetary waves-zonal flow interaction and its role in stratosphere-troposphere dynamical coupling
Authors: Ke Wei , Chen Wen , Vargin Pavel 
Published: March 2021

Abstract
The three-dimensional (3D) planetary wave analysis provides more regionalized information on stratospheric-tropospheric dynamic interactions. The upward wave flux from the troposphere to the stratosphere is maximized above north-eastern Eurasia, while the downward flux is mainly over the North America and North Atlantic (NANA) region, which is much stronger in mid and late winter. This distribution is determined by the wave-wave interaction between the different wavenumbers of planetary waves, especially between wavenumber 1 and wavenumber 2. The upward wave flux anomalies in early winter are negatively correlated with the strength of the stratospheric polar vortex (SPV). In the mid and late winter months, the strength of the SPV is positively correlated with the first mode of 3D wave flux and has a leading relationship of approximately one month. The stronger SPV corresponds to a stronger upward wave flux above northern Eurasia and stronger downward flux over the NANA region. The interannual variation in wave flux in early winter is closely associated with the Scandinavian wave train pattern. In contrast, the wave flux variation is related to the circulation anomaly corresponding to Arctic Oscillation in mid and late winter, which causes climate anomalies across the Northern Hemisphere, especially coherent temperature changes in northern Europe, eastern United States and northeastern China.
Online database for brain cancer-implicated genes: exploring the subtype-specific mechanisms of brain cancer
Authors: Zhao Min , Liu Yining , Ding Guiqiong , Qu Dacheng , Qu Hong 
Published: March 2021

Abstract
Background: Brain cancer is one of the eight most common cancers occurring in people aged 40+ and is the fifth-leading cause of cancer-related deaths for males aged 40-59. Accurate subtype identification is crucial for precise therapeutic treatment, which largely depends on understanding the biological pathways and regulatory mechanisms associated with different brain cancer subtypes. Unfortunately, the subtype-implicated genes that have been identified are scattered in thousands of published studies. So, systematic literature curation and cross-validation could provide a solid base for comparative genetic studies about major subtypes.Results: Here, we constructed just such a literature-based brain cancer gene database (BCGene). In the current release, we have a collection of 1,421 unique human genes gathered through an extensive manual examination of over 6,000 PubMed abstracts. We comprehensively annotated those curated genes to facilitate biological pathway identification, cancer genomic comparison, and differential expression analysis in various anatomical brain regions. When we compared those implicated genes between different subtypes, we found subtype-specific genetic events that had high mutational frequencies. Finally, gene prioritization helps users determine the relative importance of the curated genes, and top-ranked genes were significantly associated with survival rates in a combined dataset of more than 2,000 cancer cases. Conclusion: BCGene provides a useful tool for exploring the genetic mechanisms of and gene priorities in brain cancer. BCGene is freely available to academic users at http://soft.bioinfo-minzhao.org/bcgene/.
A Numerical Model of the Influence of Maxillary Sinus Ostium Size on the Distribution of Nitric Oxide Concentration in the Nasal Cavity and Sinuses.
Authors: GUO YAN , YU SHEN , WANG JIZHE , JIN WEN , CUI YUYUE , YANG YI , SUN XIUZHEN 
Published: March 2021

Abstract
ObjectiveUsing a numerical model, we aimed to study the influence of maxillary sinus ostium size variation on nitric oxide (NO) concentration distribution in the nasal cavity and sinuses and to determine the impact of differing sinus ostium size on sinusitis development and recurrence following sinus ostium opening surgery.MethodsWe obtained high-resolution computed tomography images of the nasal sinuses of a volunteer, following which we established a numerical model, determined NO concentration and air volume in the maxillary sinus on one side, then changed the maxillary sinus ostium size on that side, and finally established five models of sinus ostium of different sizes. Two sizes of sinus numerical models were established to determine effect of differing ostium size on the maxillary sinus cavity NO concentration distributions.ResultsA smaller sinus ostia size corresponded to lower NO concentration in nasal cavity and exhaled air; moreover, a concentration gradient was formed from sinus ostium to nasal cavity. A larger sinus ostia size demonstrated a lower NO concentration surrounding sinus ostium in the sinus cavity and formed a concentration gradient from ostium to cavity.Conclusion﻿Constriction of the sinus cavity can lead to changes in NO concentration. Detection of NO concentration in nasally exhaled air can be used as an index to detect the patency of the maxillary sinus ostium. An excessive opening of sinus ostium leads to a decrease in NO concentration around sinus ostium, which is one of the main causes of persistent or recurrent inflammation in the maxillary sinus
Nationwide surveillance of antimicrobial susceptibility of 509 rapidly growing mycobacteria strains isolated from clinical specimens in Japan
Authors: Kamada Keisuke , Yoshida Atsushi , Iguchi Shigekazu , Arai Yuko , Uzawa Yutaka , Konno Satoshi , Shimojima Masahiro , Kikuchi Ken 
Published: March 2021

Abstract
This study aimed to identify effective treatments against rapidly growing mycobacteria (RGM) infections by investigating the minimum inhibitory concentrations (MIC) of 24 antimicrobial agents and their molecular mechanisms of resistance. In total, 509 clinical RGM isolates were identified by analyzing the sequences of three housekeeping genes (hsp65, rpoB, and sodA), and their susceptibilities to 24 antimicrobial agents were tested. We also performed sequencing analysis of antimicrobial resistance genes (rrl, rrs, gyrA, gyrB). To identify Mycobacteroides abscessus group subspecies, we performed PCR-based typing and determined the sequevar of erm(41). We identified 15 RGM species, most of which were susceptible to amikacin and linezolid. Among these species, arbekacin and sitafloxacin had the lowest MIC among the same class of antibiotics. The MIC of rifabutin for M. abscessus subsp. abscessus (MAB) was lower than that for M. abscessus subsp. massiliense (MMA). The number of MAB isolates with MIC ≤ 2 mg/L for rifabutin was significantly higher than that of MMA [MAB: 50/178 (28.1%) vs. MMA: 23/130 (17.7%); p = 0.041]. In summary, our study revealed the antimicrobial susceptibility profile of 15 RGM species isolated in Japan and indicated that arbekacin, sitafloxacin, and rifabutin may be possible therapeutic options for RGM infections.
Placental Malaria: Histological Findings and Immune Cell Infiltrates in Submicroscopic Infections
Authors: Agudelo-Garcia Olga María , Arango Eliana María , Yanow Stephanie K , Carmona-Fonseca Jaime 
Published: March 2021

Abstract
Most research on placental malaria is focused on microscopic infection by Plasmodium falciparum; there are very few studies on submicroscopic infection. This study aimed to assess alterations of placental tissue associated with placental malaria, to describe the immune cell populations in the placental tissue, and to explore the relationships between the histopathological changes and cell infiltrates. A descriptive, prospective and cross-sectional study was carried out. Women were recruited at hospital obstetric facilities in three municipalities in Northwest Colombia. The histopathological analysis was performed in a total of 132 placentas including 66 placentas with submicroscopic plasmodial infection and 66 that were negatives. Immunohistochemistry was performed on a subset of 75 placentas to determine the distribution of immune cells. Based on histology, there were more immune cells in placentas with submicroscopic plasmodial infection compared with those without infection. The quantity of syncytial knots and calcifications was greater with submicroscopic plasmodial infection, but the quantity of abruption and thrombi was greater in placentas without infection. By immunohistochemistry, we observed a significant increase of CD56+ and CD68+ cells in the infected placentas. Submicroscopic plasmodial infection in the placenta causes tissue alterations and increased immune cell infiltrates. Submicroscopic plasmodial infection is very common in Colombia and can represent a serious threat to mothers and newborns.
Benchmarks for interpretation of QSAR models
Authors: Matveieva Mariia , Polishchuk Pavel 
Published: March 2021

Abstract
Interpretation of QSAR models is useful to understand the complex nature of biological or physicochemical processes, guide structural optimization or perform knowledge-based validation of QSAR models. Highly predictive models are usually complex and their interpretation is non-trivial. This is particularly true for modern neural networks. Various approaches to interpretation of these models exist. However, it is difficult to evaluate and compare performance and applicability of these ever-emerging methods. Herein, we developed several benchmark data sets with end-points determined by pre-defined patterns. These data sets are purposed for evaluation of the ability of interpretation approaches to retrieve these patterns. They represent tasks with different complexity levels: from simple atom-based additive properties to pharmacophore hypotheses. We proposed several quantitative metrics of interpretation performance. Applicability of benchmarks and metrics was demonstrated on a set of conventional models and end-to-end graph convolutional neural networks interpreted by the previously suggested universal ML-agnostic approach for structural interpretation. We anticipate these benchmarks to be useful in evaluation of new interpretation approaches and investigation of decision making of complex “black box” models.
The porous ZnCo2O4&nbsp;nanosheets arrays as a binder-free electrode for high performance flexible supercapacitor materials
Authors: Wang Jing , Wang Chen , Wang Shen , Zhang Xiang , Jin Xiangyang , Chang Jiang , Dong Jing 
Published: March 2021

Abstract
In this paper, the porous ZnCo2O4 nanosheets arrays (NAs)/carbon cloth (CC) were prepared for the first time as a binder-free anode by hydrothermal method. The anode electrode material shows multistage pore distribution and thus can provide numerous ways for the transport of ions and electrons. As a supercapacitor electrode, the flexible ZnCo2O4/CC electrode indicates a high specific capacitance (1790 F/g at the current density of 1 A/g), good rate performance, and excellent cycle properties (99.4% capacitance retention after 10000 cycles). Besides, the flexible electrode also displays good mechanical flexibility. The solid-state asymmetric flexible supercapacitor device was assembled taking the ZnCo2O4/CC electrode as the positive electrode and carbon nanotube (CNTs)/CC as the negative electrode. The asymmetric device delivers high energy density 47.1 Wh/Kg (power density 800 W/Kg) and power density 12000 W/Kg (energy density 28.3 Wh/Kg) with the potential window 0 V ~ 1.6 V. These results indicate the ZnCo2O4/CC flexible electrode with high electrochemical performance adjust for environmentally friendly and low-cost energy storage devices in the future.