bluuebunny/crossref_metadata_2025_split huggingface dataset:
blkbox: Integration of multiple machine learning approaches to identify disease biomarkers
Authors: Guennewig Boris , Davies Zachary , Pinese Mark , Cooper Antony A 
Published: April 2017

AbstractMotivationMachine learning (ML) is a powerful tool to create supervised models that can distinguish between classes and facilitate biomarker selection in high-dimensional datasets, including RNA Sequencing (RNA-Seq). However, it is variable as to which is the best performing ML algorithm(s) for a specific dataset, and identifying the optimal match is time consuming. blkbox is a software package including a shiny frontend, that integrates nine ML algorithms to select the best performing classifier for a specific dataset. blkbox accepts a simple abundance matrix as input, includes extensive visualization, and also provides an easy to use feature selection step to enable convenient and rapid potential biomarker selection, all without requiring parameter optimization.ResultsFeature selection makes blkbox computationally inexpensive while multi-functionality, including nested cross-fold validation (NCV), ensures robust results. blkbox identified algorithms that outperformed prior published ML results. Applying NCV identifies features, which are utilized to gain high accuracy.AvailabilityThe software is available as a CRAN R package and as a developer version with extended functionality on github (https://github.com/gboris/blkbox).Contactb.guennewig@garvan.org.au
Modelling Theta-Band Connectivity Between Occipital and Frontal Lobes: A Methodological MEG Study
Authors: Price Darren , Brookes Matthew J. , Liddle Elizabeth B. , Liddle Peter F. , Palaniyappan Lena , Morris Peter G. 
Published: April 2017

AbstractMeasuring functional connectivity between cortical regions of the human brain has become an important area of research. Modern theory suggests that brain networks exhibit non-stationarity, constantly forming and reforming depending on task demands. A robust means of determining effective connectivity in the short-lived neural responses that occur in event related paradigms would allow the investigation of event related cortico-cortical dynamics. We present such a mathematical model of wave propagation, motivated by current neuroscience literature, and demonstrate the utility of the method in a clinical sample of schizophrenia patients. MEG data were acquired in 10 patients with schizophrenia and 12 healthy controls during a relevance modulation task. Data were filtered into the theta band (4-8Hz) and source localised using a beamformer. The model was implemented using Fourier analysis methods which uncovered an event related travelling wave moving from the visual to frontal cortices. The model was validated using Monte Carlo phase randomisation and compared with another plausible model of wave propagation in the cortex. Results from the clinical sample revealed that wave speed was modulated by task condition and patients were found to have less difference between conditions (ANOVA revealing a significant interaction between group and condition, p<0.05). In conclusion, our method provides a simple and robust means to investigate event related cortico-cortical brain dynamics in individuals and groups in the task positive state.
Dynamic post-transcriptional regulation during embryonic stem cell differentiation
Authors: van den Berg Patrick R. , Budnik Bogdan , Slavov Nikolai , Semrau Stefan 
Published: April 2017

SummaryDuringin vitrodifferentiation, pluripotent stem cells undergo extensive remodeling of their gene expression profile. While studied extensively at the transcriptome level, much less is known about protein dynamics. Here, we measured mRNA and protein levels of 7459 genes during differentiation of embryonic stem cells (ESCs). This comprehensive data set revealed pervasive discordance between mRNA and protein. The high temporal resolution of the data made it possible to determine protein turnover rates genome-wide by fitting a kinetic model. This model further enabled us to systematically identify dynamic post-transcriptional regulation. Moreover, we linked different modes of regulation to the function of specific gene sets. Finally, we showed that the kinetic model can be applied to singlecell transcriptomics data to predict protein levels in differentiated cell types. In conclusion, our comprehensive data set, easily accessible through a web application, is a valuable resource for the discovery of post-transcriptional regulation in ESC differentiation.
HiPiler: Visual Exploration of Large Genome Interaction Matrices with Interactive Small Multiples
Authors: Lekschas Fritz , Bach Benjamin , Kerpedjiev Peter , Gehlenborg Nils , Pfister Hanspeter 
Published: April 2017

AbstractThis paper presents an interactive visualization interface—HiPiler—for the exploration and visualization of regions-of-interest in large genome interaction matrices. Genome interaction matrices approximate the physical distance of pairs of regions on the genome to each other and can contain up to 3 million rows and columns with many sparse regions.Regions of interest(ROIs) can be defined, e.g., by sets of adjacent rows and columns, or by specific visual patterns in the matrix. However, traditional matrix aggregation or pan-and-zoom interfaces fail in supporting search, inspection, and comparison of ROIs in such large matrices. In HiPiler, ROIs are first-class objects, represented as thumbnail-like “snippets”. Snippets can be interactively explored and grouped or laid out automatically in scatterplots, or through dimension reduction methods. Snippets are linked to the entire navigable genome interaction matrix through brushing and linking. The design of HiPiler is based on a series of semi-structured interviews with 10 domain experts involved in the analysis and interpretation of genome interaction matrices. We describe six exploration tasks that are crucial for analysis of interaction matrices and demonstrate how HiPiler supports these tasks. We report on a user study with a series of data exploration sessions with domain experts to assess the usability of HiPiler as well as to demonstrate respective findings in the data.
Audience development: a cross-national comparison
Authors: Cuenca-Amigo Macarena , Makua Amaia 
Published: April 2017

Purpose
The purpose of this paper is to review the concept of audience development, analysing differences between a number of countries and identifying common elements that underlie the concept regardless of the context.

Design/methodology/approach
In addition to the literature review, fieldwork has been conducted in the UK, Denmark, Italy, and Spain applying qualitative methodology. The study has been structured in two phases. The first phase comprised 26 in-depth interviews with European experts in audience development while the second phase consisted of six focus groups with European experts.

Findings
The paper reveals differences between countries, ranging from the definition of the term audience development to the approach undertaken. Despite this, a number of aspects, independent of the context and considered key to a successful audience development, are identified. These aspects are related to the consideration of the development of audiences as a transversal long-term strategy supported by the top management of the organisation.

Originality/value
The value provided is twofold. First, thanks to the empirical data used, the paper analyses the socio-cultural aspects that affect the emergence of country-specific approaches to audience development and it individuates general features and ideas that contribute to the better understanding of the concept itself. Second, it is one of the few academic works carried out in Spain on this issue.
Effects of human capital on the relationship between export and firm innovation
Authors: Liu Guangqiang , Pang Lirang , Kong Dongmin 
Published: April 2017

PurposeThis study aims to examine the effects of human capital, such as top managers and employees, on the relationship between export and firm innovation. Although the issue of how firms remain creative and competitive in international markets is important both in practice and in research, little attention has been devoted to the internal mechanism through which export affects innovation.Design/methodology/approachUsing a hand-collected data set of human capital on the overseas experiences of managers and educational levels of employees as the basis, this study utilizes Chinese A-share listed firms from 2006 to 2015 to test the research questions through regression analyses.FindingsFirst, export significantly enhances firm innovation. Second, different types of human capital exhibit different moderating and mediating effects. Specifically, returnee managers play positive moderating and mediating roles on the relationship between export and innovation, whereas highly educated employees exhibit negative moderating effects and no mediating effect. Third, to address potential endogeneity, the authors construct novel instrumental variables of export and human capital and use the two-stage least-squares method to identify causality.Originality/valueThis study provides direct policy implications by showing the roles of export and human capital in innovation, thereby guiding the management practices of firms and talent policies of governments.
Performance aspiration, industrial search and R&D investment among chinese firms
Authors: Su Yiyi , Su Taoyong 
Published: April 2017

PurposeThis paper aims to examine the behavioral determinants of firm research and development (R&D) investment in China by looking into the interaction between performance aspiration and industrial search.Design/methodology/approachThe author argues that the performance aspiration effect is strengthened in R&D-intensive industries based on the isomorphism rationale, whereas it is weakened by high industry R&D intensity owing to the differentiation rationale. Deriving from the isomorphism and differentiation rationales, the author developed a set of competitive hypotheses and empirically tested them by using a large panel data of 6,539 company-years from China for the period 2001-2003.FindingsFirst, R&D intensity is positively related to the deviation of firm performance from aspiration. Second, industry R&D intensity negatively moderates the relationship between performance aspiration and firm R&D intensity for firms performing above aspiration. Therefore, the results provide support for the differentiation rationale.Originality/valueThe study contributes to the ongoing research that provides and tests the behavioral explanations for R&D and innovation. By delving into the moderating role of industry R&D intensity, the author advocate the need for contextualizing performance aspiration in industrial environments. The study informs policymakers and business leaders about the interaction between the external environment and internal decision process in R&D investment decision.
The effects of organizational isomorphism on innovation performance through knowledge search in industrial cluster
Authors: Zhang Hui , Hu Baoliang 
Published: April 2017

PurposeThis paper aims to identify the relationships of both organizational isomorphism and knowledge search with the innovation performance of cluster enterprises. It also specifies the mechanism by which organizational isomorphism affects innovation performance, through knowledge search.Design/methodology/approachFirm-level data were collected with questionnaires distributed to cluster enterprises in Zhejiang Province, China, which produced 165 usable responses for the analysis. Both multiple regression analyses and structural equation modelling were used to test the hypotheses.FindingsNormative isomorphism and mimetic isomorphism have inverse U-shaped effects on the innovation performance of cluster enterprises, as does exploratory knowledge search. Exploitative knowledge search and the balance between two types of knowledge search have positive effects on the innovation performance of cluster enterprises; exploratory and exploitative knowledge searches exert partial mediation effects between the organizational isomorphism and innovation performance of cluster enterprises. The mediating effect of knowledge search transforms the inverse U-shaped effect of normative isomorphism and mimetic isomorphism on innovation performance into a positive effect.Originality/valueThis study provides new insights into the effects of organizational isomorphism on innovation performance by showing the indirect influence of organizational isomorphism in clusters. The study proposes a strategic logic of moderate isomorphism, clarifies the innovative effect of different knowledge search modes and reveals the construction and management mechanisms of organizational isomorphism and knowledge search strategy of firms in clusters.
Do outside directors matter? the impact of prestigious CEOs on firm performance
Authors: Zhang Liang , Zhang Zhe , Jia Ming , Ren Yeyao 
Published: April 2017

PurposeThe effect of prestigious CEOs on firm performance is not clear. By integrating resource dependence and agency theories, this paper aims to focus on how prestigious CEOs affect firm performance and how informal relations between the CEO and outside directors affect agency costs and resource benefits associated with prestigious CEOs.Design/methodology/approachThe authors use ordinary least squares (OLS) regression to analyze their data set, which is conducted by a sample of 4,226 Chinese listed firms from 2009 to 2013. The authors also use OLS regression to assess the sensitivity and robustness of their findings.FindingsThe findings indicate that prestigious CEOs are significantly and positively associated with firm performance. Moreover, the authors find the effect of prestigious CEOs on firm performance is more pronounced when prestigious outside directors interact with prestigious CEOs.Guanxi– a Chinese concept similar to camaraderie – attenuates this association, particularly when the CEO and outside directors share the same surname.Research limitations/implicationsFuture research should consider whether there is a mediating link between prestigious affiliates (i.e. CEOs) and firm performance.Practical/implicationsThis paper provides two practical implications. First, China Securities Regulatory Commission policymakers should pay more attention to outside directors’ quality and ability and their informalguanxiwith the CEO. Second, prestigious CEOs may also have potential costs.Originality/valueThis study contributes to corporate governance literature and CEO-board relations literature by shedding light on how resource dependence and agency theories apply to corporate governance.
RBF-trained POD-accelerated CFD analysis of wind loads on PV systems
Authors: Huayamave Victor , Ceballos Andres , Barriento Carolina , Seigneur Hubert , Barkaszi Stephen , Divo Eduardo , Kassab Alain 
Published: April 2017

Purpose
Wind loading calculations are currently performed according to the ASCE 7 standard. Values in this standard were estimated from simplified models that do not necessarily take into account relevant flow characteristics. Thus, the standard does not have provisions to handle the majority of rooftop photovoltaic (PV) systems. Accurate solutions for this problem can be produced using a full-fledged three-dimensional computational fluid dynamics (CFD) analysis. Unfortunately, CFD requires enormous computation times, and its use would be unsuitable for this application which requires real-time solutions. To this end, a real-time response framework based on the proper orthogonal decomposition (POD) method is proposed.

Design/methodology/approach
A real-time response framework based on the POD method was used. This framework used beforehand and off-line CFD solutions from an extensive data set developed using a predefined design space. Solutions were organized to form the basis snapshots of a POD matrix. The interpolation network using a radial-basis function (RBF) was used to predict the solution from the POD method given a set of values of the design variables. The results presented assume varying design variables for wind speed and direction on typical PV roof installations.

Findings
The trained POD–RBF interpolation network was tested and validated by performing the fast-algebraic interpolation to obtain the pressure distribution on the PV system surface and they were compared to actual grid-converged fully turbulent 3D CFD solutions at the specified values of the design variables. The POD network was validated and proved that large-scale CFD problems can be parametrized and simplified by using this framework.

Originality/value
The solar power industry, engineering design firms and the society as a whole could realize significant savings with the availability of a real-time in situ wind-load calculator that can prove essential for plug-and-play installation of PV systems. Additionally, this technology allows for automated parametric design optimization to arrive at the best fit for a set of given operating conditions. All these tasks are currently prohibited because of the massive computational resources and time required to address large-scale CFD analysis problems, all made possible by a simple but robust technology that can yield massive savings for the solar industry.
Estimation of the local heat transfer coefficient in coiled tubes
Authors: Bozzoli Fabio , Cattani Luca , Rainieri Sara , Bazán Fermín S.V. , Borges Leonardo S. 
Published: April 2017

Purpose
Most of the passive techniques for enhancing heat transfer inside pipes (e.g. rough surfaces, swirl-flow devices and coiled tubes) give origin to an irregular distribution of the heat transfer coefficient at the fluid–wall interface along the wall perimeter. This irregular distribution could be critical in some industrial applications, but most of the available research papers, mainly due to the practical difficulty of local measuring heat flux on the internal wall surface of a pipe, present the results only in terms of Nusselt number averaged along the wall circumference. This paper aims to study the application of inverse problem solution techniques, which could overcome this limitation.

Design/methodology/approach
With regard to the estimation of the local convective heat transfer coefficient in coiled tubes, two different inverse heat conduction problem solution techniques were considered and compared both by synthetic and experimental data.

Findings
The paper shows the success of two inverse problem solution techniques in the estimation of the local convective heat transfer coefficient in coiled tubes.

Originality/value
This paper fulfills an identified need because most of the available research papers present the results only in terms of average thermal performance, neglecting local behavior.
Inverse problems in identification and modeling of thermal processes: Russian contributions
Authors: Alifanov Oleg M. 
Published: April 2017

PurposeThe main purpose of this study, reflecting mainly the content of the authors’ plenary lecture, is to make a brief overview of several approaches developed by the author and his colleagues to the solution to ill-posed inverse heat transfer problems (IHTPs) with their possible extension to a wider class of inverse problems of mathematical physics and, most importantly, to show the wide possibilities of this methodology by examples of aerospace applications. In this regard, this study can be seen as a continuation of those applications that were discussed in the lecture.Design/methodology/approachThe application of the inverse method was pre-tested with experimental investigations on a special test equipment in laboratory conditions. In these studies, the author used the solution to the nonlinear inverse problem in the conjugate (conductive and convective) statement. The corresponding iterative algorithm has been developed and tested by a numerical and experimental way.FindingsIt can be stated that the theory and methodology of solving IHTPs combined with experimental simulation of thermal conditions is an effective tool for various fundamental and applied research and development in the field of heat and mass transfer.Originality/valueWith the help of the developed methods of inverse problems, the investigation was conducted for a porous cooling with a gaseous coolant for heat protection of the re-entry vehicle in the natural environment of hypersonic flight. Moreover, the analysis showed that the inverse methods can make a useful contribution to the study of heat transfer at the surface of a solid body under the influence of the hypersonic heterogeneous (dusty) gas stream and in many other aerospace applications.
Inverse problem solution for a laser flash studies of a thin layer coatings
Authors: Stryczniewicz Wit , Zmywaczyk Janusz , Panas Andrzej Jaroslaw 
Published: April 2017

Purpose
The paper aims to discuss the inverse heat conduction methodology in solution of a certain parameter identification problem. The problem itself concerns determination of the thermophysical properties of a thin layer coating by applying the laser flash apparatus.

Design/methodology/approach
The modelled laser flash diffusivity data from the three-layer sample investigation are used as input for the following parameter estimation procedure. Assuming known middle layer, i.e. substrate properties, the thermal diffusivity (TD) of the side layers’ material is determined. The estimation technique utilises the finite element method for numerical solution of the direct, 2D axisymmetric heat conduction problem.

Findings
The paper presents methodology developed for a three-layer sample studies and results of the estimation technique testing and evaluation based on simulated data. The multi-parametrical identification procedure results in identification of the out of plane thin layer material diffusivity from the inverse problem solution.

Research limitations/implications
The presentation itself is limited to numerical simulation data, but it should be underlined that the flake graphite thermophysical parameters have been utilised in numerical tests.

Practical implications
The developed methodology is planned to be applied in detailed experimental studies of flake graphite.

Originality/value
In the course of a present study, a methodology of the thin-coating layer TD determination was developed. In spite of the fact that it has been developed for the graphite coating investigation, it was planned to be universal in application to any thin–thick composite structure study.