bluuebunny/crossref_metadata_2025_split huggingface dataset:
Phylogenetic and biochemical analysis of calsequestrin structure and association of its variants with cardiac disorders
Authors: Wang Qian , Paskevicius Tautvydas , Filbert Alexander , Qin Wenying , Kim Hyeong Jin , Chen Xing-Zhen , Tang Jingfeng , Dacks Joel B. , Agellon Luis B. , Michalak Marek 
Published: October 2020

AbstractCalsequestrin is among the most abundant proteins in muscle sarcoplasmic reticulum and displays a high capacity but a low affinity for Ca2+ binding. In mammals, calsequestrin is encoded by two genes, CASQ1 and CASQ2, which are expressed almost exclusively in skeletal and cardiac muscles, respectively. Phylogenetic analysis indicates that calsequestrin is an ancient gene in metazoans, and that the duplication of the ancestral calsequestrin gene took place after the emergence of the lancelet. CASQ2 gene variants associated with catecholaminergic polymorphic ventricular tachycardia (CPVT) in humans are positively correlated with a high degree of evolutionary conservation across all calsequestrin homologues. The mutations are distributed in diverse locations of the calsequestrin protein and impart functional diversity but remarkably manifest in a similar phenotype in humans.
Research on multi-effect evaporation salt prediction based on feature extraction
Authors: Chen Bo-Lun , Hua Yong , Zhu Guo-Chang , Ji Min , Zhu Hong-Fei , Yu Yong-Tao 
Published: October 2020

AbstractIn the multi-effect evaporation salt making process, the smooth operation of the salt making process is crucial. As the salt production process continues, many unstable factors will cause the salt production process not to proceed smoothly. These factors can be discovered in advance by predicting the salt production data, thus, it is of great significance to predict the multi-effect evaporation salt production data. In the process of multi-effect evaporation and salt production, the multiple salt-making devices make the influence between the parameters closer, and the influence of a single parameter on itself is sometimes ductile. Therefore, the data of multi-effect evaporation and salt production have the characteristics of high dimensions, high complexity and temporal information. If the historical salt production data is used for data prediction directly, the prediction model will take a long time and the prediction effect is not good. Thus, how to predict the multi-effect evaporation salt production data is the main research problem of this paper. In view of the above problems, according to the characteristics of multi-effect evaporation salt production data, this paper analyzes and improves the self encoder for feature extraction of multi effect-evaporation salt production data, so as to solve the problem of high dimensions and high complexity of salt production data. On this basis, combined with the time-series information contained in the salt production data, a multi-effect evaporation salt production data prediction model is proposed based on long-term and short-term memory cycle neural network to solve the prediction problem of time-series salt production data. Experiments show that the prediction model can predict and prevent the problems in salt production line in advance. It has a certain theoretical research value and application value in the intelligent production process and production line optimization of salt chemical industry.
Nanoscale flow cytometry reveals interpatient variability in HIV protease activity that correlates with viral infectivity and identifies drug-resistant viruses
Authors: Bonar Michał M. , Tabler Caroline O. , Haqqani Aiman A. , Lapointe Lauren E. , Galiatsos Jake A. , Joussef-Piña Samira , Quiñones-Mateu Miguel E. , Tilton John C. 
Published: October 2020

AbstractHIV encodes an aspartyl protease that is activated during, or shortly after, budding of viral particles from the surface of infected cells. Protease-mediated cleavage of viral polyproteins is essential to generating infectious viruses, a process known as ‘maturation’ that is the target of FDA-approved antiretroviral drugs. Most assays to monitor protease activity rely on bulk analysis of millions of viruses and obscure potential heterogeneity of protease activation within individual particles. In this study we used nanoscale flow cytometry in conjunction with an engineered FRET reporter called VIral ProteasE Reporter (VIPER) to investigate heterogeneity of protease activation in individual, patient-derived viruses. We demonstrate previously unappreciated interpatient variation in HIV protease processing efficiency that impacts viral infectivity. Additionally, monitoring of protease activity in individual virions distinguishes between drug sensitivity or resistance to protease inhibitors in patient-derived samples. These findings demonstrate the feasibility of monitoring enzymatic processes using nanoscale flow cytometry and highlight the potential of this technology for translational clinical discovery, not only for viruses but also other submicron particles including exosomes, microvesicles, and bacteria.
Automated feature quantification of Lipiodol as imaging biomarker to predict therapeutic efficacy of conventional transarterial chemoembolization of liver cancer
Authors: Stark Sophie , Wang Clinton , Savic Lynn Jeanette , Letzen Brian , Schobert Isabel , Miszczuk Milena , Murali Nikitha , Oestmann Paula , Gebauer Bernhard , Lin MingDe , Duncan James , Schlachter Todd , Chapiro Julius 
Published: October 2020

AbstractConventional transarterial chemoembolization (cTACE) is a guideline-approved image-guided therapy option for liver cancer using the radiopaque drug-carrier and micro-embolic agent Lipiodol, which has been previously established as an imaging biomarker for tumor response. To establish automated quantitative and pattern-based image analysis techniques of Lipiodol deposition on 24 h post-cTACE CT as biomarker for treatment response. The density of Lipiodol deposits in 65 liver lesions was automatically quantified using Hounsfield Unit thresholds. Lipiodol deposition within the tumor was automatically assessed for patterns including homogeneity, sparsity, rim, and peripheral deposition. Lipiodol deposition was correlated with enhancing tumor volume (ETV) on baseline and follow-up MRI. ETV on baseline MRI strongly correlated with Lipiodol deposition on 24 h CT (p < 0.0001), with 8.22% ± 14.59 more Lipiodol in viable than necrotic tumor areas. On follow-up, tumor regions with Lipiodol showed higher rates of ETV reduction than areas without Lipiodol (p = 0.0475) and increasing densities of Lipiodol enhanced this effect. Also, homogeneous (p = 0.0006), non-sparse (p < 0.0001), rim deposition within sparse tumors (p = 0.045), and peripheral deposition (p < 0.0001) of Lipiodol showed improved response. This technical innovation study showed that an automated threshold-based volumetric feature characterization of Lipiodol deposits is feasible and enables practical use of Lipiodol as imaging biomarker for therapeutic efficacy after cTACE.
Anti-cancer potential of persimmon (Diospyros kaki) leaves via the PDGFR-Rac-JNK pathway
Authors: Kim Heon-Su , Suh Jung-Soo , Jang Yoon-Kwan , Ahn Sang-Hyun , Raja Ganesan , Kim Jin-Chul , Jung Youngmi , Jung Sang Hoon , Kim Tae-Jin 
Published: October 2020

AbstractPersimmon leaves are known to have some beneficial effects, including ROS elimination, lipid circulation, and neuronal protection. However, their anti-cancer properties and the underlying mechanisms remain unclear. Herein, we show that treatment with the ethanol extract of persimmon, Diospyros kaki, leaves (EEDK) induces cancer cell death and inhibits cell proliferation. Using fluorescence resonance energy transfer (FRET) technology with genetically-encoded biosensors, we first found that EEDK stimulates a PDGFR-Rac signaling cascade in live cells. Moreover, we found that downstream of the PDGFR-Rac pathway, JNKs are activated by EEDK. In contrast, JNK-downstream inhibitors, such as CoCl2, T-5224, and pepstatin A, attenuated EEDK-induced cell death. Thus, we illustrate that the PDGFR-Rac-JNK signaling axis is triggered by EEDK, leading to cancer cell death, suggesting the extract of persimmon leaves may be a promising anti-cancer agent.
Low dose amiodarone reduces tumor growth and angiogenesis
Authors: Steinberg Eliana , Fluksman Arnon , Zemmour Chalom , Tischenko Katerina , Karsch-Bluman Adi , Brill-Karniely Yifat , Birsner Amy E. , D’Amato Robert J. , Benny Ofra 
Published: October 2020

AbstractAmiodarone is an anti-arrhythmic drug that was approved by the US Food and Drug Administration (FDA) in 1985. Pre-clinical studies suggest that Amiodarone induces cytotoxicity in several types of cancer cells, thus making it a potential candidate for use as an anti-cancer treatment. However, it is also known to cause a variety of severe side effects. We hypothesized that in addition to the cytotoxic effects observed in cancer cells Amiodarone also has an indirect effect on angiogensis, a key factor in the tumor microenvironment. In this study, we examined Amiodarone's effects on a murine tumor model comprised of U-87 MG glioblastoma multiforme (GBM) cells, known to form highly vascularized tumors. We performed several in vitro assays using tumor and endothelial cells, along with in vivo assays utilizing three murine models. Low dose Amiodarone markedly reduced the size of GBM xenograft tumors and displayed a strong anti-angiogenic effect, suggesting dual cancer fighting properties. Our findings lay the ground for further research of Amiodarone as a possible clinical agent that, used in safe doses, maintains its dual properties while averting the drug’s harmful side effects.
A biphasic navigational strategy in loggerhead sea turtles
Authors: Luschi Paolo , Sözbilen Dogan , Cerritelli Giulia , Ruffier Franck , Başkale Eyup , Casale Paolo 
Published: October 2020

AbstractThe homing journeys of nine loggerhead turtles translocated from their nesting beach to offshore release sites, were reconstructed through Argos and GPS telemetry while their water-related orientation was simultaneously recorded at high temporal resolution by multi-sensor data loggers featuring a three-axis magnetic sensor. All turtles managed to return to the nesting beach area, although with indirect routes encompassing an initial straight leg not precisely oriented towards home, and a successive homebound segment carried out along the coast. Logger data revealed that, after an initial period of disorientation, turtles were able to precisely maintain a consistent direction for several hours while moving in the open sea, even during night-time. Their water-related headings were in accordance with the orientation of the resulting route, showing little or no effect of current drift. This study reveals a biphasic homing strategy of displaced turtles involving an initial orientation weakly related to home and a successive shift to coastal navigation, which is in line with the modern conceptual framework of animal migratory navigation as deriving from sequential mechanisms acting at different spatial scales.
In vitro activity of biofilm inhibitors in combination with antibacterial drugs against extensively drug-resistant Acinetobacter baumannii
Authors: Peng Qin , Lin Fei , Ling Baodong 
Published: October 2020

AbstractAcinetobacter baumannii is a common pathogen of nosocomial infection, and its ability to form biofilms further contributes to its virulence and multidrug resistance, posing a great threat to global public health. In this study, we investigated the inhibitory effects of five biofilm inhibitors (BFIs) (zinc lactate, stannous fluoride, furanone, azithromycin, and rifampicin) on biofilm formation of nine extensively drug-resistant A. baumannii (XDRAB), and assessed the synergistic antibacterial effects of these BFIs when combined with one of four conventional anti-A. baumannii antibiotics (imipenem, meropenem, tigecycline, and polymyxin B). Each of the five BFIs tested was found to be able to significantly inhibit biofilm formation of all the clinical isolates tested under sub-minimal inhibitory concentrations. Then, we observed synergistic effects (in 22%, 56% and 11% of the isolates) and additive effects (56%, 44% and 44%) when zinc lactate, stannous fluoride and furanone were combined with tigecycline, respectively. When zinc lactate and stannous fluoride were each used with a carbapenem (imipenem or meropenem), in 33% and 56–67% of the isolates, they showed synergistic and additive effects, respectively. Additivity in > 50% of the isolates was detected when rifampicin was combined with imipenem, meropenem, tigecycline, or polymyxin B; and a 100% additivity was noted with azithromycin-polymyxin B combination. However, antagonism and indifference were noted for polymyxin B in its combination with zinc lactate and stannous fluoride, respectively. In conclusion, five BFIs in combination with four antibacterial drugs showed different degrees of in vitro synergistic and additive antibacterial effects against XDRAB.
Adenosine and ATPγS protect against bacterial pneumonia-induced acute lung injury
Authors: Gross Christine M. , Kovacs-Kasa Anita , Meadows Mary Louise , Cherian-Shaw Mary , Fulton David J. , Verin Alexander D. 
Published: October 2020

AbstractLipopolysaccharide (LPS), a component of the outer membrane of gram-negative bacteria, disrupts the alveolar-capillary barrier, triggering pulmonary vascular leak thus inducing acute lung injury (ALI). Extracellular purines, adenosine and ATP, protected against ALI induced by purified LPS. In this study, we investigated whether these purines can impact vascular injury in more clinically-relevant E.coli (non-sterile LPS) murine ALI model. Mice were inoculated with live E. coli intratracheally (i.t.) with or without adenosine or a non-hydrolyzable ATP analog, adenosine 5′-(γ-thio)-triphosphate (ATPγS) added intravenously (i.v.). After 24 h of E. coli treatment, we found that injections of either adenosine or ATPγS 15 min prior or adenosine 3 h after E.coli insult significantly attenuated the E.coli-mediated increase in inflammatory responses. Furthermore, adenosine prevented weight loss, tachycardia, and compromised lung function in E. coli-exposed mice. Accordingly, treatment with adenosine or ATPγS increased oxygen saturation and reduced histopathological signs of lung injury in mice exposed to E. coli. Lastly, lung-targeting gene delivery of adenosine or ATPγS downstream effector, myosin phosphatase, significantly attenuated the E. coli-induced compromise of lung function. Collectively, our study has demonstrated that adenosine or ATPγS mitigates E. coli-induced ALI in mice and may be useful as an adjuvant therapy in future pre-clinical studies.
Genome-scale analyses and characteristics of putative pathogenicity genes of Stagonosporopsis cucurbitacearum, a pumpkin gummy stem blight fungus
Authors: Zhao Qian , Wu Jianzhong , Zhang Liyan , Yan Chao , Jiang Shukun , Li Zhugang , Sun Dequan , Lai Yongcai , Gong Zhenping 
Published: October 2020

AbstractOutbreaks of gummy stem blight (GSB), an emerging seed pumpkin disease, have increased in number and have become more widespread in recent years. Previously we reported that Stagonosporopsis cucurbitacearum (Sc.) is the dominant fungal cause of pumpkin seedling GSB in Northeast China, where it has greatly reduced crop yields in that region. Here, high-throughput whole-genome sequencing and assembly of the Sc. genome were conducted toward revealing pathogenic molecular regulatory mechanisms involved in fungal growth and development. Zq-1 as representative Sc. strain, DNA of Zq-1was prepared for genomic sequencing, we obtained 5.24 Gb of high-quality genomic sequence data via PacBio RS II sequencing. After sequence data was processed to filter out low quality reads, a hierarchical genome-assembly process was employed that generated a genome sequence of 35.28 Mb in size. A total of 9844 genes were predicted, including 237 non-coding RNAs, 1024 genes encoding proteins with signal peptides, 2066 transmembrane proteins and 756 secretory proteins.Transcriptional identification revealed 54 differentially expressed secretory proteins. Concurrently, 605, 130 and 2869 proteins were matched in the proprietary databases Carbohydrate-Active EnZymes database (CAZyme), Transporter Classification Database (TCDB) and Pathogen–Host Interactions database (PHI), respectively. And 96 and 36 DEGs were identified form PHI database and CAZyme database, respectively. In addition, contig00011.93 was an up-regulated DEG involving ATP-binding cassette metabolism in the procession of infection. In order to test relevance of gene predictions to GSB, DEGs with potential pathogenic relevance were revealed through transcriptome data analysis of Sc. strains pre- and post-infection of pumpkin. Interestingly, Sc. and Leptosphaeria maculans (Lm.) exhibited relatively similar with genome lengths, numbers of protein-coding genes and other characteristics. This work provides a foundation for future exploration of additional Sc. gene functions toward the development of more effective GSB control strategies.
Expression of NF-κB associated lncRNAs in schizophrenia
Authors: Safa Amin , Badrlou Elham , Arsang-Jang Shahram , Sayad Arezou , Taheri Mohammad , Ghafouri-Fard Soudeh 
Published: October 2020

AbstractNF-κB signaling pathway has important roles in the regulation of growth and development of nervous system. This pathway has also been shown to participate in the pathogenesis of schizophrenia. Meanwhile, activity of NF-κB signaling pathway is regulated by several factors including non-coding RNAs (lncRNAs). In the current study, we evaluated expression of nine NF-κB-related lncRNAs namely DILC, ANRIL, PACER, CHAST, ADINR, DICER1-AS1, HNF1A-AS1, H19 and NKILA as well as two mRNA coding genes namely ATG5 and CEBPA in the peripheral blood of patients with schizophrenia compared with matched healthy subjects. Expressions of these genes were assessed by real time PCR technique. Expression of PACER was lower in patients with schizophrenia compared with controls (Posterior beta = − 0.684, P value = 0.049). On the other hand, expressions of CHAST, CEBPA, H19, HNF1A-AS1 and DICER1-AS1 were higher in patients compared with controls (Posterior beta = 0.39, P value = 0.005; Posterior beta = 0.844, P value < 0.0001; Posterior beta = 0.467, P value < 0.0001; Posterior beta = 1.107, P value = 0.005; Posterior beta = 0.176, P value = 0.044, respectively). We also appraised the diagnostic power of transcript quantities of CHAST, CEBPA, DICER1-AS1, H19 and HNF1A-AS1 in distinguishing between patients with schizophrenia and controls through depicting ROC curves. Based on the area under curve (AUC) values, CEBPA had the best diagnostic power (AUC = 0.948, P < 0.0001), followed by H19 (AUC = 0.815, P < 0.0001). Taken together, our study demonstrated dysregulation of NF-κB-related lncRNAs and genes in the peripheral blood of patients with schizophrenia and their potential as peripheral markers for this psychiatric condition.
Web‐based efficient dual attention networks to detect COVID‐19 from X‐ray images
Authors: Sarker Md. Mostafa Kamal , Makhlouf Yasmine , Banu Syeda Furruka , Chambon Sylvie , Radeva Petia , Puig Domenec 
Published: October 2020

Rapid and accurate detection of COVID‐19 is a crucial step to control the virus. For this purpose, the authors designed a web‐based COVID‐19 detector using efficient dual attention networks, called ‘EDANet’. The EDANet architecture is based on inverted residual structures to reduce the model complexity and dual attention mechanism with position and channel attention blocks to enhance the discriminant features from the different layers of the network. Although the EDANet has only 4.1 million parameters, the experimental results demonstrate that it achieves the state‐of‐the‐art results on the COVIDx data set in terms of accuracy and sensitivity of 96 and . The web application is available at the following link: https://covid19detector‐cxr.herokuapp.com/.
Digitally controlled GaN‐based MHz active clamp flyback converter with dynamic dead time optimisation for AC–DC adapter
Authors: Gu Donglie , Xi Jianxiong , He Lenian 
Published: October 2020

The active clamp flyback (ACF) converter utilising gallium nitride (GaN) devices with high‐switching frequency and high efficiency is impressive in system miniaturisation for AC–DC adapters. Owing to poor reverse conduction of GaN devices, the improper dead time between two switches can cause large power consumption in high frequency. This study proposes a dynamic dead time optimisation technique for GaNs ideal zero‐voltage switching (ZVS) to address the issue. It adjusts the clamp switch on time to avoid large reverse conduction voltage stress on the main switch in different loads conditions. In addition, a new control scheme for clamp switch is introduced for enhancing efficiency in light to medium load. These techniques are experimentally verified on a 45 W (20 V/2.25 A) prototype of an ACF converter with a field‐programmable gate array. The controller enables the system to operate at 1 MHz and dynamically modulates the dead‐time under universal input and full load. With the light load ZVS control scheme, the system can achieve a maximum efficiency of 94.12 and 80.23% in the worst case. The prototyped converter can achieve power density (exclude case and controller) of 18 W/in3.
Experimental Validation of a 3D-CFD Model of a PEM Fuel Cell
Authors: Riccardi Matteo , d’Adamo Alessandro , Vaini Andrea , Romagnoli Marcello , Borghi Massimo , Fontanesi Stefano 
Published: October 2020

The growing energy demand is inevitably accompanied by a strong increase in greenhouse gas emissions, primarily carbon dioxide. The adoption of new energy vectors is therefore seen as the most promising countermeasure. In this context, hydrogen is an extremely interesting energy carrier, since it can be used as a fuel in both conventional energy systems (internal combustion engines, turbines) and in Fuel Cells (FC). In particular, PEM (Polymeric Electrolyte Membrane) FC are given growing attention in the transportation sector as a Life-Cycle viable solution to sustainable mobility.
The use of 3D CFD analysis of for the development of efficient FC architectures is extremely interesting since it can provide a fast development tool for design exploration and optimization. The designer can therefore take advantage of a robust and accurate modelling in order to define and develop fuel cell systems in a more time-efficient and cost-efficient way, to optimize their performance and to lower their production costs.
So far, studies available in the scientific literature lack of quantitative validation of the CFD simulations of complete PEM fuel cells against experimental evidence. The proposed study presents a quantitative validation of a multi-physics model of a Clearpak PEM cell. The chemistry and physics implemented in the methodology allow the authors to obtain both thermal and electrical results, characterizing the performance of each component of the PEM.
The results obtained, compared with the experimental polarization curve, show that the model is not only numerically stable and robust in terms of boundary conditions, but also capable to accurately characterize the performance of the PEM cell over almost its entire polarization range.