bluuebunny/crossref_metadata_2025_split huggingface dataset:
SciRide Finder: a citation-based paradigm in biomedical literature search
Authors: Volanakis Adam , Krawczyk Konrad 
Published: April 2018

AbstractThere are more than 26 million peer-reviewed biomedical research items according to Medline/PubMed. This breadth of information is indicative of the progress in biomedical sciences on one hand, but an overload for scientists performing literature searches on the other. A major portion of scientific literature search is to find statements, numbers and protocols that can be cited to build an evidence-based narrative for a new manuscript. Because science builds on prior knowledge, such information has likely been written out and cited in an older manuscript. Thus, Cited Statements, pieces of text from scientific literature supported by citing other peer-reviewed publications, carry significant amount of condensed information on prior art. Based on this principle, we propose a literature search service, SciRide Finder (finder.sciride.org), which constrains the search corpus to such Cited Statements only. We demonstrate that Cited Statements can carry different information to this found in titles/abstracts and full text, giving access to alternative literature search results than traditional search engines. We further show how presenting search results as a list of Cited Statements allows researchers to easily find information to build an evidence-based narrative for their own manuscripts.
Quercetin attenuates AZT-induced neuroinflammation in the CNS
Authors: Yang Yi , Liu Xiaokang , Wu Ting , Zhang Wenping , Shu Jianhong , He Yulong , Tang Shao-Jun 
Published: April 2018

AbstractHighly active anti-retroviral therapy (HAART) is very effective in suppressing HIV-1 replication in patients. However, continuous HAART is required to prevent viral rebound, which may have detrimental effects in various tissues, including persistent neuroinflammation in the central nervous system (CNS). Here, we show that quercetin (3,5,7,3’,4’-pentahydroxy flavones), a natural antioxidant used in Chinese traditional medicines, suppresses the neuroinflammation that is induced by chronic exposure to Zidovudine (azidothymidine, AZT), a nucleoside reverse transcriptase inhibitor (NRTI) that is commonly part of HAART regimens. We found that the up-regulation of pro-inflammatory cytokines and microglial and astrocytic markers induced by AZT (100 mg/kg/day; 8 days) was significantly inhibited by co-administration of quercetin (50 mg/kg/day) in the mouse cortex, hippocampus and spinal cord. We further showed that quercetin attenuated AZT-induced up-regulation of Wnt5a, a key regulator of neuroinflammation. These results suggest that quercetin has an inhibitory effect on AZT-induced neuroinflammation in the CNS, and Wnt5a signaling may play an important role in this process. Our results may further our understanding of the mechanisms of HAART-related neurotoxicity and help in the development of effective adjuvant therapy.
Simultaneous detection of eight avian influenza A virus subtypes by multiplex reverse transcription-PCR using a GeXP analyser
Authors: Li Meng , Xie Zhixun , Xie Zhiqin , Liu Jiabo , Xie Liji , Deng Xianwen , Luo Sisi , Fan Qing , Huang Li , Huang Jiaoling , Zhang Yanfang , Zeng Tingting , Wang Sheng 
Published: April 2018

AbstractRecent studies have demonstrated that at least eight subtypes of avian influenza virus (AIV) can infect humans, including H1, H2, H3, H5, H6, H7, H9 and H10. A GeXP analyser-based multiplex reverse transcription (RT)-PCR (GeXP-multiplex RT-PCR) assay was developed in our recent studies to simultaneously detect these eight AIV subtypes using the haemagglutinin (HA) gene. The assay consists of chimeric primer-based PCR amplification with fluorescent labelling and capillary electrophoresis separation. RNA was extracted from chick embryo allantoic fluid or liquid cultures of viral isolates. In addition, RNA synthesised via in vitro transcription was used to determine the specificity and sensitivity of the assay. After selecting the primer pairs, their concentrations and GeXP-multiplex RT-PCR conditions were optimised. The established GeXP-multiplex RT-PCR assay can detect as few as 100 copies of premixed RNA templates. In the present study, 120 clinical specimens collected from domestic poultry at live bird markets and from wild birds were used to evaluate the performance of the assay. The GeXP-multiplex RT-PCR assay specificity was the same as that of conventional RT-PCR. Thus, the GeXP-multiplex RT-PCR assay is a rapid and relatively high-throughput method for detecting and identifying eight AIV subtypes that may infect humans.
Slow-slip events in semi-brittle serpentinite fault zones
Authors: Goswami A. , Barbot S. 
Published: April 2018

AbstractSlow-slip events are earthquake-like events only with much lower slip rates. While peak coseismic velocities can reach tens of meters per second, slow-slip is on the order of 10−7±2 m/s and may last for days to weeks. Under the rate-and-state model of fault friction, slow-slip is produced only when the asperity size is commensurate with the critical nucleation size, a function of frictional properties. However, it is unlikely that all subduction zones embody the same frictional properties. In addition to friction, plastic flow of antigorite-rich serpentinite may significantly influence the dynamics of fault slip near the mantle wedge corner. Here, we show that the range of frictional parameters that generate slow slip is widened in the presence of a serpentinized layer along the subduction plate interface. We observe increased stability and damping of fast ruptures in a semi-brittle fault zone governed by both brittle and viscoelastic constitutive response. The rate of viscous serpentinite flow, governed by dislocation creep, is enhanced by high ambient temperatures. When effective viscosity is taken to be dynamic, long-term slow slip events spontaneously emerge. Integration of rheology, thermal effects, and other microphysical processes with rate-and-state friction may yield further insight into the phenomenology of slow slip.
Sap flow of black locust in response to short-term drought in southern Loess Plateau of China
Authors: Zhang Qingyin , Jia Xiaoxu , Shao Mingan , Zhang Chencheng , Li Xiangdong , Ma Changkun 
Published: April 2018

AbstractSoil water shortage is a major factor influencing the ecology and hydrology of vegetation in China’s semihumid Loess Plateau. However, few studies have experimentally assessed how expected changes in precipitation will affect sap flow in semihumid forest ecosystems. In this study, we measured the sap flow of black locust (Robinia pseudoacacia Linn.) under ambient and drought (induced by throughfall exclusion) conditions in 2015 and 2016, and investigated the relationship between stand transpiration and environmental factors in the semihumid China’s Loess Plateau. Throughfall exclusion significantly decreased sap flux density and stand transpiration by 39% and 28%, respectively, in 2016, which may have been due to the cumulative droughts effect from both 2015 and 2016. Throughfall exclusion caused a significant reduction in soil moisture, leaf area index (LAI), and stem diameter. Stand transpiration was positively correlated with LAI (P < 0.01), but precipitation and soil moisture did not correlate with stand transpiration at a daily timescale, suggesting that LAI can be used as a proxy for stand transpiration. Our results highlight that precipitation must be considered when planting black locust in semihumid regions. These findings provide basic information about the management of water resources and vegetation restoration in the semihumid China’s Loess Plateau and possibly other water-limited regions around the world.
The paraspecific neutralisation of snake venom induced coagulopathy by antivenoms
Authors: Ainsworth Stuart , Slagboom Julien , Alomran Nessrin , Pla Davinia , Alhamdi Yasir , King Sarah I. , Bolton Fiona M. S. , Gutiérrez José María , Vonk Freek J. , Toh Cheng-Hock , Calvete Juan J. , Kool Jeroen , Harrison Robert A. , Casewell Nicholas R. 
Published: April 2018

AbstractSnake envenoming causes several potentially lethal pathologies. The specific pathology is dictated by the toxin composition of venom, which varies by species, geography and ontogeny. This variation severely restricts the paraspecific efficacy of antivenoms used to treat snakebite victims. With a view to devising pathology-specific snakebite treatments, we assessed the procoagulant activity of 57 snake venoms and investigated the efficacy of various antivenoms. We find that procoagulant venoms act differentially on key steps of the coagulation cascade, and that certain monospecific antivenoms work in a previously unrecognised paraspecific manner to neutralise this activity, despite conventional assumptions of congener-restricted efficacy. Moreover, we demonstrate that the metal chelator EDTA is also capable of neutralising venom-induced lethality in vivo. This study illustrates the exciting potential of developing new, broad-spectrum, toxin-targeting antivenoms capable of treating key snakebite pathologies, and advocates a thorough re-examination of enzyme inhibiting compounds as alternative therapies for treating snakebite victims.
Continuous-wave multiphoton photoemission from plasmonic nanostars
Authors: Sivis Murat , Pazos-Perez Nicolas , Yu Renwen , Alvarez-Puebla Ramon , García de Abajo F. Javier , Ropers Claus 
Published: April 2018

AbstractHighly nonlinear optical processes require high intensities, typically achieved with ultrashort laser pulses, and hence, they were first observed with the advent of picosecond laser technology. An alternative approach for reaching the required field intensities is offered by localized optical resonances in tailored plasmonic nanostructures, enabling the enhancement of a multitude of nonlinear phenomena. However, so far, plasmon-enhanced high-order nonlinear effects have been restricted to experiments involving short-pulsed and ultrafast laser sources. Here, we demonstrate localized three-photon photoemission from chemically synthesized plasmonic gold nanostars under continuous-wave illumination at sub-MWcm−2 incident intensities. Intensity- and polarization-dependent measurements confirm the nonlinearity of the photoemission process and agree with quantum mechanical calculations of the electron yield from nanostar tips with features smaller than 5 nm, which facilitate local intensity enhancement factors exceeding 1000. Our results open up new avenues for the design of accessible nanoscale coherent electron sources, with potential applications in microscopy, spectroscopy, sensing, and signal processing.
Dual‐edge triggered JK flip‐flop with comprehensive analysis in quantum‐dot cellular automata
Authors: Zhang Yongqiang , Xie Guangjun , Lv Hongjun 
Published: April 2018

Quantum‐dot cellular automata (QCA), a new computing paradigm at nanoscale, may be a prospective substitution of conventional complementary metal oxide semiconductor (CMOS)‐based integrated circuits. A new dual‐edge triggered JK flip‐flop based on a novel dual‐edge triggered structure with less fundamental building gates is proposed in QCA domain in this study. To get a more robust triggered structure, the probabilistic transfer matrix is employed to analyse the reliability of the structure. The functionalities of the dual‐edge triggered structure and JK flip‐flop are verified with QCADesigner, a simulation tool widely used. By arranging the clock zones serially and QCA cells logically, compared with previous circuits, both of the proposed triggered structure and JK flip‐flop perform well in terms of cells count, area, complexity, QCA cost and power dissipation at different tunnelling energy levels at 2 K temperature, respectively.
Photometric survey of 67 near-Earth objects
Authors: Ieva S. , Dotto E. , Mazzotta Epifani E. , Perna D. , Rossi A. , Barucci M. A. , Di Paola A. , Speziali R. , Micheli M. , Perozzi E. , Lazzarin M. , Bertini I. 
Published: April 2018

Context. The near-Earth object (NEO) population is a window into the original conditions of the protosolar nebula, and has the potential to provide a key pathway for the delivery of water and organics to the early Earth. In addition to delivering the crucial ingredients for life, NEOs can pose a serious hazard to humanity since they can impact the Earth. To properly quantify the impact risk, physical properties of the NEO population need to be studied. Unfortunately, NEOs have a great variation in terms of mitigation-relevant quantities (size, albedo, composition, etc.) and less than 15% of them have been characterized to date.Aims. There is an urgent need to undertake a comprehensive characterization of smaller NEOs (D< 300 m) given that there are many more of them than larger objects; their small sizes make them intrinsically fainter and therefore harder to study. One of the main aims of the NEOShield-2 project (2015–2017), financed by the European Community in the framework of the Horizon 2020 program, is therefore to retrieve physical properties of a wide number of NEOs in order to design impact mitigation missions and assess the consequences of an impact on Earth.Methods. We carried out visible photometry of NEOs, making use of the DOLORES instrument at the Telescopio NazionaleGalileo(TNG, La Palma, Spain) in order to derive visible color indexes and the taxonomic classification for each target in our sample.Results. We attributed for the first time the taxonomical complex of 67 objects obtained during the first year of the project. While the majority of our sample belong to the S-complex, carbonaceous C-complex NEOs deserve particular attention. These NEOs can be located in orbits that are challenging from a mitigation point of view, with high inclination and low minimum orbit intersection distance (MOID). In addition, the lack of carbonaceous material we see in the small NEO population might not be due to an observational bias alone.
Gastric peroral endoscopic myotomy for the treatment of refractory gastroparesis: a multicenter international experience
Authors: Kahaleh Michel , Gonzalez Jean-Michel , Xu Ming-ming , Andalib Iman , Gaidhane Monica , Tyberg Amy , Saumoy Monica , Baptista Marchena Alberto Jose , Barthet Marc 
Published: April 2018

Abstract
Background Gastroparesis is a difficult-to-treat motility disorder with a poor response to medical therapy. Gastric peroral endoscopic pyloromyotomy (G-POEM) has been offered as a novel therapy in the treatment of refractory gastroparesis. We present a multicenter case series of our experience with G-POEM.
Methods This is an international multicenter case series of patients who underwent G-POEM for the treatment of gastroparesis. The severity of gastroparesis was assessed by delayed gastric emptying scintigraphy (GES) and an elevated gastroparesis cardinal symptoms index (GCSI). Patients then underwent G-POEM using the submucosal tunneling technique. The primary endpoint was improvement in the GCSI score and improvement in gastric emptying on repeat scintigraphy. Secondary endpoints were technical success, complication rate, procedure duration, and length of hospital stay post-procedure.
Results G-POEM was technically successful in all 33 patients. Symptomatic improvement was seen in 28/33 patients (85 %), with a decrease in symptom score by GCSI from 3.3 to 0.8 at follow-up (P < 0.001). The mean procedure duration was 77.6 minutes (37 – 255 minutes). Mean GES improved significantly from 222.4 minutes to 143.16 minutes (P < 0.001). Complications were minimal and included bleeding (n = 1) and an ulcer (n = 1) treated conservatively. The mean length of hospital stay post-procedure was 5.4 days (1 – 14 days). The mean follow-up duration was 11.5 months (2 – 31 months).
Conclusion G-POEM is a technically feasible, safe, and successful procedure for the treatment of refractory gastroparesis. A further multicenter comparative study should be performed to compare this technique to laparoscopic pyloromyotomy.
Diagnostik und Behandlungsstrategien bei Morel-Lavallée-Läsionen im Wirbelsäulen- und Beckenbereich
Authors: Becker Christopher , Kammerlander Christian , Greiner Axel , Sommer Fabian , Linhart Christoph , Böcker Wolfgang , Rubenbauer Bianka , Weidert Simon 
Published: April 2018

Zusammenfassung
Hintergrund Die Morel-Lavallée-Verletzung ist eine typische Weichteilverletzung bei Beckenfrakturen. Ihre Versorgungsstrategie im Zusammenhang mit Wirbelfrakturen und osteosynthetischer Versorgung von Wirbelfrakturen wurde bislang noch nicht hinreichend untersucht. Das Ziel dieser Studie war es, Diagnose- und Therapieprinzipien von Becken- und Wirbelfrakturen in Kombination mit Morel-Lavallée-Verletzungen zu analysieren.
Methoden Literaturanalyse via Medline und PubMed. Insgesamt wurden 197 Studien und Fallberichte analysiert. Nach der Analyse blieben 19 Studien/Fallberichte übrig, welche die Einschlusskriterien erfüllten.
Ergebnisse Es existieren verschiedene Diagnoseverfahren bezogen auf die Morel-Lavallée-Verletzung, wie bspw. Ultraschall, CT oder MRT. In Kombination mit Becken- und Wirbelfrakturen erscheint der Ultraschall als geeignete Methode, eine Morel-Lavallée-Verletzung zu diagnostizieren. Einige Autoren tendieren zum offenen Débridement, wenngleich andere Autoren ein perkutanes Vorgehen propagieren. Offenes Débridement und Vakuumversiegelung wird bei spät diagnostizierten Morel-Lavallée-Verletzungen empfohlen, wenn keine Primärnaht initial durchführbar ist. Die Frakturversorgung sollte zeitgleich mit der Versorgung der Morel-Lavallée-Verletzung erfolgen. Breitspektrum-Cephalosporine in Kombination mit Aminoglykosiden oder Piperacillin/Tazobactam sollten zur antibiotischen Abdeckung eingesetzt werden.
Schlussfolgerung Radikales Débridement und Einlegen einer Drainage wird insbesondere bei spät diagnostizierter Morel-Lavallée-Verletzung empfohlen. Programmiert durchgeführte Ultraschalluntersuchungen sollten vom frakturumgebenden Weichteil erfolgen. Wenn die Morel-Lavallée-Verletzung innerhalb von 2 Tagen diagnostiziert wird, kann ein perkutanes Vorgehen mit zeitgleicher Fraktur- und Morel-Lavallée-Behandlung erfolgen. Bei verzögerter Diagnosestellung (> 2 Tage) sollte eine offene Behandlung im Sinne eines offenen Débridements, offener Frakturversorgung und bestenfalls Primärnaht durchgeführt werden.
"It’s a (Kinetic) Trap!" – Selectively Differentiating Allylic Azide
Isomers
Authors: Topczewski Joseph , Porter Matthew 
Published: April 2018

Allylic azides are known to undergo the Winstein rearrangement and are often isolated as an equilibrating mixture of isomers. While this process has been known for almost 60 years, very few synthetic applications of this process have been reported. The absence of methods exploiting these intermediates likely stems from a paucity of approaches for gaining the required selectivity to differentiate the isomers. Our lab has made some progress in leveraging this unusual reaction into practical synthetic methodology. Presented herein is a summary of our lab’s recent accomplishments in selectively trapping allylic azides.1	Introduction2	Background: Allylic Azides3	Dynamic Cyclization of Imidates4	Summary and Outlook
Beyond ideological platitudes: socialism and psychiatry in Eastern Europe
Authors: Savelli Mat 
Published: April 2018

AbstractFor both contemporaneous commentators and historians, psychiatry within what was Communist Europe has largely been discussed through the prism of politics and ideology. Recently, scholars have begun to debate the extent to which psychiatric practices within post-WWII Eastern Europe were beholden to the ideological aspirations of the political elite. This paper enters into these debates by suggesting the need for more nuance in how historians analyse the relationship between ideology and psychiatry in this context. Specifically, it argues that there is a need to differentiate between psychiatric practices that were socialist by design—where professional knowledge was theoretically guided by ideological considerations—and those that were socialist by default—where practices were shaped by the socialist context without being meaningfully inspired by ideology. In order to demonstrate these distinctions, this paper reflects upon psychiatric developments within Communist Yugoslavia (1945–1991). By drawing a clearer distinction between “socialist by design” and “socialism by default”, it becomes easier to reconnect Eastern Europe to the broader historiography of twentieth century psychiatry, while simultaneously providing new insights into the experience of state-sponsored Communism.
The impact of affectivity on the behaviour of Portuguese adolescents / El impacto de la afectividad en la conducta de los adolescentes portugueses
Authors: Santos-Lopes-Santos Ana-Cristina dos , García del Castillo José , Marzo Juan-Carlos 
Published: April 2018

The theoretical literature about affectivity shows its influence over positive and negative behaviour. This study analyses the impact of affectivity on the behaviour of Portuguese adolescents, as this knowledge is considered relevant to promoting skills and decreasing risky behaviours in adolescents. A total of 696 students ( M = 15.22 years old; SD = 1.4) participated in this study by responding to the PANAS-N (Positive and Negative Affect Schedule) and SDQ (Strengths and Difficulties Questionnaire). The former measures the level of affect while the latter measures prosocial behaviours, emotional symptoms and behavioural problems. The results showed that positive affect positively influences prosocial behaviour. Emotional symptoms and behaviour problems are negatively affected by positive affect, and positive symptoms and behaviours by negative affect. Moreover, boys had higher scores on behaviour problems, while girls had higher scores in prosocial behaviour and emotional symptoms. For these reasons, affectivity should be considered in programmes to reduce behaviour problems and emotional symptoms.
Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
Authors: Stapor Paul , Fröhlich Fabian , Hasenauer Jan 
Published: April 2018

Abstract

Motivation
Parameter estimation methods for ordinary differential equation (ODE) models of biological processes can exploit gradients and Hessians of objective functions to achieve convergence and computational efficiency. However, the computational complexity of established methods to evaluate the Hessian scales linearly with the number of state variables and quadratically with the number of parameters. This limits their application to low-dimensional problems.

Results
We introduce second order adjoint sensitivity analysis for the computation of Hessians and a hybrid optimization-integration-based approach for profile likelihood computation. Second order adjoint sensitivity analysis scales linearly with the number of parameters and state variables. The Hessians are effectively exploited by the proposed profile likelihood computation approach. We evaluate our approaches on published biological models with real measurement data. Our study reveals an improved computational efficiency and robustness of optimization compared to established approaches, when using Hessians computed with adjoint sensitivity analysis. The hybrid computation method was more than 2-fold faster than the best competitor. Thus, the proposed methods and implemented algorithms allow for the improvement of parameter estimation for medium and large scale ODE models.

Availability and implementation
The algorithms for second order adjoint sensitivity analysis are implemented in the Advanced MATLAB Interface to CVODES and IDAS (AMICI, https://github.com/ICB-DCM/AMICI/). The algorithm for hybrid profile likelihood computation is implemented in the parameter estimation toolbox (PESTO, https://github.com/ICB-DCM/PESTO/). Both toolboxes are freely available under the BSD license.

Supplementary information
Supplementary data are available at Bioinformatics online.