bluuebunny/crossref_metadata_2025_split huggingface dataset:
Advances in the role of HCV nonstructural protein 5a (NS5A) of 3a genotype in inducing insulin resistance by possible phosphorylation of AKT/PKB
Authors: Shams Faiza , Rafique Shazia , Zahid Sadia , Munir Mobeen , Idrees Muhammad , Ilyas Muhammad , Husnain Tayyab 
Published: April 2019

AbstractHCV genes interfere with host cellular genes and play crucial role in pathogenesis. The mechanism under which HCV genes induce insulin resistance is not much clear. This study is aimed to examine the role of HCV NS5A in inducing insulin resistance by examining its affect in the phosphorylation level of AKT/PKB. In the present study, HepG2 cells were transfected with HCV NS5A and after 24 hours of transfection, protein was extracted from cells that were pre induced with insulin at three different time intervals i.e. 1hour, 2 hours and 3hours. Dot Blot analysis was performed to study the phosphorylation level of AKT. Results showed that there is clear upregulation of serine 473 phosphorylation level of AKT in NS5A transfected cells as compared with control (without NS5A). In conclusion, upregulation of serine 473 phosphorylation by NS5A of HCV genotype 3a suggests that this gene impairs the normal insulin AKT/PKB signaling pathway that leads towards insulin resistance and Type 2 diabetes mellitus. Therefore, HCV non-structural protein NS5A should be considered as promising candidate to be studied in detail for HCV induced insulin resistance and should be regarded as a therapeutically important target for the prevention of chronic liver diseases.
Duck production systems and highly pathogenic avian influenza H5N8 in France, 2016–2017
Authors: Guinat C. , Artois J. , Bronner A. , Guérin J. L. , Gilbert M. , Paul M. C. 
Published: April 2019

AbstractIn winter 2016–2017, Highly Pathogenic Avian Influenza (HPAI) H5N8 virus spread across Europe, causing unprecedented epizootics. France was massively affected, resulting in the culling of over 6 million poultry. Boosted regression tree (BRT) models were used to quantify the association between spatial risk factors and HPAI H5N8 infection in poultry holdings and to generate predictive maps for HPAI infection. Three datasets were combined to build the model: a dataset of the reported outbreaks in poultry, a dataset of the poultry holdings where the virus has not been reported and a set of relevant spatial risk factors, including poultry production and trade, and water bird habitat. Results identified key associations between the ‘foie gras’ production systems and HPAI H5N8 risk of occurrence and indicate that strengthening surveillance of fattening duck production systems and making the transportation of fattening ducks more secure would be key priority options for HPAI prevention and control.
Analysis of tractable allosteric sites in G protein-coupled receptors
Authors: Wakefield Amanda E. , Mason Jonathan S. , Vajda Sandor , Keserű György M. 
Published: April 2019

AbstractAllosteric modulation of G protein-coupled receptors represent a promising mechanism of pharmacological intervention. Dramatic developments witnessed in the structural biology of membrane proteins continue to reveal that the binding sites of allosteric modulators are widely distributed, including along protein surfaces. Here we restrict consideration to intrahelical and intracellular sites together with allosteric conformational locks, and show that the protein mapping tools FTMap and FTSite identify 83% and 88% of such experimentally confirmed allosteric sites within the three strongest sites found. The methods were also able to find partially hidden allosteric sites that were not fully formed in X-ray structures crystallized in the absence of allosteric ligands. These results confirm that the intrahelical sites capable of binding druglike allosteric modulators are among the strongest ligand recognition sites in a large fraction of GPCRs and suggest that both FTMap and FTSite are useful tools for identifying allosteric sites and to aid in the design of such compounds in a range of GPCR targets.
Remote Sensing Data to Detect Hessian Fly Infestation in Commercial Wheat Fields
Authors: Bhattarai Ganesh P. , Schmid Ryan B. , McCornack Brian P. 
Published: April 2019

AbstractRemote sensing data that are efficiently used in ecological research and management are seldom used to study insect pest infestations in agricultural ecosystems. Here, we used multispectral satellite and aircraft data to evaluate the relationship between normalized difference vegetation index (NDVI) and Hessian fly (Mayetiola destructor) infestation in commercial winter wheat (Triticum aestivum) fields in Kansas, USA. We used visible and near-infrared data from each aerial platform to develop a series of NDVI maps for multiple fields for most of the winter wheat growing season. Hessian fly infestation in each field was surveyed in a uniform grid of multiple sampling points. For both satellite and aircraft data, NDVI decreased with increasing pest infestation. Despite the coarse resolution, NDVI from satellite data performed substantially better in explaining pest infestation in the fields than NDVI from high-resolution aircraft data. These results indicate that remote sensing data can be used to assess the areas of poor growth and health of wheat plants due to Hessian fly infestation. Our study suggests that remotely sensed data, including those from satellites orbiting >700 km from the surface of Earth, can offer valuable information on the occurrence and severity of pest infestations in agricultural areas.
Ectopic Dpp signaling promotes stem cell competition through EGFR signaling in the Drosophila testis
Authors: Lu Yanfen , Yao Yuncong , Li Zhouhua 
Published: April 2019

AbstractStem cell competition could select the fittest stem cells and potentially control tumorigenesis. However, little is known about the underlying molecular mechanisms. Here, we find that ectopic Decapentaplegic (Dpp) signal activation by expressing a constitutively active form of Thickveins (TkvCA) in cyst stem cells (CySCs) leads to competition between CySCs and germline stem cells (GSCs) for niche occupancy and GSC loss. GSCs are displaced from the niche and undergo differentiation. Interestingly, we find that induction of TkvCA results in elevated expression of vein, which further activates Epidermal Growth Factor Receptor (EGFR) signaling in CySCs to promote their proliferation and compete GSCs out of the niche. Our findings elucidate the important role of Dpp signaling in regulating stem cell competition and tumorigenesis, which could be shed light on tumorigenesis and cancer treatment in mammals.
Synchronization of interconnected heterogeneous networks: The role of network sizes
Authors: Zhang Huixin , Zhang Weidong , Gao Jianxi 
Published: April 2019

AbstractIncreasing evidence shows that real networks interact with each other, forming a network of networks (NONs). Synchronization, a ubiquitous process in natural and engineering systems, has fascinatingly gained rising attentions in the context of NONs. Despite efforts to study the synchronization of NONs, it is still a challenge to understand how do the network sizes affect the synchronization and its phase diagram of NONs coupled with nonlinear dynamics. Here, we model such NONs as star-like motifs to analytically derive the critical values of both the internal and the external coupling strengths, at which a phase transition from synchronization to incoherence occurs. Our results show that the critical values strongly depend on the network sizes. Reducing the difference between network sizes will enhance the synchronization of the whole system, which indicates the irrationality of previous studies that assume the network sizes to be the same. The optimal connection strategy also changes as the network sizes change, a discovery contradicting to the previous conclusion that connecting the high-degree nodes of each network is always the most effective strategy to achieve synchronization unchangeably. This finding emphasizes the crucial role of network sizes which has been neglected in the previous studies and could contribute to the design of a global synchronized system.
Implementation of SWAP test for two unknown states in photons via cross-Kerr nonlinearities under decoherence effect
Authors: Kang Min-Sung , Heo Jino , Choi Seong-Gon , Moon Sung , Han Sang-Wook 
Published: April 2019

AbstractWe present an optical scheme for a SWAP test (controlled swap operation) that can determine whether the difference between two unknown states (photons) using cross-Kerr nonlinearities (XKNLs). The SWAP test, based on quantum fingerprinting, has been widely applied to various quantum information processing (QIP) schemes. Thus, for a reliable QIP scheme, it is important to implement a scheme for a SWAP test that is experimentally feasible. Here, we utilize linearly and nonlinearly optical (XKNLs) gates to design a scheme for a SWAP test. We also analyze the efficiency and the performance of nonlinearly optical gates in our scheme under the decoherence effect and exhibit a technique employing quantum bus beams and photon-number-resolving measurements to reduce the effect of photon loss and dephasing caused by the decoherence effect. Consequently, our scheme, which is designed using linearly optical devices and XKNLs (nonlinear optics), can feasibly operate the nearly deterministic SWAP test with high efficiency, in practice.
Universal confined tensile strength of intact rock
Authors: Lan Hengxing , Chen Junhui , Macciotta Renato 
Published: April 2019

AbstractStrength criteria for intact rock are essential for the safe design of many engineering structures. These criteria have been derived mainly from tests in the compressive stress region. Very few results have been published for confined, direct tensile tests on intact rock. No appropriate criteria are available for addressing the issue on tensile strength of intact rock at current stage. We present the results of direct triaxial tensile tests on Longmaxi Shales under varying confining stresses. These and the results from previous tests in marble and sandstone prove that the phenomenon of “tension cut-off” at low confining stress and the positive correlations between confining stress and tensile strength above the confining stress threshold for brittle rocks occur also in more ductile rocks like shales. Such findings are consistent with the concept that tensile failure processes for intact rock are universal. Our results demonstrate that friction processes still have a significant role on intact rock strength in the tensile region which is leading to confined tensile failure and transitioning to a purely tensile mode. Further, strength criteria are presented which consider the frictional processes leading to failure under confined, direct tension tests and validated against published tensile strength data.
A Simple and Useful Predictive Assay for Evaluating the Quality of Isolated Hepatocytes for Hepatocyte Transplantation
Authors: Matsumura Muneyuki , Imura Takehiro , Inagaki Akiko , Ogasawara Hiroyuki , Fukuoka Kengo , Fathi Ibrahim , Miyagi Shigehito , Ohashi Kazuo , Unno Michiaki , Kamei Takashi , Satomi Susumu , Goto Masafumi 
Published: April 2019

AbstractNo optimal assay for assessing isolated hepatocytes before hepatocyte transplantation (HTx) has been established, therefore reliable and rapid assays are warranted. Isolated rat hepatocytes were dipped in a water bath (necrosis model), and were also cultured with Okadaic acid (apoptosis model) or vehicle, followed by cellular assessment including trypan blue exclusion (TBE) viability, ADP /ATP ratio, plating efficiency (PE), DNA quantity and ammonia elimination. Hepatocytes were transplanted into the liver of analbuminemic rats, subsequently engraftment was assessed by serum albumin and the histology of transplanted grafts. In the necrosis model, the ADP/ATP ratio was strongly and negatively correlated with the TBE (R2 = 0.559, P < 0.001). In the apoptosis model, the ADP/ATP ratio assay, PE, DNA quantification and an ammonia elimination test clearly distinguished the groups (P < 0.001, respectively). The ADP/ATP ratio, PE and DNA quantity were well-correlated and the ammonia elimination was slightly correlated with the transplant outcome. TBE could not distinguish the groups and was not correlated with the outcome. The ADP/ATP ratio assay predicted the transplant outcome. PE and DNA quantification may improve the accuracy of the retrospective (evaluations require several days) quality assessment of hepatocytes. The ADP/ATP ratio assay, alone or with a short-term metabolic assay could improve the efficiency of HTx.
Room-temperature magnetism and tunable energy gaps in edge-passivated zigzag graphene quantum dots
Authors: Hu Wei , Huang Yi , Qin Xinmin , Lin Lin , Kan Erjun , Li Xingxing , Yang Chao , Yang Jinlong 
Published: April 2019

AbstractGraphene is a nonmagnetic semimetal and cannot be directly used as electronic and spintronic devices. Here, we demonstrate that zigzag graphene nanoflakes (GNFs), also known as graphene quantum dots, can exhibit strong edge magnetism and tunable energy gaps due to the presence of localized edge states. By using large-scale first principle density functional theory calculations and detailed analysis based on model Hamiltonians, we can show that the zigzag edge states in GNFs ($${\mathrm{C}}_{6n^2}$$

C

6

n

2

H6n, n = 1–25) become much stronger and more localized as the system size increases. The enhanced edge states induce strong electron–electron interactions along the edges of GNFs, ultimately resulting in a magnetic configuration transition from nonmagnetic to intra-edge ferromagnetic and inter-edge antiferromagnetic, when the diameter is larger than 4.5 nm (C480H60). Our analysis shows that the inter-edge superexchange interaction of antiferromagnetic states between two nearest-neighbor zigzag edges in GNFs at the nanoscale (around 10 nm) can be stabilized at room temperature and is much stronger than that exists between two parallel zigzag edges in graphene nanoribbons, which cannot be stabilized at ultra-low temperature (3 K). Furthermore, such strong and localized edge states also induce GNFs semiconducting with tunable energy gaps, mainly controlled by adjusting the system size. Our results show that the quantum confinement effect, inter-edge superexchange (antiferromagnetic), and intra-edge direct exchange (ferromagnetic) interactions are crucial for the electronic and magnetic properties of zigzag GNFs at the nanoscale.
Extreme environment interconnects and packaging for power electronics
Authors: Campos‐Zatarain Alberto , Hinton Jack , Mirgkizoudi Maria , Li Jing , Harris Russell , Kay Robert W. , Flynn David 
Published: April 2019

This paper presents the combination of an innovative assembly and packaging process utilising solid liquid inter diffusion (SLID) Cu‐Sn interconnects within bespoke ceramic substrates that have been produced using additive manufacturing (AM). The resultant process chain supports the integration and packaging of power electronics for harsh environment applications. Here, the authors explore how the bond strength and composition of Cu‐Sn SLID interconnects vary during exposure to thermal‐mechanical load profiles. Samples of Cu‐Sn are exposed to thermal loading up to 300°C and integrated mechanical loading via high random frequency vibrations (1 and 2000 Hz). In parallel, micro‐extrusion printing methods in which high‐viscosity ceramic pastes are dispensed through cylindrical fine nozzles (2–250 µm) using CNC‐controlled motion has enabled complex 3D geometries to be fabricated. Additional secondary conductor deposition after firing the ceramic substrate enables the electronic circuitry to be generated without dedicated tooling, masks, or templates. This work presents the first fully 3D‐printed ceramic‐based electronic substrates. To demonstrate the applications of this printing method, a 555 timer circuit with flashing LED has been printed and the components surface mount assembled. The resultant ceramic substrates are dense, mechanically robust, and the reflowed circuit functions exactly as intended.
SENTINEL1: Two-Season Study of Respiratory Syncytial Virus Hospitalizations among U.S. Infants Born at 29 to 35 Weeks' Gestational Age Not Receiving Immunoprophylaxis
Authors: Anderson Evan J. , DeVincenzo John P. , Simões Eric A. F. , Krilov Leonard R. , Forbes Michael L. , Pannaraj Pia S. , Espinosa Claudia M. , Welliver Robert C. , Wolkoff Leslie I. , Yogev Ram , Checchia Paul A. , Domachowske Joseph B. , Halasa Natasha , McBride Scott J. , Kumar Veena R. , McLaurin Kimmie K. , Rizzo Christopher P. , Ambrose Christopher S. 
Published: April 2019

Objective The SENTINEL1 observational study characterized confirmed respiratory syncytial virus hospitalizations (RSVH) among U.S. preterm infants born at 29 to 35 weeks' gestational age (wGA) not receiving respiratory syncytial virus (RSV) immunoprophylaxis (IP) during the 2014 to 2015 and 2015 to 2016 RSV seasons.
Study Design All laboratory-confirmed RSVH at participating sites during the 2014 to 2015 and 2015 to 2016 RSV seasons (October 1–April 30) lasting ≥24 hours among preterm infants 29 to 35 wGA and aged <12 months who did not receive RSV IP within 35 days before onset of symptoms were identified and characterized.
Results Results were similar across the two seasons. Among infants with community-acquired RSVH (N = 1,378), 45% were admitted to the intensive care unit (ICU) and 19% required invasive mechanical ventilation (IMV). There were two deaths. Infants aged <6 months accounted for 78% of RSVH observed, 84% of ICU admissions, and 91% requiring IMV. Among infants who were discharged from their birth hospitalization during the RSV season, 82% of RSVH occurred within 60 days of birth hospitalization discharge.
Conclusion Among U.S. preterm infants 29 to 35 wGA not receiving RSV IP, RSVH are often severe with almost one-half requiring ICU admission and about one in five needing IMV.
Intraoperative Tilted Posteroanterior View for the Measurement of Distal Radius Articular Step-Off
Authors: Beldner Steven , Rabinovich Remy V. , Polatsch Daniel B. 
Published: April 2019

AbstractThe purpose of this study is to more accurately determine distal radius articular step-off in the posteroanterior (PA) view. A cadaveric forearm was osteotomized with varying amounts of articular displacement. A second osteotomy was made through the distal radius metaphysis to create four positions of tilt in the lateral plane (5° and 15° dorsal tilt; 5° and 15° volar tilt). Using fluoroscopy, the beam was positioned in the lateral plane from 25° volar to 20° dorsal, separated by 5° increments, obtaining modified PA images of the distal radius in its various configurations. The images were randomly evaluated for step-off by three hand surgeons in a blinded fashion. Statistical analysis was performed to determine the accuracy between estimated and actual step-off and was demonstrated to be greater when the PA view was parallel to the distal radius tilt in the lateral plane, for all four configurations of distal radius tilt. Data pertaining to the distal radius with 0 mm of step-off did not demonstrate the PA view, parallel to the distal radius tilt, to be superior than the PA views not parallel to the tilt; reaffirming that with anatomic reduction, any fluoroscopic image exhibits good alignment. This study confirms that the most accurate method of accessing PA step-off is to first determine the tilt of the radius on a lateral film and then align the beam in the PA plane to match this tilt.
Effect of Trial of Labor before Cesarean and Risk of Subsequent Placenta Accreta Spectrum Disorders
Authors: O'Malley Katharine N. , Norton Mary E. , Osmundson Sarah S. 
Published: April 2019

Abstract
Objective This study aimed to examine whether labor before cesarean affects the risk of placenta accreta spectrum (PAS) disorders in a subsequent pregnancy.
Study Design This is a secondary analysis of the Cesarean Registry, a prospective cohort study of women undergoing cesarean between 1999 and 2002. Women with one prior cesarean with known indications, which were categorized as likely associated with labor (labored cesarean) versus likely not associated with labor (unlabored cesarean), were included. Primary outcome was PAS disorder.
Results Of 34,224 women, 60% had a “labored cesarean” and 40% had an “unlabored cesarean.” Women with prior unlabored cesarean were more likely to have subsequent PAS disorder compared with women with a prior labored cesarean after adjusting for confounders (0.28 vs. 0.13%; adjusted odds ratio: 2.03; 95% confidence interval: 1.22–3.38).
Conclusion Prior unlabored cesarean is associated with an increased risk of PAS disorders in a subsequent pregnancy. This association may aid in risk stratification in women with suspected PAS disorders and help counsel about risks associated with cesarean on maternal request.
Two sides of the same coin? An investigation of the effects of frames on tax compliance and charitable giving
Authors: Castiglioni Cinzia , Lozza Edoardo , van Dijk Eric , van Dijk Wilco W. 
Published: April 2019

AbstractDespite tax compliance being mandatory and charitable giving being voluntary, both can be seen as two sides of the same coin. Paying taxes and making monetary donations are two complementary ways to financially provide for the common good. Using goal-framing theory, an experimental study with a mixed-factorial design (N = 435) was conducted to test the effects of different frames on the intention to pay taxes and make charitable donations. Our results showed that for real taxpayers (i.e., for employees, self-employed, and entrepreneurs, but not for students) using a gain goal frame as a support to the normative goal frame was only effective in increasing intended tax compliance, whereas a supporting hedonic goal frame was only effective in increasing donation intention. In addition, it was found that gain and hedonic goal frames worked differently according to the prevailing motivation behind tax compliance and charitable giving. When the intrinsic motivation was already high, frames were ineffective (in the tax context) or even counter-productive (in the charitable giving context). In the presence of extrinsic motivations, instead, frames are especially effective.
PHANOTATE: a novel approach to gene identification in phage genomes
Authors: McNair Katelyn , Zhou Carol , Dinsdale Elizabeth A , Souza Brian , Edwards Robert A 
Published: April 2019

Abstract

Motivation
Currently there are no tools specifically designed for annotating genes in phages. Several tools are available that have been adapted to run on phage genomes, but due to their underlying design, they are unable to capture the full complexity of phage genomes. Phages have adapted their genomes to be extremely compact, having adjacent genes that overlap and genes completely inside of other longer genes. This non-delineated genome structure makes it difficult for gene prediction using the currently available gene annotators. Here we present PHANOTATE, a novel method for gene calling specifically designed for phage genomes. Although the compact nature of genes in phages is a problem for current gene annotators, we exploit this property by treating a phage genome as a network of paths: where open reading frames are favorable, and overlaps and gaps are less favorable, but still possible. We represent this network of connections as a weighted graph, and use dynamic programing to find the optimal path.

Results
We compare PHANOTATE to other gene callers by annotating a set of 2133 complete phage genomes from GenBank, using PHANOTATE and the three most popular gene callers. We found that the four programs agree on 82% of the total predicted genes, with PHANOTATE predicting more genes than the other three. We searched for these extra genes in both GenBank’s non-redundant protein database and all of the metagenomes in the sequence read archive, and found that they are present at levels that suggest that these are functional protein-coding genes.

Availability and implementation
https://github.com/deprekate/PHANOTATE

Supplementary information
Supplementary data are available at Bioinformatics online.