bluuebunny/crossref_metadata_2025_split huggingface dataset:
Understorey Rhododendron tomentosum and Leaf Trichome Density Affect Mountain Birch VOC Emissions in the Subarctic
Authors: Mofikoya Adedayo O. , Miura Kazumi , Ghimire Rajendra P. , Blande James D. , Kivimäenpää Minna , Holopainen Toini , Holopainen Jarmo K. 
Published: August 2018

AbstractSubarctic vegetation is composed of mountain birch [Betula pubescens ssp. czerepanovii (MB)] forests with shrubs and other species growing in the understorey. The effects of the presence and density of one understorey shrub, Rhododendron tomentosum (RT), on the volatile emissions of MB, were investigated in a Finnish subarctic forest site in early and late growing season. Only MB trees with an RT-understorey emitted the RT-specific sesquiterpenoids, palustrol, ledol and aromadendrene. Myrcene, which is the most abundant RT-monoterpene was also emitted in higher quantities by MB trees with an RT-understorey. The effect of RT understorey density on the recovery of RT compounds from MB branches was evident only during the late season when sampling temperature, as well as RT emissions, were higher. MB sesquiterpene and total emission rates decreased from early season to late season, while monoterpene emission rate increased. Both RT and MB terpenoid emission rates were linked to density of foliar glandular trichomes, which deteriorated over the season on MB leaves and emerged with new leaves in the late season in RT. We show that sesquiterpene and monoterpene compounds emitted by understorey vegetation are adsorbed and re-released by MB, strongly affecting the MB volatile emission profile.
Discovery of topological nodal-line fermionic phase in a magnetic material GdSbTe
Authors: Hosen M. Mofazzel , Dhakal Gyanendra , Dimitri Klauss , Maldonado Pablo , Aperis Alex , Kabir Firoza , Sims Christopher , Riseborough Peter , Oppeneer Peter M. , Kaczorowski Dariusz , Durakiewicz Tomasz , Neupane Madhab 
Published: August 2018

AbstractTopological Dirac semimetals with accidental band touching between conduction and valence bands protected by time reversal and inversion symmetry are at the frontier of modern condensed matter research. A majority of discovered topological semimetals are nonmagnetic and conserve time reversal symmetry. Here we report the experimental discovery of an antiferromagnetic topological nodal-line semimetallic state in GdSbTe using angle-resolved photoemission spectroscopy. Our systematic study reveals the detailed electronic structure of the paramagnetic state of antiferromagnetic GdSbTe. We observe the presence of multiple Fermi surface pockets including a diamond-shape, and small circular pockets around the zone center and high symmetry X points of the Brillouin zone (BZ), respectively. Furthermore, we observe the presence of a Dirac-like state at the X point of the BZ and the effect of magnetism along the nodal-line direction. Interestingly, our experimental data show a robust Dirac-like state both below and above the magnetic transition temperature (TN  = 13 K). Having a relatively high transition temperature, GdSbTe provides an archetypical platform to study the interaction between magnetism and topological states of matter.
Relation between switching time distribution and damping constant in magnetic nanostructure
Authors: Moon Jung-Hwan , Lee Tae Young , You Chun-Yeol 
Published: August 2018

AbstractIt is widely known that the switching time is determined by the thermal stability parameters and external perturbations such as magnetic field and/or spin polarized current in magnetic nano-structures. Since the thermal stability parameter and switching time are crucial values in the design of spin-transfer torque magnetic random access memory, the measurement of the switching time is important in the study of the switching behavior of ferromagnetic nano-structures. In this study, we focus on the distribution of the switching time. Within the limit of a large energy barrier, a simple analytical expression between damping constant and anisotropy field with switching time distribution is obtained and confirmed by numerically solving the Fokker-Planck equation. We show that the damping constant and anisotropy field can be extracted by measuring the full width half maximum of the switching time distribution in the magnetic nano-structure devices. Furthermore, the present method can be applied to not only single nano-structure, but also inhomogeneous nano-structure arrays.
Body mass index modulates the association between CDKAL1 rs10946398 variant and type 2 diabetes among Taiwanese women
Authors: Nfor Oswald Ndi , Wu Ming-Fang , Lee Chun-Te , Wang Lee , Liu Wen-Hsiu , Tantoh Disline Manli , Hsu Shu-Yi , Lee Kuan-Jung , Ho Chien-Chang , Debnath Tonmoy , Lung Chia-Chi , Liaw Yung-Po 
Published: August 2018

AbstractCDKAL1 rs10946398 is a type 2 diabetes (T2D)-associated variant. It is a new body mass index (BMI)-associated variant in Asian populations. We investigated the association between rs10946398 and T2D among 9908 participants aged 30–70 years based on BMI: normal weight; 18.5 ≤ BMI < 24 kg/m2, overweight; 24 ≤ BMI < 27 kg/m2, and obesity; BMI ≥27 kg/m2. The CC genotype conferred a higher risk of T2D than the CA genotype. The odds ratios (ORs) were 1.83; 95% confidence interval (CI) 1.49–2.26 and 1.20; 95% CI 1.02–1.40, respectively. The C allele was the significant risk allele compared with A allele (OR = 1.32; 95% CI 1.19–1.47). For normal, overweight and obese participants with CC genotype, the ORs were respectively 1.69; 95% CI 1.02–2.81, 2.34; 95% CI 1.50–3.66, and 1.58; 95% CI 1.02–2.45 among men and 1.22; 95% CI 0.67–2.22, 2.42; 95% CI 1.30–4.52, and 2.3; 95% CI 1.19–4.50 among women. The C allele ORs were higher in obese and overweight women. In conclusion, the rs10946398 CC/CA genotypes, as well as the C allele increased the risk of T2D. The ORs were higher in women who were overweight and obese than in those with normal weight. Nonetheless, significant results were prominent only among those with CC genotype and C allele.
Effects of Geometry on the Electronic Properties of Semiconductor Elliptical Quantum Rings
Authors: Vinasco J. A. , Radu A. , Kasapoglu E. , Restrepo R. L. , Morales A. L. , Feddi E. , Mora-Ramos M. E. , Duque C. A. 
Published: August 2018

AbstractThe electronic states in GaAs-AlxGa1−xAs elliptically-shaped quantum rings are theoretically investigated through the numerical solution of the effective mass band equation via the finite element method. The results are obtained for different sizes and geometries, including the possibility of a number of hill-shaped deformations that play the role of either connected or isolated quantum dots (hills), depending on the configuration chosen. The quantum ring transversal section is assumed to exhibit three different geometrical symmetries - squared, triangular and parabolic. The behavior of the allowed confined states as functions of the cross-section shape, the ring dimensions, and the number of hills-like structures are discussed in detail. The effective energy bandgap (photoluminescence peak with electron-hole correlation) is reported as well, as a function of the Al molar fraction.
Agricultural fungicides inadvertently influence the fitness of Colorado potato beetles, Leptinotarsa decemlineata, and their susceptibility to insecticides
Authors: Clements Justin , Schoville Sean , Clements Anna , Amezian Dries , Davis Tabatha , Sanchez-Sedillo Benjamin , Bradfield Christopher , Huseth Anders S. , Groves Russell L. 
Published: August 2018

AbstractThe Colorado potato beetle (CPB), Leptinotarsa decemlineata (Say), is an agricultural pest of solanaceous crops which has developed insecticide resistance at an alarming rate. Up to this point, little consideration has been given to unintended, or inadvertent effects that non-insecticide xenobiotics may have on insecticide susceptibility in L. decemlineata. Fungicides, such as chlorothalonil and boscalid, are often used to control fungal pathogens in potato fields and are applied at regular intervals when L. decemlineata populations are present in the crop. In order to determine whether fungicide use may be associated with elevated levels of insecticide resistance in L. decemlineata, we examined phenotypic responses in L. decemlineata to the fungicides chlorothalonil and boscalid. Using enzymatic and transcript abundance investigations, we also examined modes of molecular detoxification in response to both insecticide (imidacloprid) and fungicide (boscalid and chlorothalonil) application to more specifically determine if fungicides and insecticides induce similar metabolic detoxification mechanisms. Both chlorothalonil and boscalid exposure induced a phenotypic, enzymatic and transcript response in L. decemlineata which correlates with known mechanisms of insecticide resistance.
Impact of mangrove forests degradation on biodiversity and ecosystem functioning
Authors: Carugati Laura , Gatto Beatrice , Rastelli Eugenio , Lo Martire Marco , Coral Caterina , Greco Silvestro , Danovaro Roberto 
Published: August 2018

AbstractMangroves are amongst the most productive marine ecosystems on Earth, providing a unique habitat opportunity for many species and key goods and services for human beings. Mangrove habitats are regressing at an alarming rate, due to direct anthropogenic impacts and global change. Here, in order to assess the effects of mangrove habitat degradation on benthic biodiversity and ecosystem functioning, we investigated meiofaunal biodiversity (as proxy of benthic biodiversity), benthic biomass and prokaryotic heterotrophic production (as proxies of ecosystem functioning) and trophic state in a disturbed and an undisturbed mangrove forests. We report here that disturbed mangrove area showed a loss of 20% of benthic biodiversity, with the local extinction of four Phyla (Cladocera, Kynorincha, Priapulida, Tanaidacea), a loss of 80% of microbial-mediated decomposition rates, of the benthic biomass and of the trophic resources. The results of this study strengthen the need to preserve mangrove forests and to restore those degraded to guarantee the provision of goods and services needed to support the biodiversity and functioning of wide portions of tropical ecosystems.
Assessment of cerebral autoregulation using continuous-wave near-infrared spectroscopy during squat-stand maneuvers in subjects with symptoms of orthostatic intolerance
Authors: Kim Jae-Myoung , Choi Jong-Kwan , Choi Mingyu , Ji Minsu , Hwang Gunpil , Ko Sang-Bae , Bae Hyeon-Min 
Published: August 2018

AbstractOrthostatic lightheadedness in healthy young adults often leads to syncope in severe cases. One suggested underlying mechanism of orthostatic lightheadedness is a drop in transient blood pressure (BP); however, a decrease in BP does not always lead to a drop in cerebral blood flow (CBF) due to cerebral autoregulation (CA). We present a direct assessment method of CA using a multichannel continuous-wave near-infrared spectroscopy (CW-NIRS) device that measures the temporal changes in oxy- and deoxy-hemoglobin concentrations in the prefrontal cortex. Twenty healthy young adults were recruited. During the experiment, continuous beat-to-beat BP and heart rate were simultaneously measured during repetitive squat-stand maneuvers. We introduce a new metric termed ‘time-derivative hemodynamic model (DHbT)’, which is the time-derivative of total-hemoglobin concentration change that reflects the changes of cerebral blood volume and CBF. Although the absolute levels and the variations of systolic and diastolic BPs and mean arterial pressure showed no significant difference between the two groups, the proposed model showed a distinct difference in slope variation and response time of DHbT between the subjects with frequent symptom of orthostatic intolerance and the healthy control subjects. Thus, these results clearly demonstrate the feasibility of using CW-NIRS devices as a CA performance assessment tool.
Cardiac resynchronization therapy: a comparison among left ventricular bipolar, quadripolar and active fixation leads
Authors: Ziacchi M. , Diemberger I. , Corzani A. , Martignani C. , Mazzotti A. , Massaro G. , Valzania C. , Rapezzi C. , Boriani G. , Biffi M. 
Published: August 2018

AbstractWe evaluated the performance of 3 different left ventricular leads (LV) for resynchronization therapy: bipolar (BL), quadripolar (QL) and active fixation leads (AFL). We enrolled 290 consecutive CRTD candidates implanted with BL (n = 136) or QL (n = 97) or AFL (n = 57). Over a minimum 10 months follow-up, we assessed: (a) composite technical endpoint (TE) (phrenic nerve stimulation at 8 V@0.4 ms, safety margin between myocardial and phrenic threshold <2V, LV dislodgement and failure to achieve the target pacing site), (b) composite clinical endpoint (CE) (death, hospitalization for heart failure, heart transplantation, lead extraction for infection), (c) reverse remodeling (RR) (reduction of end systolic volume >15%). Baseline characteristics of the 3 groups were similar. At follow-up the incidence of TE was 36.3%, 14.3% and 19.9% in BL, AFL and QL, respectively (p < 0.01). Moreover, the incidence of RR was 56%, 64% and 68% in BL, AFL and QL respectively (p = 0.02). There were no significant differences in CE (p = 0.380). On a multivariable analysis, “non-BL leads” was the single predictor of an improved clinical outcome. QL and AFL are superior to conventional BL by enhancing pacing of the target site: AFL through prevention of lead dislodgement while QL through improved management of phrenic nerve stimulation.
Broadband quad‐polarisation reconfigurable antenna
Authors: Cui Y.H. , Zhang P.P. , Li R.L. 
Published: August 2018

A new broadband quad‐polarisation reconfigurable antenna is proposed. The reconfigurable antenna consists of a +45° polarised dipole and a −45° polarised dipole. Each dipole is excited by a broadband balun. A reconfigurable feeding network is employed to feed the ±45° polarised dipoles. When the ±45° polarised dipoles are separately fed, ±45° linear polarisations are obtained. As the ±45° polarised dipoles are simultaneously fed with a +90° or −90° phase difference, left‐handed circular polarisation (CP) or right‐handed CP is asserted. It is shown by simulation and experiment that the quad‐polarisation reconfigurable antenna achieves an overlapped impedance bandwidth of 37% (0.69–1.0 GHz) for return loss >15 dB and an overlapped bandwidth of 36% (0.66–0.95 GHz) for axial ratio <3 dB.
Video-Assisted Thoracoscopic Surgery for Pulmonary Sequestrations: Series of 35 Consecutive Patients in a Single Center
Authors: Wang Shaodong , Li Yun , Wang Jun 
Published: August 2018

Objective The aim of this report is to summarize the experience of completely video-assisted thoracoscopic surgery (VATS) for pulmonary sequestration in a single center and to evaluate the long-term outcome in a larger series of patients.
Methods The data of 35 pulmonary sequestrations who received completely VATS consecutively in Peking University People's Hospital between January 2008 and November 2017 were retrospectively reviewed. Twenty-three females and twelve males with an average of 38 years old were included.
Results A total of 28 (80%) patients had preoperative symptoms; leading symptoms were recurrent infections (22), fever (11), hemoptysis (11), chest pain (9), and shortness of breath (4). Twenty-nine (82.9%) patients were intralobar pulmonary sequestration (22 in the left lower lobe, 6 in the right lower lobe, and 1 in the left upper lobe) and six (17.1%) patients were extralobar pulmonary sequestration. All the patients underwent VATS excision successfully, 26 underwent lobectomy, 2 underwent wedge resection, 1 underwent occlusion of the aberrant artery, and 6 underwent mass resection in all of those with extralobar pulmonary sequestration. The median surgery time and estimated blood loss was 150 (75–300) minutes and 50 (10–600) mL, respectively. There was no mortality. Only one patient suffered postoperative complication (recurrent laryngeal nerve injury). During the median follow-up period of 57 months, none of the patients presented recurrence.
Conclusions Completely VATS was a safe and effective mini-invasive procedure for pulmonary sequestration in an experienced team. Its long-term outcome was remarkable.
Precursor proadrenomedullin influences cardiomyocyte survival and local inflammation related to myocardial infarction
Authors: Hinrichs Svenja , Scherschel Katharina , Krüger Saskia , Neumann Johannes Tobias , Schwarzl Michael , Yan Isabell , Warnke Svenja , Ojeda Francisco M. , Zeller Tanja , Karakas Mahir , Keller Till , Meyer Christian , Blankenberg Stefan , Westermann Dirk , Lindner Diana 
Published: August 2018

Significance
Myocardial infarction (MI) is one of the leading causes of death worldwide and is characterized by apoptosis and inflammation. While increased adrenomedullin (ADM) levels after MI are associated with disease severity, ADM infusion leads to antiapoptotic effects, suggesting a self-protective mechanism. ADM is cleaved from a full‐length precursor protein (ProADM), a putatively inactive prohormone. Our data show that ProADM is biologically active by reducing apoptosis to a similar extent as ADM. In contrast to ADM, ProADM has proinflammatory effects on cardiac fibroblasts but antiinflammatory effects on activated leukocytes. We assume that ProADM induces local inflammation but attenuates exaggerated inflammation. Our data suggest that both proteins are beneficial during MI by regulating inflammation and reducing apoptosis of cardiomyocytes.
The kaleidoscope of divine images
Authors: Huang Wen-Yi , Chiang Wen-yu 
Published: August 2018

Abstract
Compared to metaphors about God in the Bible, those in other Christian contexts seem to receive little academic attention. To bridge this gap, this study examines metaphors gathered from gospel songs on Billboard and iTunes to analyze the abstract concept of God from a cognitive linguistic viewpoint through extending the framework of Conceptual Metaphor Theory. Our findings indicate that while diverse kinds of metaphors focus on the multi-dimensionality of God such as his characteristics (e.g., GOD IS A MAGICIAN and GOD IS A LOVER), outline (e.g., GOD IS A CONTAINER and GOD IS LIQUID), and supreme status (e.g., GOD IS HIGH), structural metaphors tend to represent the overwhelming majority and thus form the basis for the structural-metaphor-dominant phenomenon. In addition, the flawless figure of God is suggested to result from the PERFECTION image schema which is responsible for hidden aspects in related metaphorical structures. Furthermore, metaphors about divine images, having their mapping details enriched by biblical context, are suggested to possess recessive metaphor inheritance. Finally, the rhythm of ‘chain of metaphors’ is proposed to interpret how the spirit of the songs about the divine being are brought out. This study sheds light on our overall understanding of the concepts of God in Christian culture, and contributes to the development of interdisciplinary studies concerning metaphor, religion, cognition, and culture.
Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures
Authors: Wang Zichen , He Edward , Sani Kevin , Jagodnik Kathleen M , Silverstein Moshe C , Ma’ayan Avi 
Published: August 2018

Abstract

Summary
Mechanistic molecular studies in biomedical research often discover important genes that are aberrantly over- or under-expressed in disease. However, manipulating these genes in an attempt to improve the disease state is challenging. Herein, we reveal Drug Gene Budger (DGB), a web-based and mobile application developed to assist investigators in order to prioritize small molecules that are predicted to maximally influence the expression of their target gene of interest. With DGB, users can enter a gene symbol along with the wish to up-regulate or down-regulate its expression. The output of the application is a ranked list of small molecules that have been experimentally determined to produce the desired expression effect. The table includes log-transformed fold change, P-value and q-value for each small molecule, reporting the significance of differential expression as determined by the limma method. Relevant links are provided to further explore knowledge about the target gene, the small molecule and the source of evidence from which the relationship between the small molecule and the target gene was derived. The experimental data contained within DGB is compiled from signatures extracted from the LINCS L1000 dataset, the original Connectivity Map (CMap) dataset and the Gene Expression Omnibus (GEO). DGB also presents a specificity measure for a drug–gene connection based on the number of genes a drug modulates. DGB provides a useful preliminary technique for identifying small molecules that can target the expression of a single gene in human cells and tissues.

Availability and implementation
The application is freely available on the web at http://DGB.cloud and as a mobile phone application on iTunes https://itunes.apple.com/us/app/drug-gene-budger/id1243580241? mt=8 and Google Play https://play.google.com/store/apps/details? id=com.drgenebudger.

Supplementary information
Supplementary data are available at Bioinformatics online.
PhysiBoSS: a multi-scale agent-based modelling framework integrating physical dimension and cell signalling
Authors: Letort Gaelle , Montagud Arnau , Stoll Gautier , Heiland Randy , Barillot Emmanuel , Macklin Paul , Zinovyev Andrei , Calzone Laurence 
Published: August 2018

AbstractMotivationDue to the complexity and heterogeneity of multicellular biological systems, mathematical models that take into account cell signalling, cell population behaviour and the extracellular environment are particularly helpful. We present PhysiBoSS, an open source software which combines intracellular signalling using Boolean modelling (MaBoSS) and multicellular behaviour using agent-based modelling (PhysiCell).ResultsPhysiBoSS provides a flexible and computationally efficient framework to explore the effect of environmental and genetic alterations of individual cells at the population level, bridging the critical gap from single-cell genotype to single-cell phenotype and emergent multicellular behaviour. PhysiBoSS thus becomes very useful when studying heterogeneous population response to treatment, mutation effects, different modes of invasion or isomorphic morphogenesis events. To concretely illustrate a potential use of PhysiBoSS, we studied heterogeneous cell fate decisions in response to TNF treatment. We explored the effect of different treatments and the behaviour of several resistant mutants. We highlighted the importance of spatial information on the population dynamics by considering the effect of competition for resources like oxygen.Availability and implementationPhysiBoSS is freely available on GitHub (https://github.com/sysbio-curie/PhysiBoSS), with a Docker image (https://hub.docker.com/r/gletort/physiboss/). It is distributed as open source under the BSD 3-clause license.Supplementary informationSupplementary data are available at Bioinformatics online.