bluuebunny/crossref_metadata_2025_split huggingface dataset:
MAPseq: improved speed, accuracy and consistency in ribosomal RNA sequence analysis
Authors: Matias Rodrigues João F , Schmidt Thomas SB , Tackmann Janko , von Mering Christian 
Published: April 2017

AbstractMetagenomic sequencing has become crucial to studying microbial communities, but meaningful taxonomic analysis and inter-comparison of such data are still hampered by technical limitations, between-study design variability and inconsistencies between taxonomies used. Here we present MAPseq, a framework for reference-based rRNA metagenomic analysis that is up to 30% more accurate (F1/2score) and up to one hundred times faster than existing solutions, providing in a single run multiple taxonomy classifications and hierarchical OTU mappings, for both amplicon and shotgun sequencing strategies, and for datasets of virtually any size. Availability: Source code and binaries are freely available athttp://meringlab.org/software/mapseq/
Estimation of immune cell content in tumour tissue using single-cell RNA-seq data
Authors: Schelker Max , Feau Sonia , Du Jinyan , Ranu Nav , Klipp Edda , MacBeath Gavin , Schoeberl Birgit , Raue Andreas 
Published: April 2017

AbstractAs interactions between the immune system and tumour cells are governed by a complex network of cell-cell interactions, knowing the specific immune cell composition of a solid tumour may be essential to predict a patient’s response to immunotherapy. Here, we analyse in depth how to derive the cellular composition of a solid tumour from bulk gene expression data by mathematical deconvolution, using indication- and cell type-specific reference gene expression profiles (RGEPs) from tumour-derived single-cell RNA sequencing data. We demonstrate that tumour-derived RGEPs are essential for the successful deconvolution and that RGEPs from peripheral blood are insufficient. We distinguish nine major cell types as well as three T cell subtypes. As the ratios of CD4+, CD8+ and regulatory T cells have been shown to predict overall survival, we extended our analysis to include the estimation of prognostic ratios that may enable the application in a clinical setting. Using the tumour derived RGEPs, we can estimate, for the first time, the content of cancer associated fibroblasts, endothelial cells and the malignant cells in a patient sample by a deconvolution approach. In addition, improved tumour cell gene expression profiles can be obtained by this method by computationally removing contamination from non-malignant cells. Given the difficulty around sample preparation and storage to obtain high quality single-cell RNA-seq data in the clinical context, the presented method represents a computational solution to derive the cellular composition of a tissue sample.
Bacterial community composition and dynamics spanning five years in freshwater bog lakes
Authors: Linz Alexandra M. , Crary Benjamin C. , Shade Ashley , Owens Sarah , Gilbert Jack A. , Knight Rob , McMahon Katherine D. 
Published: April 2017

AbstractBacteria play a key role in freshwater biogeochemical cycling, but long-term trends in freshwater bacterial community composition and dynamics are not yet well characterized. We used a multi-year time series of 16S rRNA gene amplicon sequencing data from eight bog lakes to census the freshwater bacterial community and observe annual and seasonal trends in abundance. Multiple sites and sampling events were necessary to begin to fully describe the bacterial communities. Each lake and layer contained a distinct bacterial community, with distinct levels of richness and indicator taxa that likely reflected the environmental conditions of each site. The community present in each year and site was also unique. Despite high interannual variability in community composition, we detected a core community of ubiquitous freshwater taxa. Although trends in abundance did not repeat annually, each freshwater lineage within the communities had a consistent lifestyle, defined by persistence, abundance, and variability. The results of our analysis emphasize the importance of long-term observations, as analyzing only a single year of data would not have allowed us to describe the dynamics and composition of these freshwater bacterial communities to the extent presented here.ImportanceLakes are excellent systems for investigating bacterial community dynamics because they have clear boundaries and strong environmental gradients. The results of our research demonstrate that bacterial community dynamics operate on multi-year timescales, a finding which likely applies to other ecosystems, with implications for study design and interpretation. Understanding the drivers and controls of bacterial communities on long time scales would improve both our knowledge of fundamental properties of bacterial communities, and our ability to predict community states. In this specific ecosystem, bog lakes play a disproportionately large role in global carbon cycling, and the information presented here may ultimately help refine carbon budgets for these lakes. Finally, all data and code in this study are publicly available. We hope that this will serve as a resource to anyone seeking to answer their own microbial ecology questions using a multi-year time series.
Innovations in genetically modified agricultural technologies in China’s public sector
Authors: Cai Jinyang , Hu Ruifa , Huang Jikun , Wang Xiaobing 
Published: April 2017

Purpose
The purpose of this paper is to assess whether China’s public sector can continue to generate advanced genetically modified (GM) technologies that will be competitive in the market.

Design/methodology/approach
The authors investigated all the research teams that have been conducting research projects under the variety development special program. The data collected include detail information on research capacity, research areas, performance, and process of their research projects. Based on the survey data, the authors assessed the innovations and progress of the variety development special program.

Findings
Unlike other countries, most GM products in China are developed by public research institutes. There is rising concern on the ability of China’s public sector to continuously generate indigenous GM technology that can compete with multinational companies. The study surveyed 197 research institutes and 487 research teams and found that the GM program in China lacks coordination: researchers do not want to share their research materials with others. Due to the lack of coordination, most of the hundreds of research teams often worked independently in the year 2008-2010. Moreover, the authors found the lack of coordination may be due to the reason that the interests of researchers are not well protected. This paper also provided the recent progress and policy changes of GM program in China, and it found that the efficiency in the later three years improved a lot. In order to establish a competitive national public GM research system, China should continuously consolidate and integrate the upstream, midstream, and downstream activities of the whole GM innovation process. China’s public sector may also need to work more closely with both the domestic and international private sectors.

Originality/value
This paper is a comprehensive analysis on the development of transgenic technology in China. The results of this paper can provide evidence for the dynamic adjustment of the policies in the variety development special program and can also provide reference for the future assessment of the variety development special program.
Architects’ perception of the innovativeness of the Swedish construction industry
Authors: Hemström Kerstin , Mahapatra Krushna , Gustavsson Leif 
Published: April 2017

Purpose
The aim of this paper is to enhance the understanding of architects’ perceptions of the propensity to adopt innovations in building construction.

Design/methodology/approach
Based on a theoretical underpinning of the multilevel perspective on socio-technical transitions, a web-based questionnaire (n = 412) was used to empirically investigate Swedish architects’ perceptions of innovativeness in the building construction industry. Specifically, the study looks at perceptions of the level of innovativeness (propensity to adopt innovations), relevant barriers to the adoption of innovations, the influence of different actors and ways of facilitating innovativeness.

Findings
Architects perceive a low level of innovativeness in the Swedish building construction industry because of a number of barriers of varying relevance. These barriers belong to interwoven regulative, normative and cognitive rules (i.e. institutions) that guide actor behaviour, which contribute to the path dependency of the industry. The site-specific nature of building construction, promotional activities from suppliers and the level of competition in the industry is perceived as being of little relevance. The findings suggest that a number of interventions are necessary to facilitate innovativeness of the Swedish construction industry. To change the lock-in mechanisms of the established cognitive and normative rules, regulative rules need to change as well. According to architects, contractors and construction clients are the most influential and therefore have the most power to change the rules associated with path dependency.

Research limitations/implications
The focus on a single construction professional in Sweden necessitates a discussion on these perceptions from the standpoint of other actors.

Practical implications
Architects perceive a need for change in the construction industry and suggest that changed regulative rules can help overcome path dependency and facilitate innovativeness. Considering the strong interrelatedness of the lock-in mechanisms that guide the actors of the industry, policies may be needed to encourage and support the establishment for more sustainable development.

Originality/value
A multilevel perspective is used to analyse the type of barriers to innovativeness that the architects perceive as relevant and how they contribute to the resistance to change and path dependency in the building construction sector.
Time-varying dependence measures: a comparative analysis through wavelet approach
Authors: Trimech Anyssa 
Published: April 2017

PurposeThis paper aims to investigate the pattern of dependence between crude oil price and energy consumption of the most important economic sectors in the USA, over different time periods, using monthly data set from January 1986 to July 2014 and a comparative study between linear correlation versus copula correlation as a measure of dependence over the single scale and the multiscale analysis.Design/methodology/approachThe proposed method is based on the multiresolution analysis which gives more extensive and detailed description of the dependence price-consumption pattern over different periods of time.FindingsThe empirical results show that the dependence between variables is strongly sensitive to the time varying and generally increasing with time scale. In particular, the Pearson coefficients are less than the dependence copula measures. The single-scale analysis covers many time-varying dependences which are made clear, flexible and comprehensive by the description given by the multiscale approach. It explains better the structure of relationships between variables and helps understand the variations and improve forecasts of the crude oil price and energy consumption over different time scales.Originality/valueThe proposed methodology offers the opportunity to construct dynamic management strategies by taking into account the multiscale nature of crude oil price and consumption relationship. Moreover, the paper uses wavelets as a relatively new and powerful tool for statistical analysis in addition to the copula technique that allows a new understanding of variable correlation. The paper will be of interest not only for academics in the field of data dependencies analysis but also for fund managers and market investors.
Design of electricity tariff plans using gap statistic for K-means clustering based on consumers monthly electricity consumption data
Authors: Rathod Ravindra R. , Garg Rahul Dev 
Published: April 2017

Purpose
Electricity consumption around the world and in India is continuously increasing over the years. Presently, there is a huge diversity in electricity tariffs across states in India. This paper aims to focus on development of new tariff design method using K-means clustering and gap statistic.

Design/methodology/approach
Numbers of tariff plans are selected using gap-statistic for K-means clustering and regression analysis is used to deduce new tariffs from existing tariffs. The study has been carried on nearly 27,000 residential consumers from Sangli city, Maharashtra State, India.

Findings
These tariff plans are proposed with two objectives: first, possibility to shift consumer’s from existing to lower tariff plan for saving electricity and, second, to increase revenue by increasing tariff charges using Pay-by-Use policy.

Research limitations/implications
The study can be performed on hourly or daily data using automatic meter reading and to introduce Time of Use or demand based tariff.

Practical implications
The proposed study focuses on use of data mining techniques for tariff planning based on consumer’s electricity usage pattern. It will be helpful to detect abnormalities in consumption pattern as well as forecasting electricity usage.

Social implications
Consumers will be able to decide own monthly electricity consumption and related tariff leading to electricity savings, as well as high electricity consumption consumers have to pay more tariff charges for extra electricity usage.

Originality/value
To remove the disparity in various tariff plans across states and country, proposed method will help to provide a platform for designing uniform tariff for entire country based on consumer’s electricity consumption data.
A phase model for solution relationship development: a case study in the aerospace industry
Authors: Ferreira Fabiana Nogueira Holanda , Cova Bernard , Spencer Robert , Proença João F. 
Published: April 2017

Purpose
The evolution of the business-to-business (BtoB) realm toward solution business calls for a better understanding of how relationships develop over time in such a renewed context. This paper aims to propose a phase model for solution relationship development, considering triadic relationships in complex engineering solutions.

Design/methodology/approach
To depict how relationships develop in solution business, the authors adopt a qualitative approach which allows to detail the episodes of interactions between the actors. A case study approach in an extreme sector – the aerospace industry – allows highlighting certain key traits. Extending conventional dyadic analysis, this empirical study focuses on the aerospace industry, using a case study approach to analyze relationship developments between a worldwide leading aircraft manufacturer, one of its customer and four providers of products and services. The authors adopt a triadic perspective in the selection of cases, considering a total of four manufacturer-provider-customer triads.

Findings
Four dynamic phases which track solution provision dynamics and involving dyadic and triadic relationship evolution are identified: matching; combining; mixing; and sharing. Each phase calls, from a management perspective, for specific competencies and resources of the actors in interaction.

Originality/value
This paper contributes to the gap about solution relationship development in a changing BtoB landscape. Considering the lens of a triadic approach, the paper also helps to fill the as-yet unattended to gap between dyads and triads in the literature.
Individualism, collectivism, and consumer animosity in emerging Asia: evidence from Korea
Authors: Han C. Min 
Published: April 2017

PurposeThis study aims to investigate how the consumer values of individualism and collectivism (IC) affect consumer animosity toward foreign brands in emerging Asia.Design/methodology/approachSurveys were conducted with Korean consumers on their animosity toward Japanese brands.FindingsThe study found that the IC value can precede consumer animosity and also moderate the effects of consumer animosity on purchase intentions. When horizontal and vertical dimensions of IC were examined, collectivism and vertical individualism were found to have strong effects on consumer animosity. In addition, both horizontal and vertical individualism negatively moderated the consumer animosity effects.Research limitations/implicationsThe findings suggest that future consumers in Asia and perhaps other emerging countries as well may be less affected by consumer animosity in brand choice as they become more Westernized and individualistic.Originality/valueThis study may enhance the understanding on changing consumer animosity and behavior in emerging countries in general.
Adverse childhood experiences, paraphilias, and serious criminal violence among federal sex offenders
Authors: Drury Alan , Heinrichs Tim , Elbert Michael , Tahja Katherine , DeLisi Matt , Caropreso Daniel 
Published: April 2017

Purpose
Adverse childhood experiences (ACEs) are a broad conceptual framework in the social sciences that have only recently been studied within criminology. The purpose of this paper is to utilize this framework by applying it to one of the most potentially dangerous forensic populations.

Design/methodology/approach
Archival data from 225 federal sex offenders was used to perform descriptive, correlational, and negative binomial regression models.

Findings
There was substantial evidence of ACEs including father abandonment/neglect (36 percent), physical abuse (nearly 28 percent), verbal/emotional abuse (more than 24 percent), and sexual abuse (approximately 27 percent). The mean age of sexual victimization was 7.6 years with the youngest age of victimization occurring at the age of 3. Offenders averaged nearly five paraphilias, the most common were pedophilia (57 percent), pornography addiction (43 percent), paraphilia not otherwise specified (35 percent), exhibitionism (26 percent), and voyeurism (21 percent). The offenders averaged 4.7 paraphilias and the range was substantial (0 to 19). Negative binomial regression models indicated that sexual sadism was positively and pornography addiction was negatively associated with serious criminal violence. Offenders with early age of arrest onset and more total arrest charges were more likely to perpetrate kidnaping, rape, and murder.

Originality/value
ACEs are common in the life history of federal sex offenders, but have differential associations with the most serious forms of crime.
Risk culture and banking supervision
Authors: Carretta Alessandro , Farina Vincenzo , Schwizer Paola 
Published: April 2017

Purpose
This paper aims to analyzing the main risk culture traits of a sample of Central Banks and Supervisory Authorities in Europe as well as of the European Central Bank (ECB).

Design/methodology/approach
Risk culture is measured through text data processing of the official discourses made by the head Supervisory Authorities, during the years from 1999 to 2012.

Findings
Results highlight heterogeneous but converging risk cultures for European Union (EU) supervisors and the presence of a “distance” between these cultures and the risk culture of the ECB.

Originality/value
The paper points out that cultural differences, especially in presence of credit markets still characterized by poor integration, could create unwanted distortion effects during the initial stages of the Banking Union.
Regulatory issues in blockchain technology
Authors: Yeoh Peter 
Published: April 2017

Purpose
This paper aims to examine the key regulatory challenges impacting blockchains, innovative distributed technologies, in the European Union (EU) and the USA.

Design/methodology/approach
A qualitative perspective underpins the study. This paper relies on primary data from applicable statutes and secondary data from the public domain including relevant case study insights.

Findings
The smart regulatory hands-off approach adopted in the EU and the USA to a large extent bodes well for future innovative contributions of blockchains in the financial services and related sectors and toward enhanced financial inclusiveness.

Practical implications
The paper’s findings provide support for blockchain technology to advance with minimum regulatory brakes for greater value-adding and efficiency advancement, especially for financial services, thereby expanding accessibility and therefore financial inclusiveness.

Originality/value
This paper helps to draw greater attention to the technology underpinning virtual currencies. It also highlights other economic potentials flowing from blockchain advancement.
Matching organizational climate and control mechanisms for fast strategic change in transitional economics
Authors: Shen Hao , Gao Yu , Yang Xiuyun 
Published: April 2017

PurposeThe purpose of this paper is to explore how organizational climate impacts the speed of strategic change (SSC) for firms in transitional economies and whether if the effects were contingent on internal control mechanisms.Design/methodology/approachA theoretical model including five constructs is developed. The questionnaire survey is deployed to scale main constructs, including organizational climate, such as open communication and hierarchical bureaucracy, internal controls such as strategic and financial control, and SSC. The moderation regression method in five steps is employed to test all hypotheses using the survey data from the 120 sampled Chinese firms.FindingsThe findings show that open communication has a positive effect on SCC, whereas hierarchical bureaucracy has a negative effect on SSC. Furthermore, strategic control positively moderates the relationship between open communication and SSC but negatively moderates the relationship between hierarchical bureaucracy and SSC; meanwhile, financial control negatively moderates the relationship between open communication and SSC but positively moderates the relationship between hierarchical bureaucracy and SSC.Originality/valueThis research integrates organizational climate and internal control mechanisms into the framework of strategic change to investigate how firms achieve fast strategic change through aligning organizational climate with proper organizational control mechanisms. The findings advance the authors’ understanding of the organizational climate, internal controls, and strategic change literature, and offer valuable managerial insights for managers in situations when strategic change is of central importance in the transitional economies.