bluuebunny/crossref_metadata_2025_split huggingface dataset:
DUBS: A Framework for Developing Directory of Useful Benchmarking Sets for Virtual Screening
Authors: Fine Jonathan , Muhoberac Matthew , Fraux Guillaume , Chopra Gaurav 
Published: February 2020

AbstractBenchmarking is a crucial step in evaluating virtual screening methods for drug discovery. One major issue that arises among benchmarking datasets is a lack of a standardized format for representing the protein and ligand structures used to benchmark the virtual screening method. To address this, we introduce the Directory of Useful Benchmarking Sets (DUBS) framework, as a simple and flexible tool to rapidly created benchmarking sets using the protein databank. DUBS uses a simple input text based format along with the Lemon data mining framework to efficiently access and organize data to protein databank and output commonly used inputs for virtual screening software. The simple input format used by DUBS allows users to define their own benchmarking datasets and access the corresponding information directly from the software package. Currently, it only takes DUBS less than 2 minutes to create a benchmark using this format. Since DUBS uses a simple python script, users can easily modify to create more complex benchmarks. We hope that DUBS will be a useful community resource to provide a standardized representation for benchmarking datasets in virtual screening.
rG4-seeker enables high-confidence identification of novel and non-canonical rG4 motifs from rG4-seq experiments
Authors: Chow Eugene Yui-Ching , Lyu Kaixin , Kwok Chun Kit , Chan Ting-Fung 
Published: February 2020

ABSTRACTWe recently developed the rG4-seq method to detect and map in vitro RNA G-quadruplex (rG4s) structures on a transcriptome-wide scale. rG4-seq of purified human HeLa RNA has revealed many non-canonical rG4s and the effects adjacent sequences have on rG4 formation. In this study, we aimed to improve the outcomes and false-positive discrimination in rG4-seq experiments using a bioinformatic approach. By establishing connections between rG4-seq library preparation chemistry and the underlying properties of sequencing data, we identified how to mitigate indigenous sampling errors and background noise in rG4-seq. We applied these findings to develop a novel bioinformatics pipeline named rG4-seeker(https://github.com/TF-Chan-Lab/rG4-seeker), which uses tailored noise models to autonomously assess and optimize rG4 detections in a replicate-independent manner. Compared with previous methods, rG4-seeker exhibited better false-positive discrimination and improved sensitivity for non-canonical rG4s. Using rG4-seeker, we identified novel features in rG4 formation that were missed previously. rG4-seeker provides a reliable and sensitive approach for rG4-seq investigations, laying the foundations for further elucidation of rG4 biology.
Notes on mating behaviour and a possible new host plant for Megacyllene angulata (Fabricius, 1775) (Cerambycidae, Coleoptera)
Authors: Nascimento Francisco  Eriberto De Lima , Mendes Diego Matheus De Mello , Silva Neto Alberto Moreira da 
Published: February 2020

The mating behavior of M. angulata (Fabricius, 1775) is described, illustrated and discussed. Additionally, we also comment on the possible new host plant of this species based on two plants (Luehea cymulosa Spruce ex Benth. (Malvaceae) and Doliocarpus dentatus (Aubl.) Standl (Dilleniaceae) on which copulation occurs.
Clinical signs associated with a case of iatrogenic poisoning by a turpentine-based commercial product in a 3-day-old foal
Authors: Briceño Abelardo Morales , Al Mahrouqi Hilal , Al Kayyoomi Abdallah , Oliva Harmon , Brewer Kimberly , Tobin Thomas 
Published: February 2020

The aim of this study is to report a case of iatrogenic poisoning by a turpentine-based commercial product in a 3-day-old foal and the successful treatment of this condition. A 3-day-old male foal presented with acute cardio-respiratory collapse, anaphylactic shock, severe respiratory distress, dyspnea and pulmonary edema. The animal’s history included previous administration of a commercial veterinary product (UNITIPAN). Clinical examination revealed: temperature: (39.9 °C), pulse: 135 bpm, respiration: 51 bpm, mucous membranes: moist and congested, capillary refill time: 3 sec or less. The foal was treated with emergency hydration, duphalyte, steroidal anti-inflammatory, atropine sulphate and antibiotic. After 6 h of treatment, the foal was stabilized and vital signs were normalized 8 h after treatment start.
Gerenciamento de riscos à reputação no discurso dos relatórios corporativos da Samarco
Authors: Oliveira José Alex Nobrega de , Cintra Yara Consuelo 
Published: February 2020

O objetivo desta pesquisa é investigar a influência do reputation risk management (RRM) sobre o disclosure de relatórios corporativos, em especial dos relatórios de sustentabilidade. Foram analisados os relatórios da mineradora Samarco – responsável pela barragem de Fundão, em Mariana, Minas Gerais, Brasil, objeto do acidente ocorrido em novembro de 2015. O período avaliado foi 2010 a 2016, tendo o último relatório contemplado o desastre e seus impactos ambientais e sociais. A análise de conteúdo dos relatórios sugere uso dos relatórios socioambientais como instrumento de RRM por meio da análise de elementos de reputação selecionados e da aplicação de uma tipologia de restauração de imagem. Os achados contribuem para a compreensão dos determinantes do disclosure socioambiental, ampliando o espectro da teoria da legitimidade, agregando a componente reputação e o gerenciamento de riscos à reputação.
Contesting the Culture Order: Contrastive Pragmatics in Action
Authors: Holmes Janet , Vine Bernadette , Marra Meredith 
Published: February 2020

Abstract
Contrastive pragmatics encourages a focus on variation in the ways that different groups enact their distinctive cultural values and norms. In New Zealand, Pākehā (European-based) ways of doing things are the norm, taken-for-granted and rarely questioned or even noted unless someone “breaks the rules”. For minority group members, however, including the indigenous Māori people, Pākehā norms are ever-present reminders of their non-dominant position. In the Māori workplace contexts that we have researched, awareness of these norms is particularly apparent and often attracts explicit comment. This paper explores the insights provided by comments from both Pākehā and Māori about workplace norms in New Zealand and the attitudes of some Māori employees to the hegemonic influence of Pākehā in workplace interaction, as well as providing some indications of seeds of change.
<p align="left"><strong>Allocation of nomina to taxa in zoological nomenclature</strong></p>
Authors: DUBOIS ALAIN 
Published: February 2020

This paper explores two aspects of the question of the allocation of nomina to taxa in zoological nomenclature. The widespread belief that this allocation is effected only through onomatophores (‘types’) is shown to be wrong: if onomatophores only were involved, each zoological nomen would apply to all the taxa including the specimen(s) designated as onymophoront of each species-series nomen, up to the animal kingdom. Onomatophores do not provide the limit(s) of the taxon/taxa to which they apply. These limits are provided by two other pieces of information: the nominal-series to which the nomen of a taxon is assigned and the onomatostasis of this nomen, i.e. the onomatophore of the sister-taxon of the taxon under consideration. In species-, genus- and family-series nomenclature, the onomatostasis of a nomen is not fixed but depends on the ergotaxonomy (working classification) adopted, which is ideally based on at least one accepted phylogenetic hypothesis. The situation is more complex in the class-series nomenclature. So far, the stages of taxonomic allocation and nomenclatural validity in this nomenclature have not been regulated by formal Rules shared by all zootaxonomists, so that chaos and miscommunication are in order regarding the Criteria to be used in these domains, which is detrimental to zoological nomenclature and its perception by the international scientific community. The adoption of clear and strict Rules in this respect appears as an urgent need. These Rules should allow both to provide clear objective Criteria for the allocation of class-series nomina to taxa, but also to validate the few very well known and consensually adopted class-series nomina (pansozonyms). For this purpose, five possible nomenclatural systems of allocation of nomina are compared. The best solution appears to have two different systems, one for almost all nomina (distagmonyms), and one only for pansozonyms. The latter system relies on a special kind of onomatostases, which are fixed and do not depend on the classification adopted: this allows to attach permanently these nomina to some well-known higher taxa, whatever changes are brought to the cladistic hypotheses and ergotaxonomic frames.
Transient expression of SbDhr2 and MeHNL in Gossypium hirsutum for herbivore deterrence assay with Spodoptera litura
Authors: MAHAJAN Chavi , NASER Rafiuddin , GUPTA Shantikumar 
Published: February 2020

Abstract
Background
Spodoptera litura (Lepidoptera: Noctuidae), commonly known as tobacco cutworm or cotton leafworm, is a polyphagous pest which causes considerable damage to cotton (Gossypium hirsutum) and other crops. Herbivore-induced defence response is activated in plants against chewing pests, in which plant secondary metabolites play an important role. Dhurrinase2 (SbDhr2), a cyanogenic β-glucosidase from Sorghum bicolor, is the key enzyme responsible for the hydrolysis of dhurrin (cyanogenic β-glucosidic substrate) to p-hydroxymandelonitrile. Hydroxynitrile lyase (MeHNL) from Mannihot esculanta catalyses the dissociation of cyanohydrins to hydrogen cyanide and corresponding carbonyl compound, both enzymes play a pivotal role in plant defence mechanism.

Results
SbDhr2 and MeHNL genes were expressed individually and co-expressed transiently in cotton leaves. We examined the feeding response of S. litura to leaves in the choice assay. The S. litura population used in this study showed better feeding deterrence to leaves co-expressing both genes compared with the expression of an individual gene.

Conclusion
Our results suggest that co-expression of SbDhr2 and MeHNL genes in cotton leaves demonstrate feeding deterrence to S. litura. Engineering cyanogenic pathway in aerial parts of cotton would be an additional defence strategy against generalist pests and can be enhanced against specialist pests.
Diários de aula como estratégia de reflexão na formação e prática docente
Authors: Sivieri-Pereira Helena de Ornellas , Lopes Dennis Gabiatti , Silva Nathália Beatriz Fontes 
Published: February 2020

Este artigo nasce dos resultados de uma pesquisa maior que objetivou identificar a relação que o professor estabelece entre suas dimensões pessoais (identidade) e as dimensões profissionais (identidade docente) na sua formação e na sua prática, através da reflexão sobre sua ação diária. Neste momento da pesquisa, o objetivo era identificar e descrever os processos reflexivos observados sobre a ação prática do professor, bem como os caminhos percorridos na formação e constituição da identidade profissional. Para tal foi utilizada a metodologia de redação de diários de aula, embasados, primordialmente, no referencial teórico da Zabalza. Os diários foram desenvolvidos por cinco docentes durante três meses em um semestre letivo, com posterior reflexão dos relatos a partir de um roteiro apresentado a eles pelos pesquisadores. Os dados, analisados pela técnica de Análise de Conteúdo, segundo Bardin, revelaram cinco categorias que explicitaram sobre os saberes da prática docente, os processos reflexivos, a formação do professor e a constituição de sua identidade profissional. Os resultados mostraram que a metodologia utilizada (diários de aula) foi eficiente no sentido de permitir um espaço destinado à reflexão, como forma de construir uma prática eficaz e condizente com as questões pessoais do profissional. As reflexões feitas pelos professores indicam que vivem as complexidades da profissão como uma grande carga a se carregar tendo ideias inacabadas sobre estratégias de enfrentamento das mesmas.
Redefining risk: Human rights and elementary school factors predicting post-secondary access
Authors: Brown Robert S. , Gallagher-Mackay Kelly , Parekh Gillian 
Published: February 2020

While there is a widespread consensus that students’ pathways towards postsecondary education are influenced early in life, there is little research on the elementary school factors that shape them. Identifying educational ‘risk factors’ directs attention to barriers that may warrant scrutiny or action under human rights legislation. New findings from a unique, longitudinal data set collected and developed by the Toronto District School Board highlights key factors, established in elementary school, as to how many students do not enter into post-secondary studies in Ontario. The majority of students suspended at any time, students in self-contained special education programs, and/or students who missed more than 10% of classes in grade 4 do not go on to PSE. These organizational factors are more predictive of students’ acceptance to PSE than individualized measures of preschool readiness, academic achievement in grade 3, race or parental education. These structural ‘risks’ are strongly correlated with of race and disability. In light of research that identifies promising, evidence-based practices available to reduce these risks, breaking down these barriers should be a priority from the perspective of improving PSE access and overcoming what may well amount to systemic discrimination.
A Matlab toolbox for analyzing repetitive movements: application in gait and tapping experiments
Authors: Kirlangic Mehmet Eylem , Al-Qadhi Safwan , Hauptmann Christian , Freund Hans-Joachim 
Published: February 2020

Abstract
Coordination and timing in repetitive movements have been intensively investigated in diverse experimental settings for understanding the underlying basic mechanisms in healthy controls. On this basic research side, there are mainly two theoretical models: the Wing-Kristofferson (WK) model and the Haken-Kelso-Bunz (HKB) model. On the clinical side of the research, several efforts have been spent on quantitatively assessing gait and other repetitive movements such as tapping, especially as an outcome measure of clinical trials in diverse neurological disorders. Nevertheless, Parkinson’s disease (PD) remains the predominant disorder in the clinical literature in this context, as the tremor activity and the changes in the gait are both common symptoms in PD. Although there are motion recording systems for data acquisition in clinical settings, the tools for analysis and quantification of the extracted time-series offered by these systems are severely restricted. Therefore, we introduce a toolbox which enables the analysis of repetitive movements within the framework of the two main theoretical models of motor coordination, which explicitly focuses on varying clinical and experimental settings such as self-paced vs. cued or uni-manual vs. bi-manual measurements. The toolbox contains particular pipelines for digital signal processing. Licensed under the GNU General Public License (GNU-GPL), the open source toolbox is freely available and can be downloaded from the Github link: https://github.com/MehmetEylemKirlangic/RepetitiveMovementAnalysis. We illustrate the application of the toolbox on sample experiments of gait and tapping with a control subject, as well as with a Parkinson’s patient. The patient has gone through a brain surgery for deep brain stimulation (DBS); hence, we present the results for both stimulation ON and stimulation OFF modes. Sample data are freely accessible at: https://github.com/MehmetEylemKirlangic/DATA.
Generalizing Productivity and Service Stake. A Heterodox Widened Approach
Authors: Jivan Alexandru , Năchescu Miruna-Lucia 
Published: February 2020

Abstract
The aim of the present paper is to put together, point out and underline the core characteristics of a generalized concept of productivity built on a heterodox outlook. The analysis is conducted under the assumption that the developing knowledge in nowadays society and the concern for basing the economy on it require a reviewed approach on productivity. Relevant moments from the economic thought and literature are invoked(certain approaches on productivity from the most representative Romanian economic thought here included); the research finds reason and main conceptual grounds in the genuine liberalism and in the service economy, by a critical view on the concern for productivity growth as commonly seen and calculated. The paper also aims to bring to the current attention some pioneer work, less known but very important for the productivity mark. The paper develops the service stake as defining value creation and reveals the most important differences between common productivity (usually calculated productivity) and the new approach that takes into account the generalized service approach consistent with nowadays society.
This paper is a theoretical presentation designed to serve as an improved context for reconsidering the researches focused on – or connected with – productivity.
Theoretical and Methodological Context of (Post)-Modern Econometrics and Competing Philosophical Discourses for Policy Prescription
Authors: Jackson Emerson Abraham 
Published: February 2020

Abstract
This research article was championed as a way of providing discourses pertaining to the concept of “Critical Realism (CR)” approach, which is amongst many other forms of competing postmodern philosophical concepts for the engagement of dialogical discourses in the area of established econometric methodologies for effective policy prescription in the economic science discipline. On the whole, there is no doubt surrounding the value of empirical endeavours in econometrics to address real world economic problems, but equally so, the heavy weighted use and reliance on mathematical contents as a way of justifying its scientific base seemed to be losing traction on the intended focus of economics when it comes to confronting real world problems in the domain of social interaction. In this vein, the construction of mixed methods discourse(s), which favour that of CR philosophy is hereby suggested in this article as a way forward in confronting with issues raised by critics of mainstream economics and other professionals in the postmodern era.
Comparison of strain and dyssynchrony measurements in fetal two-dimensional speckle tracking echocardiography using Philips and TomTec
Authors: Köster Helen Ann , Hammer Kerstin , Braun Janina , Oelmeier de Murcia Kathrin , Möllers Mareike , Klockenbusch Walter , Schmitz Ralf 
Published: February 2020

AbstractBackgroundThe aim of this study was to compare Philips and TomTec two-dimensional speckle tracking echocardiography (2D-STE) software measurements of strain and dyssynchrony values in healthy fetuses.MethodsThis was an explorative observational study in which the echocardiographic data of 93 healthy fetuses between the 20thand 38thweek of gestation were determined from a four-chamber view using 2D speckle tracking. The global and segmental longitudinal strain values of both ventricles, inter-ventricular and left intra-ventricular dyssynchrony were analyzed using QLab version 10.8 (Philips Medical Systems, Andover, MA, USA) and TomTec-Arena version 2.30 (TomTec, Unterschleißheim, Germany).ResultsTomTec showed persistently lower values for all of the assessed strain and dyssynchrony variables. For all variables, the bias between vendors tended to increase with gestational age, though not to a significant extent. Left ventricular dyssynchrony and longitudinal strain within the mid segment of the septum correlated best between vendors; however, the limits of agreement were wide in both cases. None of the variables assessed in the two-chamber view compared well between QLAB and TomTec.ConclusionSpeckle tracking software cannot be used interchangeably between vendors. Further investigations are necessary to standardize fetal 2D-STE.
Photonic spin Hall effect on the surfaces of type-I and type-II Weyl semimetals
Authors: Jia Guang Yi , Huang Zhen Xian , Ma Qiao Yun , Li Geng 
Published: February 2020

Abstract
Topological optics is an emerging research area in which various topological and geometrical ideas are being proposed to design and manipulate the behaviors of photons. Here, the photonic spin Hall effect on the surfaces of topological Weyl semimetal (WSM) films was studied. Our results show that the spin-dependent splitting (i.e. photonic spin Hall shifts) induced by the spin-orbit interaction is little sensitive to the tilt αt
of Weyl nodes and the chemical potential μ in type-I WSM film. In contrast, photonic spin Hall shifts in both the in-plane and transverse directions present versatile dependent behaviors on the αt
and μ in type-II WSM film. In particular, the largest in-plane and transverse spin Hall shifts appear at the tilts between −2 and −3, which are ~40 and ~10 times of the incident wavelength, respectively. Nevertheless, the largest spin Hall shifts for type-II WSM film with positive αt
are only several times of incident wavelength. Moreover, the photonic spin Hall shifts also exhibit different variation trends with decreasing the chemical potential for different signs of αt
in type-II WSM films. This dependence of photonic spin Hall shifts on tilt orientation in type-II WSM films has been explained by time-reversal-symmetry-breaking Hall conductivities in WSMs.
Monolayer MoS2 for nanoscale photonics
Authors: Yang Xianguang , Li Baojun 
Published: February 2020

Abstract
Transition metal dichalcogenides are two-dimensional semiconductors with strong in-plane covalent and weak out-of-plane interactions, resulting in exfoliation into monolayers with atomically thin thickness. This creates a new era for the exploration of two-dimensional physics and device applications. Among them, MoS2 is stable in air and easily available from molybdenite, showing tunable band-gaps in the visible and near-infrared waveband and strong light-matter interactions due to the planar exciton confinement effect. In the single-layer limit, monolayer MoS2 exhibits direct band-gaps and bound excitons, which are fundamentally intriguing for achieving the nanophotonic and optoelectronic applications. In this review, we start from the characterization of monolayer MoS2 in our group and understand the exciton modes, then explore thermal excitons and band renormalization in monolayer MoS2. For nanophotonic applications, the recent progress of nanoscale laser source, exciton-plasmon coupling, photoluminescence manipulation, and the MoS2 integration with nanowires or metasurfaces are overviewed. Because of the benefits brought by the unique electronic and mechanical properties, we also introduce the state of the art of the optoelectronic applications, including photoelectric memory, excitonic transistor, flexible photodetector, and solar cell. The critical applications focused on in this review indicate that MoS2 is a promising material for nanophotonics and optoelectronics.