bluuebunny/crossref_metadata_2025_split huggingface dataset:
Individual Variation in Brain Network Topology Predicts Emotional Intelligence
Authors: George Ling , Ivy Lee , Synthia Guimond , Olivia Lutz , Neeraj Tandon , Dost Öngür , Shaun Eack , Kathryn Lewandowski , Matcheri Keshavan , Roscoe Brady 
Published: March 2018

AbstractBackgroundSocial cognitive ability is a significant determinant of functional outcome and deficits in social cognition are a disabling symptom of psychotic disorders. The neurobiological underpinnings of social cognition are not well understood, hampering our ability to ameliorate these deficits.ObjectiveUsing ‘resting-state’ fMRI (functional magnetic resonance imaging) and a trans-diagnostic, data-driven analytic strategy, we sought to identify the brain network basis of emotional intelligence, a key domain of social cognition.MethodsStudy participants included 60 participants with a diagnosis of schizophrenia or schizoaffective disorder and 46 healthy comparison participants. All participants underwent a resting-state fMRI scan. Emotional Intelligence was measured using the Mayer-Salovey-Caruso Emotional Intelligence Test (MSCEIT). A connectome-wide analysis of brain connectivity examined how each individual brain voxel’s connectivity correlated with emotional intelligence using multivariate distance matrix regression (MDMR).ResultsWe identified a region in the left superior parietal lobule (SPL) where individual network topology predicted emotional intelligence. Specifically, the association of this region with the Default Mode Network predicted higher emotional intelligence and association with the Dorsal Attention Network predicted lower emotional intelligence. This correlation was observed in both schizophrenia and healthy comparison participants.ConclusionPrevious studies have demonstrated individual variance in brain network topology but the cognitive or behavioral relevance of these differences was undetermined. We observe that the left SPL, a region of high individual variance at the cytoarchitectonic level, also demonstrates individual variance in its association with large scale brain networks and that network topology predicts emotional intelligence.
miR-21-5p and miR-30a-5p are identical in human and bovine, have similar isomiR distribution, and cannot be used to identify xenomiR uptake from cow milk
Authors: Fromm Bastian , Tosar Juan Pablo , Lu Yin , Halushka Marc K. , Witwer Kenneth W. 
Published: March 2018

AbstractmicroRNAs (miRNAs) are often highly conserved across species, but species-specific sequences are known. In addition, miRNA “isomiRs” arise from the same precursor molecule but differ in post-processing length and modification, usually at the 3’ end. A recently published feeding study reported the intriguing result that two bovine milk-specific miRNAs were taken up into human circulation after ingestion of bovine milk. Unfortunately, this interpretation is based on annotation errors in a public microRNA database. Reanalysis using databses including the MirGeneDB database reveals that the miRNAs in question, miR-21-5p and miR-30a-5p, arise from 100% identical 5’ precursor sequences in human and bovine, and the putative bovine-specific isomiRs appear to be depleted, not enriched, in bovine milk. Thus, enrichment of these isomiRs in human blood is inconsistent with uptake of xenomiRs and likely betrays endogenous miRNA regulation in response to diet or technical artifact.
Imputing missing distances in molecular phylogenetics
Authors: Xia Xuhua 
Published: March 2018

AbstractMissing data are frequently encountered in molecular phylogenetics and need to be imputed. For a distance matrix with missing distances, the least-squares approach is often used for imputing the missing values. Here I develop a method, similar to the expectation-maximization algorithm, to impute multiple missing distance in a distance matrix. I show that, for inferring the best tree and missing distances, the minimum evolution criterion is not as desirable as the least-squares criterion. I also discuss the problem involving cases where the missing values cannot be uniquely determined, e.g., when a missing distance involve two sister taxa. The new method has the advantage over the existing one in that it does not assume a molecular clock. I have implemented the function in DAMBE software which is freely available at available at http://dambe.bio.uottawa.ca
Ultra-parallel ChIP-seq by barcoding of intact nuclei
Authors: Arrigoni L. , Al-Hasani H. , Ramírez F. , Panzeri I. , Ryan D.P , Santacruz D. , Kress N. , Pospisilik A. , Böenisch U. , Manke T. 
Published: March 2018

AbstractChromatin immunoprecipitation followed by deep sequencing (ChIP-seq) is an invaluable tool for mapping chromatin-associated proteins. However, sample preparation is still a largely individual and labor-intensive process that hinders assay throughput and comparability. Here, we present a novel method for ultra-parallelized high-throughput ChIP-seq that addresses the aforementioned problems. The method, called RELACS (Restriction Enzyme-based Labeling of Chromatin in Situ), employs barcoding of chromatin within intact nuclei extracted from different sources (e.g. tissues, treatments, time points). Barcoded nuclei are pooled and processed within the same ChIP, for maximal comparability and significant workload reduction. The choice of user-friendly, straightforward, enzymatic steps for chromatin fragmentation and barcoding makes RELACS particularly suitable for implementation large-scale clinical studies and scarce samples. RELACS can generate ChIP-seq libraries from hundreds of samples within three days and with less than 1000 cells per sample.
Measurement error and variant-calling in deep Illumina sequencing of HIV
Authors: Howison Mark , Coetzer Mia , Kantor Rami 
Published: March 2018

ABSTRACTMotivationNext-generation deep sequencing of viral genomes, particularly on the Illumina platform, is increasingly applied in HIV research. Yet, there is no standard protocol or method used by the research community to account for measurement errors that arise during sample preparation and sequencing. Correctly calling high and low frequency variants while controlling for erroneous variant calls is an important precursor to downstream interpretation, such as studying the emergence of HIV drug-resistance mutations, which in turn has clinical applications and can improve patient care.ResultsWe developed a new variant-calling pipeline, hivmmer, for Illumina sequences from HIV viral genomes. First, we validated hivmmer by comparing it to other variant-calling pipelines on real HIV plasmid data sets, which have known sequences. We found that hivmmer achieves a lower rate of erroneous variant calls, and that all methods agree on the frequency of correctly called variants. Next, we compared the methods on an HIV plasmid data set that was sequenced using an amplicon-tagging protocol called Primer ID, which is designed to reduce errors and amplification bias during library preparation. We show that the Primer ID consensus does indeed have fewer erroneous variant calls compared to the variant-calling pipelines, and that hivmmer more closely approaches this low error rate compared to the other pipelines. Surprisingly, the frequency estimates from the Primer ID consensus do not differ significantly from those of the variant-calling pipelines. Finally, we built a predictive model for classifying errors in the hivmmer alignment, and show that it achieves high accuracy for identifying erroneous variant calls.Availabilityhivmmer is freely available for non-commercial use from https://github.com/mhowison/hivmmer.Contactmhowison@brown.edu
Dual BRD4 and AURKA Inhibition is Synergistic against MYCN-amplified and nonamplified Neuroblastoma
Authors: Felgenhauer Joshua , Tomino Laura , Selich-Anderson Julia , Bopp Emily , Shah Nilay 
Published: March 2018

AbstractA majority of cases of high-risk neuroblastoma, an embryonal childhood cancer, are driven by MYC or MYCN-driven oncogenic signaling. While considered to be directly “undruggable” therapeutically, MYC and MYCN can be repressed transcriptionally by inhibition of Bromodomain-containing protein 4 (BRD4) or destabilized posttranslationally by inhibition of Aurora Kinase A (AURKA). Preclinical and early-phase clinical studies of BRD4 and AURKA inhibitors, however, show limited efficacy against neuroblastoma when used alone. We report our studies on the concomitant use of the BRD4 inhibitor IBET-151 and AURKA inhibitor alisertib. We show that, in vitro, the drugs act synergistically to inhibit viability in three models of high-risk neuroblastoma. We demonstrate that this synergy is driven, in part, by the ability of IBET-151 to mitigate reflexive upregulation of AURKA, MYC, and MYCN in response to AURKA inhibition. We then demonstrate that IBET-151 and alisertib are effective in prolonging survival in three xenograft neuroblastoma models in vivo, and this efficacy is augmented by the addition of the antitubule chemotherapeutic vincristine. These data suggest that epigenetic and posttranslational inhibition of MYC/MYCN-driven pathways may have significant clinical efficacy against neuroblastoma.AbbreviationsAURKA, aurora kinase A; BRD4, Bromodomain-containing protein 4; CI, combination index; Fa, fraction affected; LOH, loss of heterozygosity; 11q, long arm of chromosome 11Funding sourcesThis work was supported by the Families for a Cure foundation (grant number 20064014) and CancerFree Kids (grant number 82178416).
Modelling Large, Dynamic, and Heterogeneous Populations Using DNA Libraries
Authors: Andrade Helena , Thomas Alvin K. , Lin Weilin , Reddavide Francesco V. , Zhang Yixin 
Published: March 2018

AbstractThe study of any population of large size and high diversity is limited by the lack of data and associated insights. For a pool of individuals, each associated with a unique characteristic feature, as the pool size grows, the possible interactions increase exponentially, quickly beyond the scope of computation, not to mention experimental manipulation and analysis. Herein, we report a facile RT-PCR-based method, to correlate the amplification curves with various DNA libraries of defined diversity, and perform operations with groups of quaternary numbers as input and diversity as output. An attractive feature of this approach is the possibility of realizing parallel computation with an eventually unlimited number of variables. We demonstrate that DNA libraries can be used to model heterogeneous populations, exhibiting functions such as self-protection, subjected to biased expansion, and to evolve into complex structures. Moreover, the method can be applied to drug discovery using DNA-encoded chemical library (DECL) technology, to optimize selection conditions for identifying potent and specific bio-molecular interactions.
Lean implementation in small- and medium-sized enterprises
Authors: Sahoo Saumyaranjan , Yadav Sudhir 
Published: March 2018

Purpose
The purpose of this paper is to examine the extent to which lean management practices are adopted by small- and medium-sized manufacturing organizations in India and their impact on firm’s operational performance (OP). Also, the paper makes an attempt to identify the barriers and challenges faced by Indian SMEs that are striving to succeed with improvement efforts based on lean manufacturing.

Design/methodology/approach
In this paper, acceptability and implementation of lean manufacturing in Indian Manufacturing SMEs were analyzed using three constructs, namely, process improvement (PI), flow management (FM) and waste minimization (WM). The responding firms were categorized into “lean-Beginners,” “In-transition lean” and “lean” group based on their phases of lean implementation. Using a survey questionnaire, data were collected from 121 manufacturing SMEs in India. Lean tools and barriers, identified from the literature review, were also included in the survey. The reliability and validity of the practice and performance measures were evaluated. Correlation analysis was employed to investigate the effects of three constructs on OP.

Findings
The results indicate that all the three lean constructs are significantly related to OP. In the context of Indian manufacturing SMEs, “PI” and “WM” practices have shown a higher level of significance on OP, compared to “FM” practices. “5S -workplace organization” was found to be the most practiced lean tool. “Attitude of workmen” was highlighted as the main obstacle in successfully implementing lean. The findings suggest overall positive effects as a result of applying lean tools and philosophy in Indian SMEs.

Research limitations/implications
The research results may lack qualitative justification because of the chosen research approach. Therefore, the researchers are encouraged to explore the inter-relationship among various lean tools/practices and performance criteria by conducting a qualitative study in the form of a case study or action research.

Practical implications
This paper is a beneficial source of information that highlights the contribution of lean implementation in enhancing manufacturing productivity. The major tools and techniques used by Indian SMEs have been highlighted and discussed; it could be a genuine source of motivation to lean practitioner and entrepreneurs of SMEs to go in for lean implementation. The findings are also expected to benefit the lean practitioners and entrepreneurs of SMEs to focus on vital issues to facilitate successful lean implementation in an organization.

Originality/value
The paper demonstrates that practical implication of lean implementation can bring real breakthroughs in productivity to small- and medium-scale manufacturing firms.
A fuzzy fault tree analysis based risk assessment approach for enterprise resource planning projects
Authors: Moeinedini Mina , Raissi Sadigh , Khalili-Damghani Kaveh 
Published: March 2018

Purpose
Enterprise resource planning (ERP) is assumed as a commonly used solution in order to provide an integrated view of core business processes, including product planning, manufacturing cost, delivery, marketing, sales, inventory management, shipping and payment. Selection and implementation of a suitable ERP solution are not assumed a trivial project because of the challenging nature of it, high costs, long-duration of installation and customization, as well as lack of successful benchmarking experiences. During the ERP projects, several risk factors threat the successful implementation of the project. These risk factors usually refer to different phases of the ERP projects including purchasing, pilot implementation, teaching, install, synchronizing, and movement from old systems toward new ones, initiation and utilization. These risk factors have dominant effects on each other. The purpose of this paper is to explore the hybrid reliability-based method is proposed to assess the risk factors of ERP solutions.

Design/methodology/approach
In this regard, the most important risk factors of ERP solutions are first determined. Then, the interactive relations of these factors are recognized using a graph based method, called interpretive structural modeling. The resultant network of relations between these factors initiates a new viewpoint toward the cause and effect relations among risk factors. Afterwards, a fuzzy fault tree analysis is proposed to calculate Failure Fuzzy Possibility (FFP) for the basic events of the fault tree leading to a quantitative evaluation of risk factors.

Findings
The whole proposed method is applied in a well-known Iranian foodservice distributor as a case study. The most impressive risk factors are identified, classified and prioritized. Moreover, the cause and effect diagram between the risk factors are identified. So, the ERP leader can plan a low-risk project and increase the chance of success.

Originality/value
According to the authors’ best knowledge, such approach was not reported before in the literature of ERP risk assessments.
Investigating the role of social media in polio prevention in India: a Delphi-DEMATEL approach
Authors: Kumar Anil , Kaviani Mohamad Amin , Bottani Eleonora , Dash Manoj Kumar , Zavadskas Edmundas Kazimieras 
Published: March 2018

Purpose
This study aims to evaluate the role of social media (SM) tools in polio prevention in an Indian context by using a hybrid Delphi-decision-making trial and evaluation laboratory (DEMATEL) approach.

Design/methodology/approach
A preliminary list of suitable evaluation criteria was derived from an extensive literature review. Ten experts were then contacted to collect data and finalize the most prominent criteria by using the Delphi method. To establish cause-effect relationships among the criteria, further data were collected from 21 experts. The DEMATEL method was applied to process and interpret the data collected.

Findings
The analysis grouped criteria into two sets, i.e. cause and effect. The results show that awareness of social cause and government utilization of resources fall into the cause group; these elements are critical as both directly affect the remaining criteria. These outcomes can help government and businesses to utilize SM for public health surveillance, e.g. to promote schemes/initiatives through sites concerning polio or related health issues.

Practical implications
The findings of this research are useful for governments and individual companies to conceive their marketing initiatives akin to polio prevention issues by using SM.

Originality/value
Despite the emergence of SM, there has been little discussion in existing literature on their role in polio prevention; however, measuring such role could be useful in practice to help decision-makers in exploiting the potential of SM in the health-care context. To fill this gap, this study aims to measure the role of SM in polio prevention in the Indian context and to create a cause-effect evaluation model. Using an integrated Delphi-DEMATEL framework for decision-making in the health-care context is another novelty of this study.
Interviewer effects in multicultural, multinational and multiregional surveys
Authors: Cibelli Hibben Kristen , Pennell Beth-Ellen , Scott Lesli 
Published: March 2018

Purpose
At the invitation of the Programme for the International Assessment of Adult Competencies (PIAAC), this paper aims to examine advances in survey interviewer monitoring and make recommendations on minimizing the effect of interviewers on survey results.

Design/methodology/approach
The authors first provide an overview of the most recent literature on interviewer effects, quality assurance and quality control. Here, they draw upon recent publications such as the cross-cultural survey guidelines (www.ccsg.isr.umich.edu) and newly published or in-press material specifically addressing these issues in multicultural, multinational and multiregional (3MC) contexts.

Findings
The authors discuss trends and innovations in quality assurance and quality control in 3MC studies and draw upon examples from international surveys that are using cutting-edge and innovative approaches to monitor interviewer behavior and minimize interviewer effects.

Originality/value
With a view to continuous quality improvement, the authors conclude with concrete recommendations for PIAAC to consider for the next cycle. Many of the recommendations have general relevance for other large-scale cross-national surveys.
The future of face-to-face interviewing
Authors: Schober Michael F. 
Published: March 2018

Purpose
This paper aims to explore the likelihood that face-to-face (FTF) interviewing will continue to be the “gold standard” survey interviewing method, to which all other modes are compared, in an era in which daily communicative habits for many now involve selecting among many alternative modes.

Design/methodology/approach
After outlining what is known about the purported benefits and drawbacks of FTF interviewing, the paper reviews recent findings that raise questions about whether FTF interviewing still produces the highest rates of participation, best data quality and greatest respondent satisfaction.

Findings
Results of several studies suggest that at least for some respondents, asynchronous interviewing modes that reduce the interviewer’s social presence and allow respondents to participate while they are mobile or multitasking (in particular, text messaging) may well lead to higher quality data and greater respondent satisfaction.

Practical implications
To the extent that these findings generalize, the implication is that FTF interviewing will continue to be needed for at least some respondents, but multiple trends suggest that it is likely to be one mode among many, and that the assumption that it is always needed or that it always leads to the highest quality data no longer holds.

Originality/value
Exploring when and how FTF interviewing will continue to be needed is particularly important given FTF’s financial and social costs, in an era of budgetary challenges and new questioning about which data sources are essential and lead to trustworthy information.
The survey response process from a cognitive viewpoint
Authors: Tourangeau Roger 
Published: March 2018

Purpose
This paper aims to examine the cognitive processes involved in answering survey questions. It also briefly discusses how the cognitive viewpoint has been challenged by other approaches (such as conversational analysis).

Design/methodology/approach
The paper reviews the major components of the response process and summarizes work examining how each of these components can contribute to measurement errors in surveys.

Findings
The Cognitive Aspects of Survey Methodology (CASM) model of the survey response process is still generating useful research, but both the satisficing model and the conversational approach provide useful supplements, emphasizing motivational and social sources of error neglected in the CASM approach.

Originality/value
The paper provides an introduction to the cognitive processes underlying survey responses and how these processes can explain why survey responses may be inaccurate.
Effects of mixture ingredients on interlayer adhesion of concrete in Contour Crafting
Authors: Zareiyan Babak , Khoshnevis Behrokh 
Published: March 2018

Purpose
This paper aims to investigate the strength at interlayer of specimens fabricated using Contour Crafting (CC) to develop a concrete mixture for large-scale three-dimensional printing.

Design/methodology/approach
The collected data from several experiments were analyzed to understand significant factors and their interactions. After developing the empirical model, condition for maximum desirability was identified and the model was validated.

Findings
The experimental investigation of varied combination of concrete components introduced an empirical model which can predict the strength at interface. Moreover, an optimized mixture within constrains of the CC nozzle was developed and validated.

Originality/value
Several experimental samples were tested, and the derived empirical model was validated after more than 600 h of work.