bluuebunny/crossref_metadata_2025_split huggingface dataset:
Prediction of Weyl semimetal and antiferromagnetic topological insulator phases in Bi2MnSe4
Authors: Chowdhury Sugata , Garrity Kevin F. , Tavazza Francesca 
Published: March 2019

AbstractThree-dimensional materials with strong spin–orbit coupling and magnetic interactions represent an opportunity to realize a variety of rare and potentially useful topological phases with broken time-reversal symmetry. In this work, we use first principles calculations to show that the recently synthesized material Bi2MnSe4 displays a combination of spin–orbit-induced band inversion, also observed in non-magnetic topological insulator Bi2PbSe4, with magnetic interactions, leading to several topological phases. In bulk form, the ferromagnetic phase of Bi2MnSe4 has symmetry protected band crossings at the Fermi level, leading to either a nodal line or Weyl semimetal, depending on the direction of the spins. Due to the combination of time reversal symmetry plus a partial translation, the ground state layered antiferromagnetic phase is instead an antiferromagnetic topological insulator. The surface of this phase intrinsically breaks time-reversal symmetry, allowing the observation of the half-integer quantum anomalous Hall effect. Furthermore, we show that in thin film form, for sufficiently thick slabs, Bi2MnSe4 becomes a Chern insulator with a band gap of up to 58 meV. This combination of properties in a stoichiometric magnetic material makes Bi2MnSe4 an excellent candidate for displaying robust topological behavior.
Green tea extract promotes DNA repair in a yeast model
Authors: Chong Shin Yen , Chiang Hsin-Yi , Chen Tzu-Hung , Liang Yi-Ju , Lo Yi-Chen 
Published: March 2019

AbstractGreen tea polyphenols may protect cells from UV damage through antioxidant activities and by stimulating the removal of damaged or cross-linked DNA. Recently, DNA repair pathways have been predicted as possible targets of epigallocatechin gallate (EGCG)-initiated signaling. However, whether and how green tea polyphenols can promote nucleotide excision repair and homologous recombination in diverse organisms requires further investigation. In this report, we used the budding yeast, Saccharomyces cerevisiae, as a model to investigate the effects of green tea extract on DNA repair pathways. We first showed that green tea extract increased the survival rate and decreased the frequency of mutations in yeast exposed to UVB-irradiation. Furthermore, green tea extract increased the expression of homologous recombination genes, RFA1, RAD51 and RAD52, and nucleotide excision repair genes, RAD4 and RAD14. Importantly, we further used a specific strand invasion assay to show that green tea extract promotes homologous recombination at double-strand breaks. Thus, green tea extract acts to preserve genome stability by activating DNA repair pathways in yeast. Because homologous recombination repair is highly conserved in yeast and humans, this study demonstrates yeast may be a useful platform for future research to investigate the underlying mechanisms of the bioactive compounds in DNA repair.
p38α deficiency restrains liver regeneration after partial hepatectomy triggering oxidative stress and liver injury
Authors: Rius-Pérez Sergio , Tormos Ana M. , Pérez Salvador , Finamor Isabela , Rada Patricia , Valverde Ángela M. , Nebreda Angel R. , Sastre Juan , Taléns-Visconti Raquel 
Published: March 2019

Abstractp38α MAPK negatively regulates the G1/S and G2/M cell cycle transitions. However, liver-specific p38α deficiency impairs cytokinesis and reduces hepatocyte proliferation during cirrhosis and aging in mice. In this work, we have studied how p38α down-regulation affects hepatocyte proliferation after partial hepatectomy, focusing on mitotic progression, cytokinesis and oxidative stress. We found that p38α deficiency triggered up-regulation of cyclins A1, B1, B2, and D1 under basal conditions and after hepatectomy. Moreover, p38α-deficient hepatocytes showed enhanced binucleation and increased levels of phospho-histone H3 but impaired phosphorylation of MNK1 after hepatectomy. The recovery of liver mass was transiently delayed in mice with p38α-deficient hepatocytes vs wild type mice. We also found that p38α deficiency caused glutathione oxidation in the liver, increased plasma aminotransferases and lactate dehydrogenase activities, and decreased plasma protein levels after hepatectomy. Interestingly, p38α silencing in isolated hepatocytes markedly decreased phospho-MNK1 levels, and silencing of either p38α or Mnk1 enhanced binucleation of hepatocytes in culture. In conclusion, p38α deficiency impairs mitotic progression in hepatocytes and restrains the recovery of liver mass after partial hepatectomy. Our results also indicate that p38α regulates cytokinesis by activating MNK1 and redox modulation.
Dynamics of temperature-actuated droplets within microfluidics
Authors: Khater Asmaa , Mohammadi Mehdi , Mohamad Abdulmajeed , Nezhad Amir Sanati 
Published: March 2019

AbstractCharacterizing the thermal behavior of dispersed droplets within microfluidic channels is crucial for different applications in lab-on-a-chip. In this paper, the physics of droplets volume during their transport over a heater is studied experimentally and numerically. The response of droplets to external heating is examined at temperature ranges of 25–90 °C and at different flow rates of the dispersed phase respect to the continuous flow. The results present a reliable prediction of the droplet volume and stability when heating is applied to the droplets at the downstream channel in a quite far distance from the droplets’ ejection orifice. Increasing the ratio of flow rate resulted in larger droplets; for instance, the flow ratio of 0.25 produced drops with 40% larger diameter than the flow rate of 0.1. For every 10 °C increase in temperature of the droplets, the droplet diameter increased by about 5.7% and 4.2% for pure oil and oil with a surfactant, respectively. Also, the droplets showed a degree of instability during their transport over the heater at higher temperatures. Adding SPAN 20 surfactant improved the stability of the droplets at temperatures higher than 60 °C. The experimentally validated numerical model helped for systemic analysis of the influence of key temperature-dependence parameters (e.g. surface tension, density and viscosity of both phases) on controlling the volume and stability of droplets. Our findings supported to develop highly functional systems with a predetermined droplets performance under high temperatures up to 90 °C. This report provides a preliminary basis for enhancing the performance of droplet microfluidic systems for digital droplet polymerase chain reaction (ddPCR), continuous flow digital loop-mediated isothermal PCR (LAMP), and droplet-based antibiotic susceptibility testing.
Connectivity and free-surface effects in polymer glasses
Authors: Lappala Anna , Sefton Luke , Fenimore Paul W. , Terentjev Eugene M. 
Published: March 2019

AbstractThe glass transition is one of the few unsolved problems in condensed matter physics: agreement on the cause of the slowing down of structural relaxation in glass-forming liquids is lacking. Glasses are amorphous solids, which do not possess the long-range crystalline order, yet display arrested dynamics and the shear elastic modulus characteristic of equilibrium elasticity. It has been suggested that due to the influence of intramolecular interactions and chain connectivity, the nature of the glass transition in polymers and in standard glass-formers is fundamentally different. Here, we discuss the role of connectivity in polymer glasses, demonstrating that although covalent bonding promotes glass formation, bonding sequentiality that defines a polymer chain is not critical in the bulk: glassy dynamics is purely a result of the number of connections per particle, independently of how these connections are formed, agreeing with the classical Phillips-Thorpe topological constraint theory. We show that bonding sequentiality does play an important role in the surface effects of the glass, highlighting a major difference between polymeric and colloidal glasses. Further, we identify the heterogenous dynamics of model coarse-grained polymer chains both in ‘bulk’ and near the free surface, and demonstrate characteristic domain patterns in local displacement and connectivity.
Cellulose elementary fibril orientation in the spruce S1-2 transition layer
Authors: Reza Mehedi , Bertinetto Carlo , Kesari Kavindra Kumar , Engelhardt Peter , Ruokolainen Janne , Vuorinen Tapani 
Published: March 2019

AbstractThe tight organization of major wood cell wall polymers limits the swellability, solubility and reactivity of cellulose fibers during the production of regenerated textile fibers, nanocellulose, bioethanol, and many other value-added products. However, the ultrastructural assembly of cellulose elementary fibrils (EF) and matrix materials in one of the outer layers, i.e. S1-2 transition layer of wood cell wall, is far from being understood. Here, single-axis electron tomography on ultrathin spruce sections was applied to observe the three-dimensional (3D) structure of the S1-2 layer. The nanoscale geometries of the EFs were further quantitatively modeled through mathematical fitting of the tomographic subvolumes by suitable parametric space curves. The results showed that crisscross, bundled and parallel EF organizations are all present in this layer; the former two exhibit a denser structure. Several quantitative measures such as distances and angles were obtained for the analyzed structures. The result obtained in this study suggests that the S1-2 transition layer differs in structure than the principal cell wall layers. The structural differences and its possible role in wood cell wall have been discussed. These results will enhance our understanding of the swellability, accessibility and solubility of woody biomass for its conversion into the aforementioned value-added products.
Silver nanowires with optimized silica coating as versatile plasmonic resonators
Authors: Rothe Martin , Zhao Yuhang , Kewes Günter , Kochovski Zdravko , Sigle Wilfried , van Aken Peter A. , Koch Christoph , Ballauff Matthias , Lu Yan , Benson Oliver 
Published: March 2019

AbstractMetal nanoparticles are the most frequently used nanostructures in plasmonics. However, besides nanoparticles, metal nanowires feature several advantages for applications. Their elongation offers a larger interaction volume, their resonances can reach higher quality factors, and their mode structure provides better coupling into integrated hybrid dielectric-plasmonic circuits. It is crucial though, to control the distance of the wire to a supporting substrate, to another metal layer or to active materials with sub-nanometer precision. A dielectric coating can be utilized for distance control, but it must not degrade the plasmonic properties. In this paper, we introduce a controlled synthesis and coating approach for silver nanowires to fulfill these demands. We synthesize and characterize silver nanowires of around 70 nm in diameter. These nanowires are coated with nm-sized silica shells using a modified Stöber method to achieve a homogeneous and smooth surface quality. We use transmission electron microscopy, dark-field microscopy and electron-energy loss spectroscopy to study morphology and plasmonic resonances of individual nanowires and quantify the influence of the silica coating. Thorough numerical simulations support the experimental findings showing that the coating does not deteriorate the plasmonic properties and thus introduce silver nanowires as usable building blocks for integrated hybrid plasmonic systems.
Responsive Cells for rhEGF bioassay Obtained through Screening of a CRISPR/Cas9 Library
Authors: Qin Xi , Yao Wenrong , Shi Xinchang , Liu Lan , Huang Fang , Ding Youxue , Zhou Yong , Yu Lei , Jia Chuncui , Li Shanhu , Rao Chunming , Wang Junzhi 
Published: March 2019

AbstractBioassay of recombinant protein products is important tests to ensure protein effectiveness. Some recombinant protein products have no cells used in their bioassay but instead use animal models, while others have no suitable method. Here, we developed a method to obtain responsive cells used in bioassay of proteins. After screening of a CRISPR/Cas9 library, we obtained a responsive cell line that grew faster in the presence of rhEGF (recombinant human epidermal growth factor) than that of control cells. We used this cell line for bioassay of rhEGF. This cell line, compared with the control cells, had a 2 day shorter operation time and had lower interference. The responsive cell line is more suitable for use in bioassay of rhEGF.
Novel synthesis of topological insulator based nanostructures (Bi2Te3) demonstrating high performance photodetection
Authors: Sharma Alka , Senguttuvan T. D. , Ojha V. N. , Husale Sudhir 
Published: March 2019

AbstractThe rapid progress in 2D material research has triggered the growth of various quantum nanostructures- nanosheets, nanowires, nanoribbons, nanocrystals and the exotic nature originating through 2D heterostructures has extended the synthesis of hybrid materials beyond the conventional approaches. Here we introduce simple, one step confined thin melting approach to form nanostructures of TI (topological insulator) materials, their hybrid heterostructures with other novel 2D materials and their scalable growth. The substrate and temperature dependent growth is investigated on insulating, superconducting, metallic, semiconducting and ferromagnetic materials. The temperature dependent synthesis enables the growth of single, few quintuples to nanosheets and nanocrystals. The density of nanostructure growth is seen more on fabricated patterns or textured substrates. The fabricated nanostructure based devices show the broadband photodetection from ultraviolet to near infrared and exhibit high photoresponsivity. Ultimately, this unique synthesis process will give easy access to fabricate devices on user friendly substrates, study nanostructures and scalable growth will enable their future technology applications.
Resting-state abnormalities in Autism Spectrum Disorders: A meta-analysis
Authors: Lau Way K. W. , Leung Mei-Kei , Lau Benson W. M. 
Published: March 2019

AbstractThe gold standard for clinical assessment of Autism Spectrum Disorders (ASD) relies on assessing behavior via semi-structured play-based interviews and parent interviews. Although these methods show good sensitivity and specificity in diagnosing ASD cases, behavioral assessments alone may hinder the identification of asymptomatic at-risk group. Resting-state functional magnetic resonance imaging (rs-fMRI) could be an appropriate approach to produce objective neural markers to supplement behavioral assessments due to its non-invasive and task-free nature. Previous neuroimaging studies reported inconsistent resting-state abnormalities in ASD, which may be explained by small sample sizes and phenotypic heterogeneity in ASD subjects, and/or the use of different analytical methods across studies. The current study aims to investigate the local resting-state abnormalities of ASD regardless of subject age, IQ, gender, disease severity and methodological differences, using activation likelihood estimation (ALE). MEDLINE/PubMed databases were searched for whole-brain rs-fMRI studies on ASD published until Feb 2018. Eight experiments involving 424 subjects were included in the ALE meta-analysis. We demonstrate two ASD-related resting-state findings: local underconnectivity in the dorsal posterior cingulate cortex (PCC) and in the right medial paracentral lobule. This study contributes to uncovering a consistent pattern of resting-state local abnormalities that may serve as potential neurobiological markers for ASD.
Natural Source-Based Graphene as Sensitising Agents for Air Quality Monitoring
Authors: Parvizi R. , Azad S. , Dashtian K. , Ghaedi M. , Heidari H. 
Published: March 2019

AbstractNatural carbon powder has been used as a precursor to prepare two main types of sensitising agents of nitrogen-doped carbon nanoparticles (N-CNPs) and nitrogen-doped graphene quantum dots coupled to nanosheets (N-GQDs-NSs) by using simple treatments of chemical oxidation and centrifugation separation. Characterization based on FTIR, XPS, XRD, Raman spectroscopy, FE-SEM, HR-TEM, AFM, UV-Vis and FL, revealed successful doping carbon nanoparticle with nitrogen with an average plane dimension of 50 nm and relatively smooth surface. The versatility of the prepared samples as sensitising agents was developed and established by exploiting its ability for detection of volatile organic compounds via simple optical fibre based sensing configuration. The comparative experimental studies on the proposed sensor performance indicate fast response achieved at a few tens of seconds and excellent repeatability in exposure to the methanol vapour. The low limit of detection of 4.3, 4.9 and 10.5 ppm was obtained in exposure to the methanol, ethanol and propanol vapours, respectively, in the atmosphere condition. This study gives insights into the chemical/physical mechanism of an enhanced economic optical fibre based gas sensor and illustrates it for diverse sensing applications, especially for chemical vapour remote detection and future air quality monitoring.
Construction of a high-density linkage map and QTL mapping for important agronomic traits in Stylosanthes guianensis (Aubl.) Sw.
Authors: Tang Yan-Qiong , Xia Zhi-Qiang , Ding Ze-Ting , Ding Ya-Cao , Liu Zhu , Ma Xiang , Liu Jin-Ping 
Published: March 2019

AbstractStylosanthes guianensis (Aubl.) Sw. is an economically important pasture and forage legume in tropical regions of the world. Genetic improvement of the crop can be enhanced through marker-assisted breeding. However, neither single nucleotide polymorphism (SNP) markers nor SNP-based genetic linkage map has been previously reported. In this study, a high-quality genetic linkage map of 2572 SNP markers for S. guianensis is generated using amplified-fragment single nucleotide polymorphism and methylation (AFSM) approach. The genetic map has 10 linkage groups (LGs), which spanned 2226.6 cM, with an average genetic distance of 0.87 cM between adjacent markers. Genetic mapping of quantitative trait loci (QTLs) for important agronomic traits such as yield-related and nutritional or quality-related traits was performed using F2 progeny of a cross between a male-sterile female parent TPRC1979 and male parent TPRCR273 with contrasting phenotypes for morphological and physiological traits. A total of 30 QTLs for 8 yield-related traits and 18 QTLs for 4 nutritional or quality-related traits are mapped on the linkage map. Both the high-quality genetic linkage map and the QTL mapping for important agronomic traits described here will provide valuable genetic resources for marker-assisted selection for S. guianensis.
The relationship between psychophysical body categorization performance and male body dissatisfaction
Authors: Talbot Daniel , Smith Evelyn , Cass John 
Published: March 2019

AbstractThe present study compared the predictive relationship between various psychophysical indices of body categorization performance (Point of Subjective Equivalence(PSE),Just Noticeable Difference(JND) andReaction Time(RT)) and male body dissatisfaction (Male Body Attitudes Scale(MBAS)) and eating disorder symptoms (Eating disorders examination questionnaire(EDE-Q)), with performance on a validated figure rating scale (Visual Body Scale for Men(VBSM)). Body Mass Index, body fat percentage, and fat free mass index were also measured. PSE was not as sensitive in predicting body dissatisfaction and eating disorder symptoms as the VBSM. JND and average RT were found to be sensitive predictors of body dissatisfaction and eating disorder symptoms across the 82 male participants. JND proved to be a better indicator of weight concern than the VBSM-M. Whilst the body categorization task offers new insights into the way body images may be processed by males with different levels of body dissatisfaction, the VBSM and the conventional self-report measures are likely to be clinically more efficacious at measuring body dissatisfaction.
Direct Analysis of Incorporation of an Anticancer Drug into DNA at Single-Molecule Resolution
Authors: Ohshiro Takahito , Komoto Yuuki , Konno Masamitsu , Koseki Jun , Asai Ayumu , Ishii Hideshi , Taniguchi Masateru 
Published: March 2019

AbstractIdentifying positions at which anticancer drug molecules incorporate into DNA is essential to define mechanisms underlying their activity, but current methodologies cannot yet achieve this. The thymidine fluorine substitution product trifluridine (FTD) is a DNA-damaging anticancer agent thought to incorporate into thymine positions in DNA. This mechanism, however, has not been directly confirmed. Here, we report a means to detect FTD in a single-stranded oligonucleotide using a method to distinguish single molecules by differences in electrical conductance. Entire sequences of 21-base single-stranded DNAs with and without incorporated drug were determined based on single-molecule conductances of the drug and four deoxynucleosides, the first direct observation of its kind. This methodology may foster rapid development of more effective anticancer drugs.
Local resources of polyribosomes and SER promote synapse enlargement and spine clustering after long-term potentiation in adult rat hippocampus
Authors: Chirillo Michael A. , Waters Mikayla S. , Lindsey Laurence F. , Bourne Jennifer N. , Harris Kristen M. 
Published: March 2019

AbstractSynapse clustering facilitates circuit integration, learning, and memory. Long-term potentiation (LTP) of mature neurons produces synapse enlargement balanced by fewer spines, raising the question of how clusters form despite this homeostatic regulation of total synaptic weight. Three-dimensional reconstruction from serial section electron microscopy (3DEM) revealed the shapes and distributions of smooth endoplasmic reticulum (SER) and polyribosomes, subcellular resources important for synapse enlargement and spine outgrowth. Compared to control stimulation, synapses were enlarged two hours after LTP on resource-rich spines containing polyribosomes (4% larger than control) or SER (15% larger). SER in spines shifted from a single tubule to complex spine apparatus after LTP. Negligible synapse enlargement (0.6%) occurred on resource-poor spines lacking SER and polyribosomes. Dendrites were divided into discrete synaptic clusters surrounded by asynaptic segments. Spine density was lowest in clusters having only resource-poor spines, especially following LTP. In contrast, resource-rich spines preserved neighboring resource-poor spines and formed larger clusters with elevated total synaptic weight following LTP. These clusters also had more shaft SER branches, which could sequester cargo locally to support synapse growth and spinogenesis. Thus, resources appear to be redistributed to synaptic clusters with LTP-related synapse enlargement while homeostatic regulation suppressed spine outgrowth in resource-poor synaptic clusters.
TACCO, a Database Connecting Transcriptome Alterations, Pathway Alterations and Clinical Outcomes in Cancers
Authors: Chou Po-Hao , Liao Wei-Chao , Tsai Kuo-Wang , Chen Ku-Chung , Yu Jau-Song , Chen Ting-Wen 
Published: March 2019

AbstractBecause of innumerable cancer sequencing projects, abundant transcriptome expression profiles together with survival data are available from the same patients. Although some expression signatures for prognosis or pathologic staging have been identified from these data, systematically discovering such kind of expression signatures remains a challenge. To address this, we developed TACCO (Transcriptome Alterations in CanCer Omnibus), a database for identifying differentially expressed genes and altered pathways in cancer. TACCO also reveals miRNA cooperative regulations and supports construction of models for prognosis. The resulting signatures have great potential for patient stratification and treatment decision-making in future clinical applications. TACCO is freely available athttp://tacco.life.nctu.edu.tw/.