bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sample size calculation based on generalized linear models for differential expression analysis in RNA-seq data
Authors: Li Chung-I , Shyr Yu 
Published: November 2016

Abstract
As RNA-seq rapidly develops and costs continually decrease, the quantity and frequency of samples being sequenced will grow exponentially. With proteomic investigations becoming more multivariate and quantitative, determining a study’s optimal sample size is now a vital step in experimental design. Current methods for calculating a study’s required sample size are mostly based on the hypothesis testing framework, which assumes each gene count can be modeled through Poisson or negative binomial distributions; however, these methods are limited when it comes to accommodating covariates. To address this limitation, we propose an estimating procedure based on the generalized linear model. This easy-to-use method constructs a representative exemplary dataset and estimates the conditional power, all without requiring complicated mathematical approximations or formulas. Even more attractive, the downstream analysis can be performed with current R/Bioconductor packages. To demonstrate the practicability and efficiency of this method, we apply it to three real-world studies, and introduce our on-line calculator developed to determine the optimal sample size for a RNA-seq study.
An Organisational Study on the Effects of Intrinsic Customer Service Demands: A Perspective from Emotional Labour Theory
Authors: Babatunde Akanji 
Published: November 2016

Abstract
The purpose of this research is to examine employees’ views on adverse consequences caused by strict compliance to display rules of intrinsic labour demands as against its appropriate necessities within a call centre context. Using an interpretative phenomenological methodology for the study analysis, 25 semi-structured interviews were conducted with telephone agents working in a call centre outlet in Lagos state, Nigeria. Based on the emotional labour theory, enquires were made about general outcomes experienced from conforming to organisational rules of emotional management during customer service encounters. Findings confirmed that the adversarial impact of affective conformity tends to threaten the positive intentions of these mandatory components of service work. Thus, a proposed theoretical model emerged from the study’s interpretive accounts Based on these significant research findings, detailed practical implications were discussed on ways in which call centre businesses operating in a non-Western context can extenuate poor affective deliveries arising from mismanagement of emotional labour.
Distorted Facets of Marketing Ethics for Alcoholic Beer Marketing
Authors: Newaj Avinash , Damar-Ladkoo Adjnu 
Published: November 2016

Abstract
Marketing is the art of delivering value whilst ethical marketing is to provide this value through what is morally right. This new era customers are well informed, more knowledgeable, less vulnerable to unethical practices and cannot be easily manipulated by marketers. Many companies are thus, moving towards ethical marketing so as to develop trust among existing and new customers. Strict regulations by the Mauritian government have further forced marketers to act ethically; whereby the advertising of alcoholic beers has been banned. Yet, indirect strategies have been adopted by marketers so as to pave their way in this competitive industry. What are they? Are customers aware about them and are they influenced? Road accidents, social violence and health problems are associated to such malpractice. This study has shed light on the above and measures have been proposed for the benefit of customers, marketers and the government. This study was connected to the ethical theories.
Solving Strategic Paradoxes through Organizational Ambidexterity - A Foray into the Literature -
Authors: Ogrean Claudia 
Published: November 2016

Abstract
In a world of unprecedented (diachronic and synchronic) complexities like ours, firms are forced to deal with an increasing number of organizational paradoxes that challenge their strategic choices. Under these circumstances, ambidexterity could become a (dynamic) core competence for firms, making the ambidextrous organization an imperative for businesses more than ever before. The paper aims to explore, based on an integrative approach, the most relevant literature on the interdependencies between the two topics (strategic paradoxes and organizational ambidexterity), in order to identify the most important thesis, arguments and solutions that support the ambidextrous organization, four decades after its first introduction into the academic literature (Duncan, 1976).
On the Grammar of Referential Dependence
Authors: Hinzen Wolfram 
Published: November 2016

AbstractAll forms of nominal reference, whether quantificational, definite, rigid, deictic, or personal, require that the nominals in question appear in relevant grammatical configurations. Reference is in this sense a grammatical phenomenon. It is never determined lexically or a word-world relation in a purely semantic or causal sense. Here it is further argued that the principles of the grammar of object-reference naturally extend to cases where the reference of one nominal depends on that of another, i.e. the grammar of referential dependence, without any further special grammatical relations such as ‘binding’ required. This further includes a relation of (referential) identity.
The Many Uses of Predicates of Taste and the Challenge from Disagreement
Authors: Zeman Dan 
Published: November 2016

AbstractIn the debate between contextualism and relativism about predicates of taste, the challenge from disagreement (the objection that contextualism cannot account for disagreement in ordinary exchanges involving such predicates) has played a central role. This paper investigates one way of answering the challenge consisting on appeal to certain, less focused on, uses of predicates of taste. It argues that the said thread is unsatisfactory, in that it downplays certain exchanges that constitute the core disagreement data. Additionally, several arguments to the effect that the exchanges in question don’t amount to disagreement are considered and rejected.
Storage Management of Hazardous Containers Using the Genetic Algorithm
Authors: Yachba Khadidja , Gelareh Shahin , Bouamrane Karim 
Published: November 2016

AbstractThis work discusses the problem of dangerous containers storage in a container terminal. Container terminal represents an essential intermodal interfaces for global transportation network. Several materials handling possible to move containers at the port to better meet the needs of ships awaiting loading or unloading. Have a good organization of the terminal's container storage area requires a special effort. Containers search times can be considerable and lead to delays causing financial penalties for terminal management operators. An optimal location for a container in a terminal is very important for companies because this operation reduces transportation costs. In this article, we propose an approach for the placement problem of hazardous containers through the description of an optimization model to solve and optimize available storage space. The interest of this work is to develop a computer tool to enable the identification of the best location of a hazardous container using the Genetic Algorithm.
Ein Sack Rosinen
Authors: Kienzler Wolfgang 
Published: November 2016

Abstract
The article describes the way Wittgenstein tried to collect „all his good remarks“ within one book. The first such attempt is the Tractatus, the second attempt - which Wittgenstein could not complete - are the Investigations.The ‚Big Typescript’, however,was intended only as an instrument towards this latter aim. This aspect of Wittgenstein’s way of doing philosophy remained stable and it can help to throw light on various exegetical questions.
Survey and Surveyability
Authors: Majetschak Stefan 
Published: November 2016

Abstract
The concepts ‚Übersicht‘ (survey), ‚Übersichtlichkeit‘ (surveyability) and ‚Übersichtliche Darstellung‘ (surveyable representation) play a central role in Wittgenstein’s later philosophy. As Peter Hacker already noticed in 1972, an adequate English translation of these terms has “given Wittgenstein’s translators much trouble. They have chosen to translate it non-systematically in conformity with the demands of English style, thereby partially obscuring the significance and pervasiveness of the concept in Wittgenstein’s work, e. g. ‘command a clear view’ (Übersehen PI, § 122); ‘perspicious representation’ (Übersichtliche Darstellung PI, § 122); ‘synoptic account’ (Übersichtliche Darstellung Z, § 273); ‘Survey’ (Übersicht Z, § 273); ‘synoptic view’ (Übersichtlichkeit Z, § 464); ‘perspicuity’ (Übersichtlichkeit RFM, p. 45);² ‘capable of being taken in’ (Übersehbar RFM, p. 81)3.” (Hacker 1972: 113 f. fn. 3) Since then other translations have been added to Hacker’s list, i.e. ‘surview’ for ‘Übersicht’ (Hacker’s own choice) and ‘overview’ for ‘übersehen’ (cf. PI 2009: 122). In his discussion of the notion ‚Übersichtliche Darstellung’ Alois Pichler suggests that “synopsis” and “synoptic view” might be the best translations for what Wittgenstein had in mind using the terms ‚Übersicht’ and ‚Übersichtliche Darstellung’ (cf. Pichler 2004: 181). Recently the problem of how to adequately translate the German words in question into English is also discussed by Mathieu Marion (cf. Marion 2011: 138 f. fn. 4).
In what follows I shall argue - like Marion, but probably for different reasons - that the terms ‘survey’ (Übersicht), ‘surveyability’ (Übersichtlichkeit) and ‘surveyable representation’ (übersichtliche Darstellung) most adequately represent what Wittgenstein had in mind. As might become clear only this consistency in wording allows to grasp the connections in meaning Wittgenstein implicitly hints at, wherever he uses the terms ‘Übersicht’ and ‘Übersichtlichkeit’ in different parts of his ‘Nachlass’ and different periods of his philosophical development.
Photoreactivity of monofluorinated 2-azidobenzimidazoles towards carboxylic acids
Authors: Kanitz Nils Eckhard , Lindel Thomas 
Published: November 2016

Abstract
Aiming at the development of new photolabeling agents, the synthesis and photoreactivity of all monofluorinated derivatives of 2-azido-1-methylbenzimidazole are described. In the case of 4-, 5-, or 7-fluorination, irradiation in the presence of carboxylic acids (300 nm, Rayonet) afforded the monofluorinated 2-amino-6-acyloxybenzimidazoles in a regioselective manner, presumably after conversion of the initially formed nitrene to the N-cyanodiazaxylylene. Incorporation of chloride was also possible, and yields were comparable to those observed for the non-fluorinated parent compound. When blocking the reactive 6-position by a fluoro substituent, the title reaction was not possible. The analysis of the 19F NMR chemical shifts of the 5- and 7-monofluorinated products allowed the distinction between carboxylates and other nucleophiles.
Hypertrophy and Explosive-Reactive Functioning in Sedentary Men After 10 Weeks of Whole-Body Vibration
Authors: Ebing Jens , Gast Ulf , Hauptmann Christoph , Felsenberg Dieter , Belavý Daniel L. 
Published: November 2016

Abstract
Ebing, J, Gast, U, Hauptmann, C, Felsenberg, D, and Belavý, DL. Hypertrophy and explosive-reactive functioning in sedentary men after 10 weeks of whole-body vibration. J Strength Cond Res 32(1): 27–36, 2018—The objective of this study was to determine the impact of vertical (Power-plate; POW) and side-alternating (Galileo; GAL) whole-body vibration exercise on muscle mass and lower-limb neuromuscular function. Forty-three sedentary male subjects (18–30 year) randomized into 3 groups underwent 2 upper-body exercise sessions per week for 10 weeks. Two groups of subjects underwent additional squat exercises on the GAL (N = 15) or POW (N = 14) devices. The third group was control. On magnetic resonance imaging, volume of the thigh muscles was measured. Countermovement jump, multiple one-leg hopping, drop jump, landing test, 15-m sprint, and grip strength were performed. Measurements were performed at baseline, and at 5 and 10 weeks. Significantly greater increases in vasti volume were seen in the GAL (+4.15%; p = 0.00076 vs. control) and POW (+4.81%; p = 0.0074 vs. control) groups than in the control group (−1.22%) at 10 weeks. The adductor magnus volume increased in the GAL (+2.24%; p = 0.00038 vs. baseline) and POW (+2.33%; p = 0.00038 vs. baseline) groups at 10 weeks, but this was not significantly different from the control (−0.67%; p = 0.54 vs. baseline). Hamstring volume decreased in GAL (−1.85%; p = 0.00038 vs. baseline) at 5 weeks with the reduction in the POW group at 5 weeks (−1.73%; p = 0.17 vs. baseline) not reaching significance. There were no significant differences between the POW and GAL groups (p ≥ 0.084) and no significant changes in neuromuscular performance. Twice weekly squat exercises with whole-body vibration, progressing from 3- to 5-minute time under tension, lead to thigh muscle hypertrophy but no improvements in explosive-reactive function.
Rewiring of Signaling Networks Modulating Thermotolerance in the Human Pathogen Cryptococcus neoformans
Authors: Yang Dong-Hoon , Jung Kwang-Woo , Bang Soohyun , Lee Jang-Won , Song Min-Hee , Floyd-Averette Anna , Festa Richard A , Ianiri Giuseppe , Idnurm Alexander , Thiele Dennis J , Heitman Joseph , Bahn Yong-Sun 
Published: November 2016

Abstract
Thermotolerance is a crucial virulence attribute for human pathogens, including the fungus Cryptococcus neoformans that causes fatal meningitis in humans. Loss of the protein kinase Sch9 increases C. neoformans thermotolerance, but its regulatory mechanism has remained unknown. Here, we studied the Sch9-dependent and Sch9-independent signaling networks modulating C. neoformans thermotolerance by using genome-wide transcriptome analysis and reverse genetic approaches. During temperature upshift, genes encoding for molecular chaperones and heat shock proteins were upregulated, whereas those for translation, transcription, and sterol biosynthesis were highly suppressed. In this process, Sch9 regulated basal expression levels or induced/repressed expression levels of some temperature-responsive genes, including heat shock transcription factor (HSF1) and heat shock proteins (HSP104 and SSA1). Notably, we found that the HSF1 transcript abundance decreased but the Hsf1 protein became transiently phosphorylated during temperature upshift. Nevertheless, Hsf1 is essential for growth and its overexpression promoted C. neoformans thermotolerance. Transcriptome analysis using an HSF1 overexpressing strain revealed a dual role of Hsf1 in the oxidative stress response and thermotolerance. Chromatin immunoprecipitation demonstrated that Hsf1 binds to the step-type like heat shock element (HSE) of its target genes more efficiently than to the perfect- or gap-type HSE. This study provides insight into the thermotolerance of C. neoformans by elucidating the regulatory mechanisms of Sch9 and Hsf1 through the genome-scale identification of temperature-dependent genes.
Fixation Probability in a Haploid-Diploid Population
Authors: Bessho Kazuhiro , Otto Sarah P 
Published: November 2016

Abstract
Classical population genetic theory generally assumes either a fully haploid or fully diploid life cycle. However, many organisms exhibit more complex life cycles, with both free-living haploid and diploid stages. Here we ask what the probability of fixation is for selected alleles in organisms with haploid-diploid life cycles. We develop a genetic model that considers the population dynamics using both the Moran model and Wright–Fisher model. Applying a branching process approximation, we obtain an accurate fixation probability assuming that the population is large and the net effect of the mutation is beneficial. We also find the diffusion approximation for the fixation probability, which is accurate even in small populations and for deleterious alleles, as long as selection is weak. These fixation probabilities from branching process and diffusion approximations are similar when selection is weak for beneficial mutations that are not fully recessive. In many cases, particularly when one phase predominates, the fixation probability differs substantially for haploid-diploid organisms compared to either fully haploid or diploid species.
Variability in a Short Tandem Repeat Mediates Complex Epistatic Interactions in Arabidopsis thaliana
Authors: Press Maximilian Oliver , Queitsch Christine 
Published: November 2016

Abstract
Short tandem repeats (STRs) are hypervariable genetic elements that occur frequently in coding regions. Their high mutation rate readily generates genetic variation, contributing to adaptive evolution and human diseases. We previously reported that natural ELF3 polyglutamine variants cause reciprocal genetic incompatibilities in two divergent Arabidopsis thaliana backgrounds. Here, we dissect the genetic architecture of this incompatibility, revealing as many as four loci putatively interacting with ELF3. We were able to specifically identify one such ELF3-interacting gene, LSH9. We further used a yeast two-hybrid strategy to identify proteins whose physical interactions with ELF3 were affected by polyglutamine tract length. We found two proteins for which this was the case, ELF4 and AtGLDP1. Using these two approaches, we identify specific genetic interactions and physical mechanisms by which the ELF3 polyglutamine tract may mediate the observed genetic incompatibilities. Our work elucidates how STR variation, which is generally underascertained in population-scale sequencing, can contribute to phenotypic variation. Furthermore, our results support our proposal that highly variable STR loci can contribute to the epistatic component of heritability.
A New Mechanism for Mendelian Dominance in Regulatory Genetic Pathways: Competitive Binding by Transcription Factors
Authors: Porter Adam H , Johnson Norman A , Tulchinsky Alexander Y 
Published: November 2016

Abstract
We report a new mechanism for allelic dominance in regulatory genetic interactions that we call binding dominance. We investigated a biophysical model of gene regulation, where the fractional occupancy of a transcription factor (TF) on the cis-regulated promoter site it binds to is determined by binding energy (–ΔG) and TF dosage. Transcription and gene expression proceed when the TF is bound to the promoter. In diploids, individuals may be heterozygous at the cis-site, at the TF’s coding region, or at the TF’s own promoter, which determines allele-specific dosage. We find that when the TF’s coding region is heterozygous, TF alleles compete for occupancy at the cis-sites and the tighter-binding TF is dominant in proportion to the difference in binding strength. When the TF’s own promoter is heterozygous, the TF produced at the higher dosage is also dominant. Cis-site heterozygotes have additive expression and therefore codominant phenotypes. Binding dominance propagates to affect the expression of downstream loci and it is sensitive in both magnitude and direction to genetic background, but its detectability often attenuates. While binding dominance is inevitable at the molecular level, it is difficult to detect in the phenotype under some biophysical conditions, more so when TF dosage is high and allele-specific binding affinities are similar. A body of empirical research on the biophysics of TF binding demonstrates the plausibility of this mechanism of dominance, but studies of gene expression under competitive binding in heterozygotes in a diversity of genetic backgrounds are needed.
São Tomé e Príncipe: reflexões sobre alguns aspectos de sua história agrícola no pós-independência
Authors: Berthet Marina 
Published: November 2016

O artigo proposto para o dossiê apresenta reflexões sobre aspectos da história agrícola do país no momento da independência e no pós-independência. A perspectiva escolhida apresentou-se como pertinente para refletir sobre a política do país durante as décadas que seguiram a Independência. As relações estabelecidas entre os membros do governo independente e os trabalhadores agrícolas, as ambivalências do discurso político governamental no momento da nacionalização das terras e sua distribuição são abordados aqui para um balanço sobre a Independência com data oficial de comemoração em 12 de julho de 1975. Procuro demonstrar que as diversas propostas políticas aplicadas ao setor agrícola levaram a uma acentuação da invisibilidade de minorias – principalmente a mão de obra imigrante – que são eventualmente reconhecidas como atores chaves da história agrícola de São Tomé e Príncipe. A gestão da distribuição da terra após a nacionalização do território provocou tensões sociais que acirraram reivindicações identitárias e evidenciaram a consolidação de determinados atores sociais na esfera do poder político. Notas de trabalhos de campo efetuados em 1999-2000 e 2003-2004 e algumas fontes primárias e secundárias enriquecem o texto de informações e auxiliam na argumentação das principais ideias.
Moçambique 41 anos Depois: ‘Crónica’ de uma Imaturidade Política
Authors: Khan Sheila 
Published: November 2016

O presente ensaio procura pensar Moçambique nos 41 anos da sua independência. Fruto de uma hegemonia política personificada pela FRELIMO, Moçambique vive hoje o assombro das hostilidades militares com a RENAMO. Num jogo inoperativo de negociações e mediações, a maturidade que outrora se celebrou caiu perante uma realidade desassossegada com questões relacionadas com corrupção, dívidas ocultas e uma grande resistência de, efetivamente, se aceitar a democracia.
Building a Business Case for EBVM
Authors: Jackson Elizabeth , Hauser Sarah 
Published: November 2016

<p>The clinical benefits of EBVM are clear however the business case for EBVM requires development. We aim to expand the adoption of EBVM amongst UK veterinary practices by identifying its improvement to practice performance...</p><p>This is a podcast of Elizabeth Jackson and Sarah Hauser’s talk at the Veterinary Evidence Today conference, Edinburgh November 2, 2016.</p><p> </p><p><a title="Jackson and Hauser's podcast" href="/index.php/ve/article/view/70/92" target="_self"><img src="/public/site/images/bridget/Elizabeth-Jackson--Sarah-Hauser-audioplayer.png" alt="" /></a></p><br /> <img src="https://www.veterinaryevidence.org/rcvskmod/icons/oa-icon.jpg" alt="Open Access" />
Eligio Ancona y Justo Sierra O’Reilly: una afinidad electiva
Authors: Sol Tlachi Manuel 
Published: November 2016

Después de señalar algunas características de la narrativa de Eligio Ancona, que permiten inscribirlo dentro de la novela del Romanticismo, y la admiración que sentía por la obra histórica y novelística de Justo Sierra O’Reilly,se apunta y precisa, con algunos ejemplos, la presencia del pensamiento y de algunas técnicas narrativas de Sierra O’Reilly (La hija del judío, Los indios de Yucatán, etc.) en novelas de Eligio Ancona como La Cruz y la Espada, El filibustero y El Conde de Peñalva. Impronta que permite considerar a Eligio Ancona no sólo como un discípulo sino como un “alumno” de Justo Sierra O’Reilly, que dejó al margen la novela costumbrista para dedicarse a la novela histórica.