bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Trichoptera barcode initiative: a strategy for generating a species-level Tree of Life
Authors: Zhou Xin , Frandsen Paul B. , Holzenthal Ralph W. , Beet Clare R. , Bennett Kristi R. , Blahnik Roger J. , Bonada Núria , Cartwright David , Chuluunbat Suvdtsetseg , Cocks Graeme V. , Collins Gemma E. , deWaard Jeremy , Dean John , Flint Oliver S. , Hausmann Axel , Hendrich Lars , Hess Monika , Hogg Ian D. , Kondratieff Boris C. , Malicky Hans , Milton Megan A. , Morinière Jérôme , Morse John C. , Mwangi François Ngera , Pauls Steffen U. , Gonzalez María Razo , Rinne Aki , Robinson Jason L. , Salokannel Juha , Shackleton Michael , Smith Brian , Stamatakis Alexandros , StClair Ros , Thomas Jessica A. , Zamora-Muñoz Carmen , Ziesmann Tanja , Kjer Karl M. 
Published: August 2016

DNA barcoding was intended as a means to provide species-level identifications through associating DNA sequences from unknown specimens to those from curated reference specimens. Although barcodes were not designed for phylogenetics, they can be beneficial to the completion of the Tree of Life. The barcode database for Trichoptera is relatively comprehensive, with data from every family, approximately two-thirds of the genera, and one-third of the described species. Most Trichoptera, as with most of life's species, have never been subjected to any formal phylogenetic analysis. Here, we present a phylogeny with over 16 000 unique haplotypes as a working hypothesis that can be updated as our estimates improve. We suggest a strategy of implementing constrained tree searches, which allow larger datasets to dictate the backbone phylogeny, while the barcode data fill out the tips of the tree. We also discuss how this phylogeny could be used to focus taxonomic attention on ambiguous species boundaries and hidden biodiversity. We suggest that systematists continue to differentiate between ‘Barcode Index Numbers’ (BINs) and ‘species’ that have been formally described. Each has utility, but they are not synonyms. We highlight examples of integrative taxonomy, using both barcodes and morphology for species description.This article is part of the themed issue ‘From DNA barcodes to biomes’.
Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling
Authors: Rice Edward S. , Kohno Satomi , John John St. , Pham Son , Howard Jonathan , Lareau Liana , O’Connell Brendan , Hickey Glenn , Armstrong Joel , Deran Alden , Fiddes Ian , Platt Roy N. , Gresham Cathy , McCarthy Fiona , Kern Colin , Haan David , Phan Tan , Schmidt Carl , Sanford Jeremy , Ray David A. , Paten Benedict , Guillette Louis J. , Green Richard E. 
Published: August 2016

AbstractThe American alligator,Alligator mississippiensis, like all crocodilians, has temperature-dependent sex determination, in which the sex of an embryo is determined by the incubation temperature of the egg during a critical period of development. The lack of genetic differences between male and female alligators leaves open the question of how the genes responsible for sex determination and differentiation are regulated. One insight into this question comes from the fact that exposing an embryo incubated at male-producing temperature to estrogen causes it to develop ovaries. Because estrogen response elements are known to regulate genes over long distances, a contiguous genome assembly is crucial for predicting and understanding its impact.We present an improved assembly of the American alligator genome, scaffolded within vitroproximity ligation (Chicago) data. We use this assembly to scaffold two other crocodilian genomes based on synteny. We perform RNA sequencing of tissues from American alligator embryos to find genes that are differentially expressed between embryos incubated at male-versus female-producing temperature. Finally, we use the improved contiguity of our assembly along with the current model of CTCF-mediated chromatin looping to predict regions of the genome likely to contain estrogen-responsive genes. We find that these regions are significantly enriched for genes with female-biased expression in developing gonads after the critical period during which sex is determined by incubation temperature. We thus conclude that estrogen signaling is a major driver of female-biased gene expression in the post-temperature sensitive period gonads.
A global view of meiotic double-strand break end resection
Authors: Mimitou Eleni P. , Yamada Shintaro , Keeney Scott 
Published: August 2016

AbstractThe DNA double-strand breaks that initiate homologous recombination during meiosis are subject to extensive 5′→3′ exonucleolytic processing. This resection is a central and conserved feature of recombination, yet its mechanism is poorly understood. Using a purpose-made deep-sequencing method, we mapped meiotic resection endpoints genome-wide at high spatial resolution inSaccharomyces cerevisiae. Generating full-length resection tracts requires Exo1 exonuclease activity and the DNA-damage responsive kinase Tel1, but not the helicase Sgs1. Tel1 is also required for efficient and timely initiation of resection. We find that distributions of resection endpoints at individual genomic loci display pronounced heterogeneity that reflects a tendency for nucleosomes to block Exo1 in vivo, yet modeling experiments indicate that Exo1 digests chromatin with high apparent processivity and at rates approaching those for naked DNA in vitro. This paradox points to nucleosome destabilization or eviction as a determining feature of the meiotic resection landscape.
Investigating and implementing an extensible, adaptable game plan for digital initiatives at a large state university
Authors: Dressler Virginia A. 
Published: August 2016

Purpose
The purpose of this paper is to explore the process of assessing the needs of a digital repository. The study’s institution – Kent State University, a large state university – is currently re-envisioning their digital library services to accommodate emerging technologies with an agile framework and platform. This paper includes discussion on the process of creating a sustainable digital initiatives program, a plan of action for migration, platform decision rationale and an overview of planning for future projects that is both flexible and extensible in nature.

Design/methodology/approach
The article’s approach is to examine the process of review and selection of the digital repository at Kent State University through the needs and requirements checklist the team devised according to the institution’s specifications. Literature published in the past five years is reviewed and applied to the selection process. The author maps out a plan that can be adaptable for growth and sustainability for a content management system.

Findings
Using models identified in the article, the team mapped a solution that can enhance the use and interaction by patrons to digital collections as well as provide a method to ensure the longevity of digital assets.

Originality/value
The article addresses issues that are inherent to digital content management systems of all shapes and sizes, and strives to provide a solution that would be relevant and applicable to many types of institutions in regard to digital repositories.
Academic use of smartphones by university students: a developing country perspective
Authors: Hossain Md. Emran , Ahmed S.M. Zabed 
Published: August 2016

Purpose
This paper aims to investigate the use of smartphones for academic purposes by students at Dhaka University, the top-ranked university in Bangladesh.

Design/methodology/approach
Students currently using smartphones answered a questionnaire survey, which focused on whether or not students used smartphones for academic works and, if so, for what purposes they used them and their opinion on the advantages of using smartphones for academic purposes. Descriptive statistics were used to analyze demographic and academic characteristics of the students in relation to their smartphone usage. Non-parametric analyses were performed using Mann–Whitney and Kruskal–Wallis tests to compare between students’ demographic and academic variables and their opinion on the advantages of academic use of smartphones.

Findings
The findings indicate that a vast majority of university students used smartphones for academic purposes. They, on average and across the board, had a positive perception toward academic use of smartphones. Although there were some differences in terms of gender, age, place of origin and duration of smartphone use, these differences were largely due to fact that a smartphone is a relatively new addition to the life of most students who participated in this study.

Originality/value
Research investigating the academic use of smartphones in the perspective of developing countries is virtually non-existent. This is the first time an effort has been made to examine the use of smartphones by a large sample of university students in Bangladesh.
Deploying Lean Six Sigma framework in an automotive component manufacturing organization
Authors: Swarnakar Vikas , Vinodh S. 
Published: August 2016

Purpose
This paper aims to deploy Lean Six Sigma (LSS) framework to facilitate defect reduction and enhance bottom line results of an automotive component manufacturing organization.

Design/methodology/approach
LSS is a business process improvement strategy widely used in the manufacturing field for enhancing manufacturing organization performance. The integration of Lean and Six Sigma will enable the attainment of defects reduction by eliminating non-value-adding activities from production line. LSS framework has been developed with the integration of define–measure–analysis–improve–control (DMAIC) tools and techniques.

Findings
The finding of this study is that the LSS framework has been successfully implemented in automotive component manufacturing organization, and non-value-adding activities and defects from assembly line have been reduced. The proposed LSS framework applies lean tools within Six Sigma DMAIC approach to facilitate waste elimination and defect reduction. The developed framework with linkage of DMAIC tools and techniques reduces defects and non-value-adding activities with enhanced bottom line results. The implementation of proposed LSS framework shows effective improvement in key metrics.

Research limitations/implications
The developed framework has been test implemented in an automotive component manufacturing organization. In future, more number of studies could be conducted. Further, advanced lean tools and techniques could be included in the framework for increasing the effectiveness of production line.

Practical implications
The proposed LSS framework with linkage of DMAIC tools and techniques has been successfully implemented in an assembly line of automotive component manufacturing organization. This method is presently applied for an automotive component manufacturing organization; in future, the approach could be applied in different industrial sectors with addition of new tools and techniques for improving its effectiveness.

Originality/value
LSS framework has been designed and test implemented in an assembly line of an automotive component manufacturing organization. Hence, the inferences are practical and key results of the study.
Credit card account opening excellence using six sigma methodology
Authors: Islam Samsul 
Published: August 2016

Purpose
This study aims to expand the current knowledge of the Six Sigma approach in a period of time when there is little direct evidence of the need to improve the credit card account opening process. This is an important but neglected area of focus in the Six Sigma literature. This study explores the extent to which process improvement practices are extended to the credit card department.

Design/methodology/approach
A case study methodology is adopted in this study to facilitate an exploration of the implemented Six Sigma approach in the credit card department of a leading commercial bank. The process improvement tool used is the define, measure, analyze, improve and control (DMAIC) cycle.

Findings
The study’s results confirm that the Six Sigma approach improves the quality of the credit card account opening process. So, the Six Sigma approach can account for a reduced number of keying-in errors, resulting in better data accuracy and improved customer satisfaction.

Research limitations/implications
The authors, in an attempt to render the study results more feasible for data collection, have chosen to focus on the process of the new accounts unit of the credit card department. Therefore, the authors have not taken into account the other units (e.g. transaction processing) of the same department.

Practical implications
The results of this study will be useful in persuading bank management to evaluate and implement the Six Sigma approach. Hence, this research will assist bank managers with replies to questions, such as: “What impact will Six Sigma have on process-centric improvement, such as the new accounts opening process of a credit card department?”

Originality/value
Within the literature on the Six Sigma practice, there is little research that focuses on the implementation of this particular toolset especially for credit card departments. This indicates a gap in the field. A new contribution to bridging that gap comes from the analysis of the results for the Six Sigma concept, which addresses the new accounts opening process.
Adding store to web: migration and synergy effects in multi-channel retailing
Authors: Fornari Edoardo , Fornari Daniele , Grandi Sebastiano , Menegatti Mario , Hofacker Charles F. 
Published: August 2016

Purpose
– The purpose of this paper is to investigate the topic of multi-channel retailing. Specifically, the research intends to determine if and to what extent the opening of physical stores by a former web-only retailer reduces or extends overall retail sales, and whether such effects tend to change over time. Empirical analysis focuses on data elaboration from a retailer who has passed from the initial mono-channel model (pure online), to a multi-channel one with the opening of stores.

Design/methodology/approach
– Through the analysis of an internal data set of a leading consumer electronics retailer applying Probit and Logit estimation techniques, the authors extract information about actual customers’ purchases (or rather retail sales) in three newly opened stores and about online purchases (through an e-commerce web site managed by the same retailer with the same store brand) by people living in the new store service areas before and after the openings.

Findings
– The paper shows that, for the single customer, the probability of purchasing online is reduced by the store opening in the short term, but tends to increase in the long term. Besides, results indicate that long-term synergy between the two channels depends mainly on indirect influence due to the mere presence of the store brand in the area rather than on the direct experience of shopping in the store.

Research limitations/implications
– The study highlights that channel portfolio enlargement from mono- to multi-channel retailing tends to activate a sort of life cycle; while in the early phase of store addition web sales tend to be cannibalized because the two channels are perceived as “substitutes” for each other, in the long run migration turns into a synergy effect; different channels tend to interact with and reinforce each other as customer touch points of the same retailer, in an omni-channel perspective.

Originality/value
– The paper herein presents various original elements concerning types of available data (actual sales rather than consumers’ intentions/perceptions and individual level data rather than aggregate level ones), estimation technique used (binary choice model) and research hypotheses (distinguishing between “direct” and “indirect” synergy effects in multi-channel retailing).
An economic analysis of the philosophical common good
Authors: Murphy Tim , Parkey Jeff 
Published: August 2016

Purpose– The purpose of this paper is to analyze economically several versions of the philosophical common good in order to contribute to the search for a viable conceptualization of the common good.Design/methodology/approach– The paper presents an economic analysis of the common good by examining the extent to which eight different versions of the philosophical concept possess the consumption characteristics of excludability and rivalry – and thus how each version may be classified as an economic good: private, public, common, or club.Findings– One of the examined versions of the philosophical common good is an economic common good; three versions are club goods; and four versions are public goods. Only those versions of the common good that are classifiable as public goods merit consideration as adequate conceptualizations in political and philosophical thought. In assessing the admissible versions the authors conclude that a viable conceptualization of the common good may simply be the maintenance of a peaceful social order that allows people to pursue their individual and collective goals in community.Originality/value– The paper shows that an analysis of the philosophical common good using the economic criteria of excludability and rivalry can contribute to common good discourse.
A 2‐Year Study of Δ 9‐tetrahydrocannabinol Concentrations in Drivers: Examining Driving and Field Sobriety Test Performance,,
Authors: Declues Kari , Perez Shelli , Figueroa Ariana 
Published: August 2016

AbstractFrom November 1, 2010 through November 30, 2012, 1204 whole‐blood samples were confirmed to contain THC alone or in combination with other drugs out of nearly 5000 Orange County, California, drivers suspected of driving under the influence of drugs. The goal of this study was to examine police reports and drug recognition expert evaluations of THC‐positive samples within this 2‐year time frame to determine whether there is a correlation between whole‐blood THC concentrations and field sobriety tests performance on DRE and non‐DRE evaluations. The FSTs prove to be sensitive to impairment by marijuana although as suspected, the findings of this study did not find a correlation between performance on field sobriety tests and the concentration of THC tested in whole‐blood samples. Driving behaviors were also examined and found to be similar to those seen in alcohol impairment. Future studies examining DRE findings are needed to confirm the results.
Multiple Imputation for Cure Rate Quantile Regression with Censored Data
Authors: Wu Yuanshan , Yin Guosheng 
Published: August 2016

Summary
The main challenge in the context of cure rate analysis is that one never knows whether censored subjects are cured or uncured, or whether they are susceptible or insusceptible to the event of interest. Considering the susceptible indicator as missing data, we propose a multiple imputation approach to cure rate quantile regression for censored data with a survival fraction. We develop an iterative algorithm to estimate the conditionally uncured probability for each subject. By utilizing this estimated probability and Bernoulli sample imputation, we can classify each subject as cured or uncured, and then employ the locally weighted method to estimate the quantile regression coefficients with only the uncured subjects. Repeating the imputation procedure multiple times and taking an average over the resultant estimators, we obtain consistent estimators for the quantile regression coefficients. Our approach relaxes the usual global linearity assumption, so that we can apply quantile regression to any particular quantile of interest. We establish asymptotic properties for the proposed estimators, including both consistency and asymptotic normality. We conduct simulation studies to assess the finite-sample performance of the proposed multiple imputation method and apply it to a lung cancer study as an illustration.
Psychological and behavioral acculturation in a social network of Mexican Americans in the United States and use of dental services
Authors: Maupome G. , McConnell W. R. , Perry B. L. , Marino R. , Wright E. R. 
Published: August 2016

AbstractObjectivesWe used data from the TalaSurvey study to examine associations between dental health experiences, social network characteristics, and levels of behavioral and psychological acculturation in one location in the American Midwest.MethodsStarting in parishes and community organizations, we identified adults of Mexican origin living in Indianapolis, who were 1st‐ or 2nd‐generation immigrants from Tala, Mexico. Using a social networks methodology and following extensive formative research, we created an egocentric social network survey and administered it via face‐to‐face interviews. We identified the peers (alters) in interviewees’ (egos) personal networks. We asked egos about multiple oral health and dental care variables for self and for alters. Acculturation (psychological and behavioral) was measured with a validated tool. Through logistic and negative binomial regression, we examined the effects of acculturation and network composition on ego's dental insurance status, dental office visits, and the reason for most recent dental office visit.ResultsA total of 332 egos (mean age 36; 63% female) were interviewed: 90% were born in Mexico; 45% had completed elementary school or lower; and most had low income. Each ego named 3.9 (SD±1.9) alters in his/her personal network, for a total of 1299 alters (mean age 39; 61% female). Both behavioral acculturation and psychological acculturation were moderately associated with dental insurance coverage, and greater behavioral acculturation predicted more frequent dental care. More psychologically acculturated egos were more likely to seek preventive care. Further, egos with more highly educated networks sought care more frequently and for preventive purposes, net of ego's own education and acculturation.ConclusionsThis study contextualizes acculturation of Mexican Americans within the personal networks in which oral health discussion takes place. The findings underscore the critical importance of acculturation and social network factors in shaping a subgroup of Latinos’ orientation toward dental care.
4D Reconstruction of Blooming Flowers
Authors: Zheng Qian , Fan Xiaochen , Gong Minglun , Sharf Andrei , Deussen Oliver , Huang Hui 
Published: August 2016

AbstractFlower blooming is a beautiful phenomenon in nature as flowers open in an intricate and complex manner whereas petals bend, stretch and twist under various deformations. Flower petals are typically thin structures arranged in tight configurations with heavy self‐occlusions. Thus, capturing and reconstructing spatially and temporally coherent sequences of blooming flowers is highly challenging. Early in the process only exterior petals are visible and thus interior parts will be completely missing in the captured data. Utilizing commercially available 3D scanners, we capture the visible parts of blooming flowers into a sequence of 3D point clouds. We reconstruct the flower geometry and deformation over time using a template‐based dynamic tracking algorithm. To track and model interior petals hidden in early stages of the blooming process, we employ an adaptively constrained optimization. Flower characteristics are exploited to track petals both forward and backward in time. Our methods allow us to faithfully reconstruct the flower blooming process of different species. In addition, we provide comparisons with state‐of‐the‐art physical simulation‐based approaches and evaluate our approach by using photos of captured real flowers.