bluuebunny/crossref_metadata_2025_split huggingface dataset:
SNF-NN: Computational Method To Predict Drug-Disease Interactions Using Similarity Network Fusion and Neural Networks
Authors: Jarada Tamer , Rokne Jon , Alhajj Reda 
Published: August 2020

Abstract
Drug repositioning is an emerging approach in pharmaceutical research for identifying novel therapeutic potentials for approved drugs and discover therapies for untreated diseases. Due to its time and cost efficiency, drug repositioning plays an instrumental role in optimizing the drug development process compared to the traditional de novo drug discovery process. Advances in the genomics, together with the enormous growth of large-scale publicly available data and the availability of high-performance computing capabilities, have further motivated the development of computational drug repositioning approaches. More recently, the rise of machine learning techniques, together with the availability of powerful computers, has made the area of computational drug repositioning an area of intense activities. In this study, a novel framework SNF-NN based on deep learning is presented, where novel drugdisease interactions are predicted using drug-related similarity information, disease-related similarity information, and known drug-disease interactions. Heterogeneous similarity information related to drugs and disease is fed to the proposed framework in order to predict novel drug-disease interactions. SNF-NN uses similarity selection, similarity network fusion, and a highly tuned novel neural network model to predict new drug-disease interactions. The robustness of SNF-NN is evaluated by comparing its performance with nine baseline machine learning methods. The proposed framework outperforms all baseline methods (AUC − ROC = 0.867, and AUC − P R=0.876) using stratified 10-fold cross-validation. To further demonstrate the reliability and robustness of SNF-NN, two datasets are used to fairly validate the proposed framework’s performance against seven recent state-of-the-art methods for drug-disease interaction prediction. SNF-NN achieves remarkable performance in stratified 10-fold cross-validation with AUC − ROC ranging from 0.879 to 0.931 and AUC − P R from 0.856 to 0.903. Moreover, the efficiency of SNF-NN by is verified by validating predicted unknown drug-disease interactions against clinical trials and published studies. In conclusion, computational drug repositioning research can significantly benefit from integrating similarity measures in heterogeneous networks and deep learning models for predicting novel drug-disease interactions
Characterisation of the SARS-CoV-2 ExoN (nsp14ExoN-nsp10) complex: implications for its role in viral genome stability and inhibitor identification
Authors: Baddock Hannah , Brolih Sanja , Yosaatmadja Yuliana , Rantnaweera Malitha , Bielinski Marcin , Swift Lonnie , Cruz-Migoni Abimael , Morris Garrett , Schofield Christopher , Gileadi Opher , McHugh Peter 
Published: August 2020

Abstract
The SARS-CoV-2 coronavirus (CoV) causes COVID-19, a current global pandemic. SARS-CoV-2 belongs to an order of Nidovirales with very large RNA genomes. It is proposed that the fidelity of CoV genome replication is aided by an RNA nuclease complex, formed of non-structural proteins 14 and 10 (nsp14-nsp10), an attractive target for antiviral inhibition. Here, we confirm that the SARS-CoV-2 nsp14-nsp10 complex is an RNase. Detailed functional characterisation reveals nsp14-nsp10 is a highly versatile nuclease capable of digesting a wide variety of RNA structures, including those with a blocked 3´-terminus. We propose that the role of nsp14-nsp10 in maintaining replication fidelity goes beyond classical proofreading and purges the nascent replicating RNA strand of a range of potentially replication terminating aberrations. Using the developed assays, we identify a series of drug and drug-like molecules that potently inhibit nsp14-nsp10, including the known Sars-Cov-2 major protease (Mpro) inhibitor ebselen and the HIV integrase inhibitor raltegravir, revealing the potential for bifunctional inhibitors in the treatment of COVID-19.
A Synthetic Probiotic Engineered for Colorectal Cancer Therapy Modulates Gut Microbiota
Authors: Chung Yusook , Ryu Yongku , An Byung Chull , Yoon Yeo-Sang , Choi Oksik , Kim Tai Yeub , Yoon Jae Kyung , Ahn Jun Young , Park Ho Jin , Kwon Soon-Kyeong , Kim Jihyun F. , Chung Myung Jun 
Published: August 2020

Abstract
Background: Successful chemoprevention or chemotherapy is achieved through targeted delivery of prophylactic agents during initial phases of carcinogenesis or therapeutic agents to malignant tumors. Bacteria can be used as anticancer agents, but efforts to utilize attenuated pathogenic bacteria suffer from the risk of toxicity or infection. Lactic acid bacteria are safe to eat and often confer health benefits, making them ideal candidates for live vehicles engineered to deliver anticancer drugs.Results: In this study, we developed an effective bacterial drug delivery system for colorectal cancer (CRC) therapy using the lactic acid bacterium Pediococcus pentosaceus. It is equipped with dual gene cassettes driven by a strong inducible promoter that encode the therapeutic protein P8 fused to a secretion signal peptide and a complementation system. In an inducible CRC cell-derived xenograft mouse model, our synthetic probiotic significantly reduced tumor volume and inhibited tumor growth relative to the control. Mice with colitis-associated CRC induced by azoxymethane and dextran sodium sulfate exhibited polyp regression and recovered taxonomic diversity when the engineered bacterium was orally administered. Further, the synthetic probiotic modulated gut microbiota and alleviated the chemically induced dysbiosis. Correlation analysis demonstrated that specific bacterial taxa potentially associated with eubiosis or dysbiosis, such as Akkermansia or Turicibacter, have positive or negative relationships with other microbial members.Conclusions: Taken together, our work illustrates that an effective and stable synthetic probiotic composed of P. pentosaceus and the P8 therapeutic protein can reduce CRC and contribute to rebiosis, and the validity and feasibility of cell-based designer biopharmaceuticals for both treating CRC and ameliorating impaired microbiota.
The pre-loaded set-screw in InterTAN nail: should it be tightened or not tightened in pertrochanteric hip fractures
Authors: Du Shou-Chao , Wang Xiu-Hui , Chang Shi-Min 
Published: August 2020

Abstract
Background: InterTan is a specific type of cephalomedullary nail with a twin interlocking de-rotation and compression screw, which has inherent ability of anti-rotation. Whether to tighten or not to tighten the preloaded setscrew in InterTan nail is controversial in clinical practice.Methods: We retrospectively collected four nonunion cases of unstable pertrochanteric femur fractures (AO/OTA-31A2), all were treated with InterTan nail and the preloaded setscrew was tightened in order to prevent further sliding and femoral neck shortening. Results: After 6 months to 2 years follow-up, the fractures showed nonunion in radiography and the patients complained slight to middle degrees of pain, and had to use walking stick assistant in activities of daily life. Tightening the pre-loaded setscrew to prevent postoperative secondary sliding as static constructs might keep the femoral neck length, but lose the opportunity of telescoping for fracture impaction, and take the risk of healing complications, such as fracture nonunion, femoral head cutout or nail breakage.Conclusions: As the harm outweighs benefit, we advocate the preloaded setscrew in InterTan nail should not be tightened in pertrochanteric hip fractures (AO/OTA-31A1 and A2).
Effect of Nitrogen Rate on Use Efficiency and Yield of Wheat in Inner Terai Condition of Nepal
Authors: Ghimire Prabin 
Published: August 2020

Abstract
Unsuitable nitrogen management and low soil fertility are major constraints of wheat production in Nepal. Limited information is available on optimum nitrogen rates and use efficiencies. So a field experiment was conducted on the inner terai to determine the effect nitrogen on yield and improving the nitrogen use efficiency of wheat. Level of five doses of nitrogen, 0kg ha-1 (Control), 60kg ha-1,80kg ha-1,100kg ha-1 and 120kg ha-1 were laid out in Randomized Completely Block Design (RCBD) with four replication. Observation on the various parameters of yield attributing characters like plant height(cm), tiller m-2 thousand grain weight(Kg), spike length(cm), grain spike-1was found highest on Nitrogen dose 120 kg ha-1. Similarly, nitrogen at 120kg ha-1 increases the grain yield by increasing the biological yield and harvest index. Grain nitrogen concentration at 120 kg ha-1 is statistically similar with 100 kg ha-1 and 80 kg ha-1 while nitrogen uptake is highest (114.833kg ha-1) in 120kg ha-1 and lowest in control. Agronomic use efficiency is highest observed in 100kg ha-1 and lowest on 60 kg ha-1. Apparent fertilizer N recovery ratio obtained high (49.62%) in 120 kg ha-1 which is statistically similar to 100kg ha-1 (46.97%) and lowest (31.76%) in 60 kg ha-1. While observing agro physiological efficiency and Nitrogen harvest index did not show any significant difference among any treatments. The application of nitrogen at 120kg ha-1 was required to produce the optimum yield and increasing the nitrogen use efficiency traits.
Genome-wide identification and evolutionary analysis of RLKs involved in response to Aluminum stress in peanut
Authors: Wang Xin , Wu Ming-Hua , Xiao Dong , Huang Ruo-Lan , Zhan Jie , Wang Ai-Qin , He Long-Fei 
Published: August 2020

Abstract
Background: As an important cash crop, the yield of peanut is influenced by soil acidification and pathogen infection. Receptor-like protein kinase plays important roles in plant growth, development and stress responses. However, little is known about the number, location, structure, molecular phylogenetic, and expression of the RLKs in peanut, and no comprehensive analysis of RLKs in Al stress response in peanut have been reported. Results: A total of 1311 AhRLKs were identified from the peanut genome. The AhLRR-RLKs and AhLec-RLKs were further divided into 24 subfamilies and 35 subfamilies, respectively. The AhRLKs are randomly distributed across all 20 chromosomes in peanut. Among them, 67.8% and 0.6% of the AhRLKs originated from tandem duplications and segmental duplications, respectively. The ka/ks ratios of 94.9% (1290/1360) of AhRLKs were less than 1. Moreover, totally 90 Al-responsive AhRLKs were identified by mining transcriptome data, and they were divided into 7 groups. Most of Al responsive AhRLKs clustered together had similar motifs and evolutionarily conserved structures. The gene expression patterns of these genes in different tissues were further analyzed, and tissue specific expression genes, including 14 root-specific Al responsive AhRLKs were found. Besides, all of the 90 Al responsive AhRLKs which distributed unevenly in the subfamilies of AhRLKs have different expression pattern between two peanut varieties (Al-sensitive and Al-tolerant) under Al stress.Conclusions: In this study, we analyzed the RLK gene family by the peanut genome. Tandem replication events were the main driving force for AhRLKs evolution, and most AhRLKs were selected for purification. A total of 90 genes were identified as Al responsive AhRLKs, and the classification, conservative motif, structure, tissue expression pattern and predicted function of Al responsive AhRLKs were further analyzed and discussed, revealing their putative roles. This study provides a better understanding of the structures and functions of AhRLKs as well as Al responsive AhRLKs.
Reflection on There Form of China's Emergency Medical Insurance System Based on the Prevention and Control of COVID-19
Authors: Cheng Hui , Luo Meng , Li Shaohua 
Published: August 2020

Abstract
Objective: Based on the Prevention and Control of COVID-19, this paper points out the shortcomings of China's current medical insurance system, and puts forward the concept of establishing emergency medical insurance system.Methods: This paper analyzes the characteristics of the modern epidemic and its special requirements for medical insurance. Putting forward the idea of mechanism construction.Results:The operation of China's national medical insurance system is mainly operated by the insured, the government, medical institutions and medical institutions. However, the rapid spread of the epidemic has caused great disasters to the society. In the face of major public health events, medical insurance should have four characteristics: the "normalization" of the emergency medical insurance system, the fairness of guarantees, the public quality of treatment and positive externalities. China should establish an emergency system in line with these four characteristics from the four parties. Therefore, this paper analyzes the characteristics of modern epidemic risk, its development process and the requirements for the insurance industry in combination with the situation of China's response to dealing with COVID-19, and puts forward that China should further improve the universal medical insurance system and establish an emergency medical security system to better deal with all kinds of sudden public health events, which will still happen in the future.Conclusions:China's national medical insurance system should not be limited to meet people's conventional medical needs. When public health emergencies occur, it is also necessary to establish a sound medical insurance system to operate.The establishment of emergency medical security system is one of the important development directions of our country in the future.
The Inverse Dynamics of a 3-DOF Parallel Mechanism Based on Analytical Forward Kinematics
Authors: Wang Ke , Li Ju , Shen Huiping , You Jingjing , Yang Ting-Li 
Published: August 2020

Abstract
A new type of 3-dof parallel mechanism(PM) with analytical position forward solution is proposed. The reverse dynamic equation of the PM is solved. Different from the traditional dynamic analysis using inverse kinematics, the displacement, velocity and acceleration equations of the PM are established and solved by forward kinematics.The inverse dynamic equation of the PM is constructed and solved by analyzing the forces on each link and based on Newton-Euler method.Through MATLAB and ADAMS , the inverse dynamics is verified by an example. The maximum driving force error of each actuated pair is 1.32%, 5.8% and 5.2% respectively.This paper provides a theoretical basis for the design, manufacture and application of the PM.
A New Tropical Species of Psathyrella (Psathyrellaceae, Agaricales) From the Cúc Phương National Park, Vietnam
Authors: Büttner Enrico , Karich Alexander , Nghi Do Huu , Lange Maximilian , Liers Christiane , Kellner Harald , Hofrichter Martin , Ullrich René 
Published: August 2020

Abstract
Basidiocarps of a hitherto undescribed Psathyrella species were collected during a sampling excursion in North Vietnam. They grew on deciduous deadwood in the Southeastern part of the Cúc Phương National Park (Vietnamese: Vườn quốc gia Cúc Phương), Ninh Bình Province. Herein, we describe Psathyrella euryspora sp. nov. characterized by broadly ellipsoid to broadly ovoid basidiospores (5.5–7.0 × 4–5(–6)) µm without visible germ pore, utriform to ventricose-clavate cheilocystidia, heteromorphic caulocystidia and the absence of pleurocystidia and pileocystidia. Based on an isolated pure culture, the genome was sequenced and a full ribosomal RNA gene cistron including 18S, internal transcribed spacer 1 (ITS), 5.8S, ITS2 and 28S rRNA annotated. Phylogenetic analysis of P. euryspora revealed its close affiliation to the Psathyrella sect. Candolleanae species clade.
Genetically predicted C-reactive protein associated with breast cancer risk: interrelation with estrogen and cancer molecular subtypes using a Mendelian randomization
Authors: Jung Su Yon , Papp Jeanette C. , Sobel Eric M. , Pellegrini Matteo , Yu Herbert , Zhang Zuo-Feng 
Published: August 2020

Abstract
The authors have withdrawn this preprint due to erroneous posting.
SPRR2C, DEFB4A, WIF1, CRY2, and KRT19 are correlated with the development of atopic eczema
Authors: Yu Yiwu , Li Yufei , Jiang Miao , Zhao Jingjun 
Published: August 2020

Abstract
BackgroundAtopic eczema (AE) is a chronic relapsing inflammatory skin disease. The objective of this study was to identify key genes related to the development of AE.MethodsThe GSE6012 dataset was obtained from the Gene Expression Omnibus (GEO) database. The limma package was used to analyze differentially expressed genes (DEGs). Then, the weighted gene co-expression network analysis (WGCNA) package was utilized to generate weighted correlation networks of up- and downregulated genes. Additionally, the WGCNA package was used for enrichment analyses to explore the underlying functions of DEGs in modules (weighted correlation sub-networks) significantly associated with AE.ResultsA total of 515 DEGs were identified between lesional and non-lesional skin samples. For the upregulated genes, the blue module was found to have a significant positive correlation with AE. Importantly, small proline-rich protein 2C (SPRR2C) and defensin, beta 4A (DEFB4A) exhibited higher |log fold change (FC)| values and were the key nodes of the network. Moreover, KEGG pathway analysis revealed that the upregulated genes in the blue module were primarily involved in cytokine-cytokine receptor interaction. Additionally, for the downregulated genes, the brown module was found to have a significant positive correlation with AE. Further, WNT inhibitory factor 1 (WIF1), cryptochrome 2 (CRY2), and keratin 19 (KRT19) had higher |log FC| values and were key nodes of the network.ConclusionSPRR2C, DEFB4A, WIF1, CRY2, KRT19 and cytokine-cytokine receptor interaction might be correlated with the development of AE.
Effects of High- and Low-proteindiets on Inflammatory Profiles in People With Morbid Obesity: A 3-week Intervention Study
Authors: Koelman Liselot , Markova Mariya , Seebeck Nicole , Hornemann Silke , Rosenthal Anke , Lange Volker , Pivovarova-Ramich Olga , Aleksandrova Krasimira 
Published: August 2020

Abstract
Background:Nutritional interventions in morbidly obese individuals that effectively reverse pro-inflammatory state and prevent obesity-associated medical complications are highly warranted. Our aim was to evaluate the effect of high- (HP) or low- (LP) protein diets on circulating immune-inflammatory biomarkers, includingC-reactive protein (CRP), interleukin-6 (IL-6), tumor necrosis factor-alpha (TNF-a), interleukin-10 (IL-10), monocyte chemoattractant protein-1 (MCP-1),chemerin, omentin, leptin, total adiponectin, high molecular weight adiponectin and fetuin-A.Methods:18 people with morbid obesity were matched into two hypocaloric diet groups: HP (30E% protein, n=8) and LP (10E% protein, n=10) for three weeks.Biomarkers were measured pre-post intervention.We used linear mixed-effects models to investigate differences of least squares means for biomarkers, adjusted for age, sex, BMI, and baseline value.Results:Consuming HP or LP diets resulted in reduced CRP(HP: -2.2 ± 1.0 mg/l, LP: -2.3 ± 0.9 mg/l) and chemerin (HP: -17.9 ± 8.6 ng/ml, LP: -20.0 ± 7.4 ng/ml). People following the LP diet showed decreased leptin (-19.2± 6.0 ng/ml), IL-6 (-0.4 ± 0.1pg/ml) and increased total adiponectin (1.6 ± 0.6µg/ml). Changes were observed for remaining biomarkers yetto a smaller degree.Conclusions:These data suggest LP dietsmodulatea wider range of immune-inflammatory biomarkers compared to HP diets in morbidly obese individuals.Larger trials are needed to allow firm conclusions on the suggested effects.Trial registration: DRKS00009509. Registered 25 January 2016 – Retrospectively registered, www.drks.de
Specialized Neurodevelopmental Assessment and Consultation Service: An Innovative Clinic Model for Children with Prenatal Alcohol Exposure Based at an Autism Center
Authors: Ola Cindy , O'Connor Audrey L , Kuhn Michelle , Montague Rachel , Chew Brandi , Olson Heather Carmichael 
Published: August 2020

Abstract
Background: While global prevalence of conditions on the fetal alcohol spectrum is surprisingly high, there is insufficient diagnostic capacity so children can be missed or misdiagnosed. This study described an innovative clinic model for screening prenatal alcohol exposure (PAE), assessing children using the DSM-5 diagnostic category for conditions on the fetal alcohol spectrum, and providing consultation.Methods: A retrospective review of 40 child patients with PAE examined feasibility of the clinic model.Results: Overall, the SNACS Clinic served families across a wide demographic range raising preschool and school-aged children with diverse neurodevelopmental and behavioral presentations. Study findings informed ongoing quality improvement of the clinic model, and identified provider and hospital-wide training needs.Conclusions: Findings indicate this clinic is feasible as a method for increasing diagnostic capacity, improving patient services, and potentially preventing misdiagnosis or missed diagnosis of children with PAE. Results can inform best practices for FASD-informed care.
Removal of Cr(VI) and methyl orange by activated carbon fiber supported nanoscale zero-valent iron in a continuous fixed bed column
Authors: Liu Jian , Yi Zhengji , Ou Ziling , Yang Tianhui 
Published: August 2020

Abstract
The application of activated carbon fiber supported nanoscale zero-valent iron (ACF-nZVI) in the continuous removal of Cr(VI) and methyl orange (MO) from aqueous solution was studied in depth. The breakthrough curves of Cr(VI) in a fixed bed with ACF-nZVI were measured, and compared with those in the fixed bed with ACF. The catalytic wet peroxide oxidation (CWPO) process for MO was also carried out using ACF-nZVI after reacting with Cr(VI) in the same fixed bed. The results showed that the breakthrough time of ACF-nZVI was significantly longer than that of ACF. Higher pH values were unfavorable for the Cr(VI) removal. The breakthrough time increased with decreasing inlet Cr(VI) concentration or increasing bed height. The Yoon–Nelson and bed depth service time (BDST) models were found to show good agreement with the experimental data. The Cr(VI) removal capacity when using ACF-nZVI was two times higher than that when using ACF. Under the optimal empty bed contact time of 1.256 min, the fixed bed displayed high MO conversion (99.2%) and chemical oxygen demand removal ratio (55.7%) with low Fe leaching concentration (&lt;5 mg/L) after continuous running for 240 min. After three cycles, the conversion of MO remained largely unchanged.