bluuebunny/crossref_metadata_2025_split huggingface dataset:
Integrated single cell analysis of blood and cerebrospinal fluid leukocytes in multiple sclerosis
Authors: Schafflick David , Xu Chenling A. , Hartlehnert Maike , Cole Michael , Lautwein Tobias , Schulte-Mecklenbeck Andreas , Wolbert Jolien , Heming Michael , Meuth Sven G. , Kuhlmann Tanja , Gross Catharina C. , Wiendl Heinz , Yosef Nir , Horste Gerd Meyer zu 
Published: August 2018

SummaryCerebrospinal fluid (CSF) protects the central nervous system (CNS) and analyzing CSF aids the diagnosis of CNS diseases, but our understanding of CSF leukocytes remains superficial. Here, we firstly provide a transcriptional map of single leukocytes in CSF compared to blood. Leukocyte composition and transcriptome were compartment-specific with CSF-enrichment of myeloid dendritic cells and a border-associated phenotype of monocytes.We secondly tested how multiple sclerosis (MS) - an autoimmune disease of the CNS - affected both compartments. MS increased transcriptional diversity in blood, while it preferentially increased cell type diversity in CSF. In addition to the known expansion of B lineage cells, we identified an increase of cytotoxic-phenotype and follicular T helper (TFH) cells in the CSF. In mice, TFH cells accordingly promoted B cell infiltration into the CNS and severity of MS animal models. Immune mechanisms in MS are thus highly compartmentalized and indicate local T/B cell interaction.
Chromatin-sensitive cryptic promoters encode alternative protein isoforms in yeast
Authors: Wei Wu , Hennig Bianca P. , Wang Jingwen , Zhang Yujie , Piazza Ilaria , Sanchez Yerma Pareja , Chabbert Christophe D. , Adjalley Sophie H. , Steinmetz Lars M. , Pelechano Vicent 
Published: August 2018

AbstractCryptic transcription is widespread and generates a heterogeneous group of RNA molecules of unknown function. To improve our understanding of cryptic transcription, we investigated their transcription start site usage, chromatin organization and post-transcriptional consequences in Saccharomyces cerevisiae. We show that transcription start sites (TSSs) of chromatin-sensitive internal cryptic transcripts retain comparable features of canonical TSSs in terms of DNA sequence, directionality and chromatin accessibility. We degine the 5’ and 3’ boundaries of cryptic transcripts and show that, contrary to RNA degradation-sensitive ones, they often overlap with the end of the gene thereby using the canonical polyadenylation site and associate to polyribosomes. We show that chromatin-sensitive cryptic transcripts can be recognized by ribosomes and may produce truncated polypeptides from downstream, in-frame start codons. Finally, we congirm the presence of the predicted polypeptides by reanalyzing N-terminal proteomic datasets. Our work suggests that a fraction of chromatin-sensitive internal cryptic promoters are in fact alternative truncated mRNA isoforms. The expression of these chromatin-sensitive isoforms is conserved from yeast to human expanding the functional consequences of cryptic transcription and proteome complexity.
Profound functional and molecular diversity of mitochondria revealed by cell type-specific profiling in vivo
Authors: Fecher Caroline , Trovò Laura , Müller Stephan A. , Snaidero Nicolas , Wettmarshausen Jennifer , Heink Sylvia , Ortiz Oskar , Wagner Ingrid , Kühn Ralf , Hartmann Jana , Karl Rosa Maria , Konnerth Arthur , Korn Thomas , Wurst Wolfgang , Merkler Doron , Lichtenthaler Stefan F. , Perocchi Fabiana , Misgeld Thomas 
Published: August 2018

AbstractMitochondria vary in morphology and function in different tissues, however little is known about their molecular diversity among cell types. To investigate mitochondrial diversity in vivo, we developed an efficient protocol to isolate cell type-specific mitochondria based on a new MitoTag mouse. We profiled the mitochondrial proteome of three major neural cell types in cerebellum and identified a substantial number of differential mitochondrial markers for these cell types in mice and humans. Based on predictions from these proteomes, we demonstrate that astrocytic mitochondria metabolize long-chain fatty acids more efficiently than neurons. Moreover, we identified Rmdn3 as a major determinant of ER-mitochondria proximity in Purkinje cells. Our novel approach enables exploring mitochondrial diversity on the functional and molecular level in many in vivo contexts.
Contaminant DNA in bacterial sequencing experiments is a major source of false genetic variability
Authors: Goig Galo A , Blanco Silvia , Garcia-Basteiro Alberto L. , Comas Iñaki 
Published: August 2018

AbstractContaminant DNA is a well-known confounding factor in molecular biology and in genomic repositories. Strikingly, analysis workflows for whole-genome sequencing (WGS) data usually neglect the errors introduced by potential contaminations. We performed a comprehensive evaluation of the extent and impact of contaminant DNA in WGS by analyzing more than 4,000 bacterial samples from 20 different studies. We found that contaminations are pervasive and can introduce large biases in variant analysis. We showed that these biases can translate in hundreds of false positive and negative SNPs, even for samples with slight contaminations. Studies investigating complex biological traits from sequencing data can be completely biased if contaminations are neglected during the bioinformatic analysis. We used both real and simulated data to evaluate and implement reliable, contamination-aware analysis pipelines. Our results urge for the implementation of such pipelines as sequencing technologies consolidate as a precision tool in the research and clinical context.
Operational efficiency of plastic producing firms in Iran: a DEA approach
Authors: Ghondaghsaz Nassim , Kordnaeij Asadollah , Delkhah Jalil 
Published: August 2018

Purpose
Firms are working in a complex environment in which the updated information increase the pace of precise decision making and reduce the risk of wrong decisions. Therefore, discovering firms’ performance is a major issue. The purpose of this paper is to evaluate the efficiency of Iranian plastic producing companies by using data envelopment analysis (DEA). It also discovers various drivers that significantly affect the efficiency of enterprises.

Design/methodology/approach
The authors studied a sample of 17 manufacturing firms to examine the relative efficiency of companies. They, then, evaluated the effects of efficiency drivers and used two methods for these purposes: DEA and bootstrapped Tobit regression model.

Findings
The study has shown that two manufacturing firms out of selected 17 are efficient under the Charnes, Cooper, and Rhodes model. Also, nine out of 17 plastic producing companies are productive under the Banker, Charnes, and Cooper model. The results of Tobit regression shows that only two efficiency drivers out of four have a significant positive influence on the efficiency of plastic producing firms.

Research limitations/implications
Considering one industry and country limits the generalizability of the results provided. Besides, data availability has limited the analysis in some parts, particularly in bootstrapped Tobit regression.

Practical implications
The authors listed this section into benchmarking and strategical management; more importantly, the suggestions for improving the chemical industry and its future evolution are presented.

Originality/value
The paper is classified into two issues: the efficiency of plastic producing firms in Iran and evaluating the reason for inefficiency, apart from internal managerial procedures.
Performance modeling and benchmarking of green supply chain management
Authors: Sahu Atul Kumar , Narang Harendra Kumar , Rajput Mridul Singh , Sahu Nitin Kumar , Sahu Anoop Kumar 
Published: August 2018

Purpose
Based on the existing literature in the field of green supply chain management (GSCM), the purpose of this paper is to find essential to conceptualize and develop an efficient appraisement platform for the purpose of benchmarking green alternative in supply chain network.

Design/methodology/approach
The authors explored multiple approaches, i.e. Višekriterijumsko kompromisno rangiranje (VIKOR), simple additive weighting (SAW) and grey relational analysis (GRA) by amalgamating fuzzy sets theory to select the most appropriate alternative for GSCM. The work is supported by triangular fuzzy number sets to choose the green alternative industry among available industries, while dealing with the uncertainty and vagueness in GSCM. A case study is exposed to identify strong and weak indices and to exhibit the feasibility of the proposed work.

Findings
It is requisite by the managers of many firms to identify the strong and weak indices relating their firms. Thus, the authors presented an approach for measuring and appraising the performance of the selected green alternative by determining the strong and weak indices. The presented work illustrates the performance measurement model that identifies comprehensive GSCM practices of the firms. The presented work incorporates green supply chain activities to support environmental sustainability throughout the supply chain.

Research limitations/implications
GSCM is necessary to the firms, as it considers impact onto the environment due to their supply chain activities. The authors build decision support system to facilitate the managers of various firms for modeling green practices in their decision making. The authors attempt to devise a conceptual framework linked with knowledge-based theory.

Originality/value
The authors conceptualized VIKOR, SAW and GRA methodology to rank and benchmark the green performance of distinguish alternative industries among available industries. Additionally, the performance measurement model for the selected significant green alternative is presented for determining the strong and weak indices.
Mimicking behaviour in bulk and block trading of institutional investors in the stock market
Authors: R. Ganesh , G. Naresh , S. Thiyagarajan 
Published: August 2018

PurposeThe purpose of this paper is to examine the mimicking behaviour of institutional investors in the stock market.Design/methodology/approachThe study focusses on examining the herding behaviour among institutional investors in the stock market by considering the bulk and block trade on the constituent NIFTY 50 index during the period 2005–2015 using Lakonishok–Schleifer–Vishny (1992) model. The study also aims to find out whether their herding behaviour is intentional or unintentional in nature.FindingsThe findings of the study showed no sign of herding behaviour in the market; out of 50 constituent stocks of NIFTY 50, there was significant herding in 15 stocks, with buy herding in 11 stocks and sell herding in four stocks, and remaining 35 stocks were totally free from herding behaviour. In addition, the results proved that the herding behaviour observed on the stocks is of unintentional in nature.Research limitations/implicationsPresent study is limited to the use of constituent stocks of the Benchmarking Index NIFTY 50.Originality/valueThis study is the first attempt to investigate the herding behaviour of institutional investors in the market using bulk and block trade and also to explore their intent in herding behaviour.
Food safety benchmarking between retail outlets in Greece
Authors: Souliotis Andreas , Giazitzi Katerina , Boskou George 
Published: August 2018

Purpose
The purpose of this paper is to develop and implement methods for benchmarking the food safety and hygiene between retail outlets at the same time or at the same retail outlets at different times.

Design/methodology/approach
A tailor made questionnaire for the collection of food safety and hygiene remarks was designed to be applied in a large chain of retail outlets. The remarks were classified in the five categories of the Ishikawa model (materials, methods, personnel, equipment and environment). The retail outlets were located all over Greece and the audits were performed in a one-year term. Food safety experts were used as auditors after a six-month training period. The data collected were subject to analysis of the benchmarking scores and to cluster analysis to identify regions with similar food safety profiles.

Findings
Polar charts were used to illustrate the benchmarking scores for each of the five categories of evaluation per auditing period at the retail outlets. Another polar chart illustrates the benchmarking scores for each of the 12 regions of Greece. Cluster analysis demonstrates that some regions, like Ionian Islands and South Aegean, have similar profiles on food safety for the retail outlets.

Originality/value
The developed methodology can be used by retail companies with several outlets or by a group or an association of companies in order to identify problematic sectors and to set priorities while dealing with issues of food safety and hygiene. The work is limited to the Greek outlets but the methodology has potential application to every other country.
Modelling resilience of truckload transportation industry
Authors: Sharma Satyendra Kumar , George Sajeev Abraham 
Published: August 2018

PurposeThe purpose of this paper is to study the supply chain resilience of Indian truckload transportation industry, in the event of potential disasters that affect the normalcy of their services. This study helped to identify factors affecting the two important dimensions of resilience, namely, resistive capacity and restorative capacity.Design/methodology/approachWith the help of a comprehensive literature review, the different variables that capture both resistive and restorative capacities were identified. A framework for measurement of resilience was developed and an analytical model using Bayesian belief networks methodology was used to understand the linkages between the variables.FindingsThe results also suggest that at present resilience of the supply chains in Indian trucking firms is very low and there is a need for companies to invest in resources to build both in resistive and restorative capacities to enhance resilience.Practical implicationsThe results of the model and the sensitivity analysis performed further helped to understand the major drivers that can enhance resilience of truckload firms.Originality/valueThe major contribution of this paper is to develop a quantitative model for resilience modeling in truckload transportation. This model can be updated when a new data arrives.
An integrated neutrosophic AHP and SWOT method for strategic planning methodology selection
Authors: Basset Mohamed Abdel , Mohamed Mai , Sangaiah Arun Kumar , Jain Vipul 
Published: August 2018

PurposeStrategic planning is an organization’s process of describing its strategy, or direction, and making decisions on allocating its resources to track this strategy. SWOT analysis is one of the most commonly used techniques for strategic planning. SWOT examines the strengths (S) and weaknesses (W) agents of the community together with opportunities (O) and threats (T), for selecting and implementing the best strategy which helps in achieving its goals. The purpose of this paper is to enhance the performance of SWOT analysis regarding the quantitative side of strategies, select the best strategy from different strategies and deal effectively with vague and incompatible information, which occurs usually in actual life.Design/methodology/approachThis study used the neutrosophic analytic hierarchy process (AHP) incorporated with SWOT analysis.FindingsBy adding the neutrosophic AHP to SWOT analysis, the performance of SWOT analysis is enhanced through determining the quantitative values and dealing with vague and inconsistent information effectively leading to improved decisions.Research limitations/implicationsThe developed integrated methodology is validated in a real-life case of Starbucks company. For the case study of Starbucks company, the proposed model helps in determining different strategic plans and, further, ranking these plans effectively, which will help the company to compete with its competitors and develop itself by obtaining a competitive advantage over its competitors in an uncertain business environment.Practical implicationsIn the case study of Starbucks company, the proposed model helps to determine the different strategic plans, rank these plans which help the company compete with its competitors, develop itself and grow.Originality/valueThis research is the first to address SWOT analysis with neutrosophic AHP.
Impact of information technology and relational aspect on supply chain collaboration leading to financial performance
Authors: Afshan Nikhat , Chatterjee Srabasti , Chhetri Prerna 
Published: August 2018

PurposeThe purpose of this paper is to investigate the impact of use of information technology (IT) and relational aspect on supply chain collaboration (SCC) in the context of developing country, in this case India. The study has considered two important components of use of IT namely, information sharing and information quality and further investigated their impact on SCC. Two important components of relational aspect, namely, trust and commitment have been considered, as identified from literature review, trust has been considered as an antecedent to commitment and the impact of commitment on SCC has been investigated. The research also investigates the impact of SCC on financial performance of the firm.Design/methodology/approachBased on extensive review of SCC literature a research model has been proposed hypothesizing the relationships between information sharing, information quality, trust, commitment, SCC and financial performance. The proposed research model is tested using data from 166 manufacturing firms across India. Structural equation modeling was used to test the hypothesized relationships between constructs.FindingsThe results showed that there is significant positive impact of information sharing and information quality on SCC. Consistent with earlier literature, trust was found to have a significant positive impact on commitment and commitment was found to have significant positive impact on SCC. Further, the findings confirmed the positive relationship between SCC and financial performance of the firm.Originality/valueThis is the first study to the best of our knowledge which has investigated the impact of SSC on financial performance in Indian context. This study has taken into account both use of IT and relational aspect simultaneously and investigated their impact on SCC.
The mediating role of customer related performance outcomes on the relationship between customer integration and firm performance
Authors: Afshan Nikhat , Motwani Jaideep 
Published: August 2018

PurposeEven though supply chain integration (SCI) has been considered as a vital contributor to business performance, the research shows inconsistency in its finding. Accounting for these inconsistencies, researchers (Fabbe-Costes and Jahre, 2007; Van der Vaart and van Donk, 2008) have highlighted the need to relate the level of integration in a single relationship to the performance outcomes of that relationship. The purpose of this paper is to make an effort in this direction and investigate the impact of customer integration (an important dimension of SCI) on customer-related performance outcome (CRPO) and financial performance of the firm.Design/methodology/approachBased on an extensive literature review, a research model has been developed hypothesizing the relationships between customer integration, CRPO and financial performance. The research model is then tested using data collected from 214 Indian manufacturing companies. Structural equation modeling was used to test the hypothesized relationship between constructs of interest.FindingsThe result showed that there is no direct effect of customer integration on financial performance instead the relationship is fully mediated through CRPO.Originality/valueThis study conceptualizes and develops scale for the specific performance outcome resulting from a high level of integration between manufacturer and key customers and labels it as CRPOs. It further investigates the mediating role of this immediate performance outcome on the relationship between customer integration and firm performance.
A systematic mapping study on tourism business networks
Authors: Heidari Ali , Yazdani Hamid Reza , Saghafi Fatemeh , Jalilvand Mohammad Reza 
Published: August 2018

PurposeThis study aims at characterizing and identifying the existing research on tourism business networks.Design/methodology/approachThe authors conducted a systematic mapping study to identify and analyze related literature. They identified 225 primary studies, dated from 1997-2016, and classified them with respect to research focus, types of research and contribution.FindingsSeventy four studies were identified and mapped, synthesizing the available evidence on tourism business networks. “Business networks” with 27 articles is the dominant research focus and “Network configuration” with 22 articles is the next dominant one. Regarding the research type, “Solution proposal” is the most frequently used research type. “Interview” and “Case study”, respectively, were the most used research methods. However, “Agent-based modeling”, “Delphi study” and “Non-linear time series analysis” were used less often. “Philosophical paper” was the most common research type between 1997 and 2002, and after that “Solution proposal” was the dominant research paper type. Further, the number of publications has declined between 2012 and 2014.Originality/valueThis mapping study provides the first systematic exploration of the state-of-art on tourism business networks research. The existing body of knowledge is limited to a few high quality studies.
The lack of spiritual perspective of organizations: an exploratory study
Authors: Vasconcelos Anselmo Ferreira 
Published: August 2018

Purpose
The purpose of this study is to identify the key features of a non-spiritual organization (NSO) and to show what it is capable of delivering to society.

Design/methodology/approach
This study relies on grounded theory method, given that it allows the researcher to apply flexible guidelines to collect and analyze qualitative data to build theories on the grounds of the data themselves. Therefore, qualitative data are derived from quotations, observations and excerpts from documents. The backdrop of this investigation was the accident caused by a Brazilian miner in the Rio Doce basin after the collapse of the Fundão dam in Bento Rodrigues, Brazil.

Findings
Overall, data revealed a pattern in which five themes emerged naturally, namely, the antecedents, poor corporate values, lack of appropriate management tools, unjustified dynamics and dealing with the consequences. Further, the ethical imperatives of doing right, doing good and doing well may be only discursive elements for great corporations. At first sight, adhering to an NSO frame is a result of a strategic decision.

Research limitations/implications
Taking into account the method that was used, the results cannot be generalized and herein resides the major limitation of this study.

Practical implications
It is very concerning that an acknowledged and awarded company is involved in such an episode. Such evidence prompts us to suspect that many so-called good companies may be deliberately hiding their shadows from society.

Originality/value
To the best of the author’s knowledge, this is the first empirical work toward untangling the meaning, nuances and contours of an NSO. In doing so, it helps understand the impact of this sort of companies on society and environment.