bluuebunny/crossref_metadata_2025_split huggingface dataset:
Prioritization of metabolic genes as novel therapeutic targets in estrogen-receptor negative breast tumors using multi-omics data and text mining
Authors: Barupal Dinesh Kumar , Gao Bei , Budczies Jan , Phinney Brett S. , Perroud Bertrand , Denkert Carsten , Fiehn Oliver 
Published: January 2019

AbstractEstrogen-receptor negative (ERneg) breast cancer is an aggressive breast cancer subtype in the need for new therapeutic options. We have analyzed metabolomics, proteomics and transcriptomics data for a cohort of 276 breast tumors (MetaCancer study) and nine public transcriptomics datasets using univariate statistics, meta-analysis, Reactome pathway analysis, biochemical network mapping and text mining of metabolic genes. In the MetaCancer cohort, a total of 29% metabolites, 21% proteins and 33% transcripts were significantly different (raw p < 0.05) between ERneg and ERpos breast tumors. In the nine public transcriptomics datasets, on average 23% of all genes were significantly different (raw p < 0.05). Specifically, up to 60% of the metabolic genes were significantly different (meta-analysis raw p < 0.05) across the transcriptomics datasets. Reactome pathway analysis of all omics showed that energy metabolism, and biosynthesis of nucleotides, amino acids, and lipids were associated with ERneg status. Text mining revealed that several significant metabolic genes and enzymes have been rarely reported to date, including PFKP, GART, PLOD1, ASS1, NUDT12, FAR1, PDE7A, FAHD1, ITPK1, SORD, HACD3, CDS2 and PDSS1. Metabolic processes associated with ERneg tumors were identified by multi-omics integration analysis of metabolomics, proteomics and transcriptomics data. Overall results suggested that TCA anaplerosis, proline biosynthesis, synthesis of complex lipids and mechanisms for recycling substrates were activated in ERneg tumors. Under-reported genes were revealed by text mining which may serve as novel candidates for drug targets in cancer therapies. The workflow presented here can also be used for other tumor types.
Phage-encoded cationic antimicrobial peptide used for outer membrane disruption in lysis
Authors: Holt Ashley , Cahill Jesse , Ramsey Jolene , O’Leary Chandler , Moreland Russell , Martin Cody , Thushara Galbadage Don , Sharan Riti , Sule Preeti , Bettridge Kelsey , Xiao Jie , Cirillo Jeffrey , Young Ryland 
Published: January 2019

AbstractSpanins are required for the last step in bacteriophage lysis: the disruption of the outer membrane. Bioinformatic analysis has shown that ~15% of phages lack a spanin gene, which suggests an alternate mechanism of outer membrane disruption. To address this, we selected virulent podophage ϕKT as a spaninless exemplar and tested ϕKT genes for outer membrane disruption during lysis. Hypothetical novel gene 28 causes outer membrane disruption when co-expressed with ϕKT lysis genes and complements the lysis defect of a λ spanin mutant. Gp28 is a 56 aa cationic peptide with predicted amphipathic helical structure and is associated with the particulate fraction after lysis. Urea and KCl washes did not release gp28 from the particulate, suggesting a strong hydrophobic interaction with the membrane. Super high-resolution microscopy supports a primarily outer membrane localization for the peptide. Additionally, holin function is not required for gp28-mediated lysis. Gp28 is similar in size, charge, predicted fold, and membrane association to the human cathelicidin antimicrobial peptide LL-37. In standard assays to measure bactericidal and inhibitory effects of antimicrobial peptides on bacterial cells, synthesized gp28 performed equivalently to LL-37. The studies presented here suggest that ϕKT Gp28 disrupts bacterial outer membranes during lysis in a manner akin to antimicrobial peptides.SignificanceHere we provide evidence that ϕKT produces an antimicrobial peptide for outer membrane disruption during lysis. The disruptin is a new paradigm for phage lysis, and has no similarities to other known lysis genes. Many mechanisms have been proposed for the function of antimicrobial peptides, however there is not a consensus on the molecular basis of membrane disruption. Additionally, there is no established genetic selection system to support such studies. Therefore, the ϕKT disruptin may represent the first genetically tractable antimicrobial peptide.
A simple and effective sampler to collect undisturbed cores from tidal marshes
Authors: Giannopoulos Georgios , Lee Dong Y. , Neubauer Scott C. , Brown Bonnie L. , Franklin Rima B. 
Published: January 2019

ABSTRACTCore sampling is a common procedure in wetland ecology. PVC tubes are widely used to collect soil cores; however several studies fail to describe even the most typical characteristics of their sampling auger. This work aims to fill this gap and provide a simple and standardized core sampler design. A simple and inexpensive sampler is described for field use. Its main advantages are: 1) extraction of undisturbed cores; 7.6 cm diameter and up to 100 cm depth, 2) it is light-weight, sturdy and reliable, 3) it is made from widely available PVC items and 4) it requires minimal skills to assemble. The sampler is introduced in the wetland soil, by rotation, to the desired depth; the tooth-like edge can cut and penetrate through the dense root systems. The sampler is capped with an industrial-type stopper, and pulled up. The core is held in the sampler by suction – negative pressure. A plunger is then used to slowly remove the soil – core and sub – samples are collected. Alternatively, both ends of sampler could be sealed and taken to the lab. An 8 cm long sub-sample was adequate for soil physical, biogeochemical and molecular analysis. The sampler has been tested for 2 years with more than 200 cores taken from tidal wetlands in Chesapeake Bay, Virginia, USA. A negative correlation between salinity and organic matter content at 3 – 5 and 8 – 10 cm was found. For the deeper samples (48 – 50 cm), a positive correlation between salinity and organic matter was observed. The sampler worked satisfactory and it required no maintenance besides cleaning.
Gaining public input on natural hazard risk and land-use planning
Authors: Kilvington Margaret , Saunders Wendy 
Published: January 2019

Purpose
Risk-based land-use planning is a major tool for reducing risks and enabling communities to design for and mitigate against natural hazard events. Moving towards a risk-based approach to land-use planning involves changes in planning and public communication practice for local government agencies. However, talking to people about how decisions made in the present may increase risk in the future is notoriously hard and requires carefully crafted public discussion. The paper aims to discuss these issues.

Design/methodology/approach
This paper explores the case of a local government planning agency (the Bay of Plenty Regional Council (BOPRC)) who adopted a risk-based approach to the development of their regional policy statement (RPS). The BOPRC designed an innovative approach to talking to their communities about future land use and acceptable risk based on a framework and toolkit of resources (the RBPA – risk-based planning approach).

Findings
The process addressed several common challenges of risk engagement for land-use planning as it: integrated input from policy and planning professionals, technical experts and community development specialists across local government organisations; used locally relevant community sessions that developed participants’ understanding of risk; linked ideas about risk tolerance to potential policy implications for local government; and built capacity amongst participants for judgment about risk acceptability and options for safeguard.

Research limitations/implications
The process met public engagement planning criteria for robustness, i.e., valid process design and interpretation of feedback, and transparent integration into the final decisions. It enabled public views on natural hazards to be evaluated alongside technical input and incorporated into final decisions on thresholds for acceptable and unacceptable risk.

Originality/value
The approach taken has made significant contribution to risk engagement and land-use planning practice in New Zealand. In 2017, the BOPRC risk-based approach to their RPS received a national award from the New Zealand Planning Institute for contribution to advancing best practice. In 2018, it received further recognition through the Commonwealth Association of Planners Award for Outstanding Achievement in the Commonwealth.
Early fault detection of bearings based on adaptive variational mode decomposition and local tangent space alignment
Authors: Ma Ping , Zhang Hongli , Fan Wenhui , Wang Cong 
Published: January 2019

PurposeEarly fault detection of bearing plays an increasingly important role in the operation of rotating machinery. Based on the properties of early fault signal of bearing, this paper aims to describe a novel hybrid early fault detection method of bearings.Design/methodology/approachIn adaptive variational mode decomposition (AVMD), an adaptive strategy is proposed to select the optimal decomposition level K of variational mode decomposition. Then, a criterion based on envelope entropy is applied to select the optimal intrinsic mode functions (OIMF), which contains most useful fault information. Afterwards, local tangent space alignment (LTSA) is used to denoising of OIMF. The envelope spectrum of the OIMF is used to analyze the fault frequency, thereby detecting the fault. Experiments are conducted in a simulated signal and two experimental vibration signals of bearings to verify the effect of the new method.FindingsThe results show that the proposed method yields a good capability of detecting bearing fault at an early stage. The new method can extract more useful information and can reduce noise, which can provide better detection accuracy compared with the other two methods.Originality/valueAn adaptive strategy based on center frequency is proposed to select the optimal decomposition level of variational mode decomposition. Envelope entropy is used to fault feature selection. Combining the advantage of the AVMD-envelope entropy and LTSA, which suits the nature of the early fault signal. So, the proposed method has better detection accuracy, which provides a good alternative for early fault detection of bearings.
A knowledge-based theory of the firm
Authors: Kengatharan Navaneethakrishnan 
Published: January 2019

PurposeDrawing on the knowledge-based theory of the firm, the purpose of this paper is to examine the relationship between each facet of intellectual capital, productivity and firms’ performance and further investigate, heretofore neglected, a mediating effect of productivity in the relationship between each facet of intellectual capital and firms’ performance.Design/methodology/approachData were garnered with a self-reported questionnaire from 232 firm managers working in various industries: banking, insurance, telecommunications and hotels. Reliability and validity of the instruments were confirmed using confirmatory factor analysis. Prior to hypothesis testing using structural equation modelling, as a caveat, tests for nonresponse bias and common method variance were employed.FindingsThe paper confirmed that intellectual capital is the pièce de résistance and established a strong connection with productivity. The results further disclosed a positive relationship between productivity and firms’ performance. A mediated relationship between individual facets of intellectual capital and firms’ performance through productivity was also affirmed.Practical implicationsChiefly, the paper underscored the importance of intellectual capital in promoting productivity and firms’ performance. It behoves human resource managers and practitioners to make the organisational arrangements to reinforce intellectual capital thereby boosting the productivity that brings organisations’ success.Originality/valuePrevious studies in the sphere of intellectual capital have unequivocally discounted in establishing relationships between intellectual capital, productivity and firms’ performance. The results of the paper are novel findings, unequivocally contributing to the frontiers of the knowledge-based theory of the firm and conjointly, the paper has made methodological and geographical contributions.
Social media screening and content effects: implications for job applicant reactions
Authors: Jeske Debora , Shultz Kenneth S. 
Published: January 2019

PurposeThe purpose of this paper is to pursue several goals: first, what is the relationship between perceived respect for privacy and potential job pursuit of student applicants in a hypothetical application scenario which includes social media screening as part of the selection process? Second, if the job involves vulnerable others, what are the implications for privacy perceptions? And third, to what extent does the use of social media for non-work purposes relate to perceived respect for privacy?Design/methodology/approachUsing a cross-sectional sampling approach, data were collected from 388 student participants in two different data collection rounds via an online survey.FindingsPerceived respect for privacy was positively correlated, and information privacy concern was negatively correlated, with job pursuit intention. However, perceived respect for privacy differed across the different jobs. Specifically, respect for privacy was higher when the employer screened social media for jobs involving explicit work with children. Social media use and content effects also emerged. Those who either observed others online or interacted with others online to socialize reported lower respect for privacy. Participants with more sensitive content online and content they would be unwilling to share also reported lower scores for privacy.Research limitations/implicationsThe results were based on cross-sectional data, correlational analyses and hypothetical job scenarios due to ethical considerations and causal restrictions in what may be bi-directional effects.Originality/valueThe current study adds to the limited research on the negative effects of social media screening by employers on applicant reactions and the role of job-specifics on how applicant may react to screening.
The effect of diversification on risk and return in banking sector
Authors: AlKhouri Ritab , Arouri Houda 
Published: January 2019

PurposeThe purpose of this paper is to investigate the effect of revenue diversification, non-interest income and asset diversification on the performance and stability of the Gulf Cooperation Council (GCC) conventional and Islamic banking systems.Design/methodology/approachThe authors implement a panel of 69 conventional and Islamic banks listed in six GCC markets over the period of 2003–2015, using the System Generalized Method of Moments methodology.FindingsNon-interest income diversification has a negative impact on GCC banks’ performance, while asset-based diversification affects banks performance positively. However, Investors tend to penalize the value of the banks’ assets, which are highly diversified. Government intervention, lack of competition, legal protection and high control of Central banks on GCC banks’ have positive impact on performance. Contrary to the results on conventional banks, asset diversification adds value to Islamic banks. Overall, both banks’ revenue and non-interest diversification have negative impact on GCC banks’ stability, while asset diversification improves Islamic banks’ stability.Research limitations/implicationsThe analysis is limited to a sample of banks, which are listed in the GCC stock exchanges. The lack of data on private and foreign banks operating in the region made the analysis and, consequently, the results specific to shareholding companies. Also, the authors’ measures of bank stability might not be appropriate to use for Islamic banks, given their banking models implemented.Practical implicationsResearch results provide important implications for regulators, bank managers and policy makers, as to the expected ways to support economic diversification through bank diversification strategies.Originality/valueUnlike related studies, the authors’ sample of homogeneous banks has a market structure that is different from the samples in the literature covering either developed countries or heterogeneous samples from both developed and developing countries. Furthermore, using an efficient econometric methodology, the authors deal with two types of banks: conventional banks and Islamic banks. The research determines which type of bank is more able to benefit from different types of diversification. Unlike previous research, this research explores the sensitivity of the results both to the regulatory environment of the GCC market and to general market conditions.
An integrated fuzzy SWARA and fuzzy AD approach for outsourcing provider selection
Authors: Perçin Selçuk 
Published: January 2019

PurposeUnlike previous literature, this study offers a novel integrated fuzzy approach to the field of outsourcing decisions. The purpose of this paper is to use design ranges of evaluation criteria that satisfy the functional requirements (FRs) of decision makers to solve the outsourcing provider selection problem.Design/methodology/approachIn this study, considering the expected significance of outsourcing evaluation criteria, and the FRs of decision makers expressed in linguistic terms, a robust multi-criteria decision-making (MCDM) tool based on the integrated use of fuzzy Step-wise Weight Assessment Ratio Analysis and weighted fuzzy axiomatic design methods is proposed for use in decision process.FindingsThe proposed method is applied to a Turkish chemical company. A sensitivity analysis is performed and the outcomes of the proposed integrated framework are compared with those of other MCDM methods such as fuzzy-based Technique for Order Preference by Similarity to Ideal Solution, fuzzy Vise Kriterijumska Optimizacija I Kompromisno Resenje and fuzzy Multi-Objective Optimization on the basis of Ratio Analysis. This validates the usefulness and practicality of the proposed methodology.Practical implicationsThe main contribution of this study is that it defines specific requirements that will assist company managers in eliminating alternatives that do not satisfy the needs and expectations of their company.Originality/valueThis paper compares the present study with other studies in the field of manufacturing. Additionally, it provides a well-documented case study, which makes the paper of value to researchers interested in the practical applications of MCDM methods.
Multiteam systems in an agile environment: a realist systematic review
Authors: Turner John Robert , Thurlow Nigel , Baker Rose , Northcutt David , Newman Kelsey 
Published: January 2019

Purpose
The purpose of this paper is to highlight a collaborative effort between academia (University of North Texas, Team Sciences) and practice (Toyota Connected (TC)). This study concentrated on current problems that had been experienced by TC: How to structure and manage multiteam systems (MTSs)?

Design/methodology/approach
This research study utilized a realist systematic review to address an existing problem by working collaboratively with TC and academia. This collaboration involved problem identification, the development of research questions and a full systematic review guided by the research questions.

Findings
This realist systematic review merged the literature with current practices at TC in an effort to gather evidence to support the best method of structuring and managing MTSs. The findings include a leadership structure that incorporates both shared leadership (bottom-up) and existing hierarchical structures (top-down).

Practical implications
The MTS models presented in this study provide new models for organizations/manufacturers/industries to use as a guide when structuring their MTSs.

Originality/value
This study provides an example of a collaborative research effort between practice and academia using a realist systematic review. The paper also provides some multiteam system models that could be implemented and tested in different organizations. Also, new responsibilities and roles for scrum and MTSs are presented as a new method of achieving Agile.
Promoting intentional unlearning through an unlearning cycle
Authors: Cegarra-Navarro Juan Gabriel , Wensley Anthony 
Published: January 2019

PurposeAlthough there is widespread agreement about the importance of and need for unlearning particularly in an organizational context, concerns have been expressed by some researchers with respect to the coherence of the concept. The purpose of this paper is to complement organizational theories of unlearning with a clearer definition of intentional unlearning and develops an “unlearning cycle” comprising of the steps that influence unlearning focused on the need to update knowledge obtained in the past.Design/methodology/approachIn this paper, the authors review both the current state of conceptual development and the empirical underpinning of the concept of unlearning and relate it to emerging literature on the links between levels of learning to then propose a conceptual framework which includes employees and managers as key actors in enabling intentional unlearning.FindingsUnlearning critics have argued that unlearning has no explanatory value and is unnecessary because clear alternatives and less problematic concepts better frame the research gap that has been identified in the unlearning research literature. By addressing these concerns, this study proposes three key structures to facilitate intentional unlearning, namely, those represented by the unlearning cycle.Originality/valueThis study sheds light on the relationship across different unlearning levels. In addition, this study attempts to indicate how greater rigor may be brought to the development of research in the fields of intentional unlearning.
Enterprise risk management in family firms: evidence from Austria and Germany
Authors: Hiebl Martin R.W. , Duller Christine , Neubauer Herbert 
Published: January 2019

PurposeFamily firms are the most prevalent type of firm worldwide. Nevertheless, the existent enterprise risk management (ERM) literature is silent on the adoption of ERM in family firms. Family firms exhibit specifics likely to influence the adoption of ERM. Most importantly, they often feature lower levels of agency conflicts, which should make them less prone to invest in mechanisms to control such problems. Consequently, it is expected that family firms are less prone to invest in ERM. This paper aims to explore this basic expectation.Design/methodology/approachThis study is based on a survey of 430 firms from Austria and Germany.FindingsIt is observed that family firms show a lower adoption of ERM, especially in family firms where there is a family CEO.Research limitations/implicationsThe results suggest that future empirical ERM research should more closely analyze or at least control for family influence.Originality/valueThis study is among the first to analyze ERM adoption in family firms.