bluuebunny/crossref_metadata_2025_split huggingface dataset:
Script Templates
Authors: Kaye Rosalind C. , Cherney Leora R. 
Published: April 2016

Purpose:
Script training for aphasia involves repeated practice of relevant phrases and sentences that, when mastered, can potentially be used in other communicative situations. Although an increasingly popular approach, script development can be time-consuming. We provide a detailed summary of the evidence supporting this approach. We then describe a method in which scripts at various levels of difficulty are created by systematically manipulating readability and grammatical and semantic components. We assess the appropriateness of using these template-based scripts with persons with aphasia of differing severities.

Method:
We evaluated the oral reading performance of 8 individuals with chronic nonfluent aphasia on scripts developed from the templates. Scripts were either of high or low difficulty relative to their aphasia severity and personalized by inserting the participant's town and the name of an acquaintance. Oral reading probes were taken on 3 separate days within a week, and performance within and across participants was examined.

Results:
Regardless of the participant's aphasia severity, scripts in the low-difficulty condition were read with significantly greater accuracy than scripts in the high-difficulty condition.

Discussion:
These findings support the use of graded script templates to ensure that appropriately challenging scripts are delivered to persons with aphasia for both clinical practice and research.
Who Benefits From an Intensive Comprehensive Aphasia Program?
Authors: Babbitt Edna M. , Worrall Linda , Cherney Leora R. 
Published: April 2016

Purpose:
This article summarizes current outcomes from intensive comprehensive aphasia programs (ICAPs) and examines data from one ICAP to identify those who respond and do not respond to treatment.

Methods:
Participants were divided into 2 groups, responders and nonresponders, based on ±5-point change score on the Western Aphasia Battery–Revised Aphasia Quotient. Independent-samples t tests and χ2 tests were performed to identify differences between groups on demographic (age and gender) and aphasia-related factors (months postonset, type of aphasia, aphasia severity, naming, nonverbal cognition measure, and self-rating of communication confidence). Logistic regression determined if factors contributed to a treatment response.

Results:
There were significant differences between the groups on age and months postonset. Gender, type of aphasia, naming, nonverbal cognitive measure, and communication confidence were not significantly different. Logistic regression indicated that age was the only predictive factor contributing to treatment response.

Conclusions:
This study only identified age as a predictor of responders. Future research may need to examine a broader scope of variables that can impact recovery in aphasia.
Adapterama IV: Sequence Capture of Dual-digest RADseq Libraries with Identifiable Duplicates (RADcap)
Authors: Hoffberg Sandra L. , Kieran Troy J. , Catchen Julian M. , Devault Alison , Faircloth Brant C. , Mauricio Rodney , Glenn Travis C 
Published: April 2016

AbstractMolecular ecologists seek to genotype hundreds to thousands of loci from hundreds to thousands of individuals at minimal cost per sample. Current methods such as restriction site associated DNA sequencing (RADseq) and sequence capture are constrained by costs associated with inefficient use of sequencing data and sample preparation, respectively. Here, we demonstrate RADcap, an approach that combines the major benefits of RADseq (low cost with specific start positions) with those of sequence capture (repeatable sequencing of specific loci) to significantly increase efficiency and reduce costs relative to current approaches. The RADcap approach uses a new version of dual-digest RADseq (3RAD) to identify candidate SNP loci for capture bait design, and subsequently uses custom sequence capture baits to consistently enrich candidate SNP loci across many individuals. We combined this approach with a new library preparation method for identifying and removing PCR duplicates from 3RAD libraries, which allows researchers to process RADseq data using traditional pipelines, and we tested the RADcap method by genotyping sets of 96 to 384Wisteriaplants. Our results demonstrate that our RADcap method: 1) can methodologically reduce (to <5%) and computationally remove PCR duplicate reads from data; (2) achieves 80-90% reads-on-target in 11 of 12 enrichments; (3) returns consistent coverage (≥4x) across >90% of individuals at up to 99.9% of the targeted loci; (4) produces consistently high occupancy matrices of genotypes across hundreds of individuals; and (5) is inexpensive, with reagent and sequencing costs totaling <$6/sample and adapter and primer costs of only a few hundred dollars.
Promoter architecture and sex-specific gene expression in the microcrustaceanDaphnia pulexrevealed by large-scale profiling of 5′-mRNA ends
Authors: Raborn R. Taylor , Spitze Ken , Brendel Volker P. , Lynch Michael 
Published: April 2016

AbstractLarge-scale TSS profiling produces a high-resolution, quantitative picture of transcription initiation and core promoter locations within a genome. However, application of TSS profiling to date has largely been restricted to a small set of prominent model systems. We sought to characterize thecis-regulatory landscape of the water fleaDaphnia pulex,an emerging model arthropod that reproduces both asexually (viaparthenogenesis) and sexually (viameiosis). We performed CAGE with RNA isolated fromD. pulexwithin three developmental states: sexual females, asexual females, and males. Identified TSSs were utilized to generate a ‘Daphnia Promoter Atlas’-a catalog of active promoters across the surveyed states. We carried outde novomotif discovery using CAGE-defined TSSs and identified eight candidate core promoter motifs; this collection includes canonical promoter elements (e.g. TATA, Initiator) in addition to others lacking obvious orthologs. A comparison of promoter activities found evidence for considerable state-specific differential gene expression between states. Our work represents the first global definition of transcription initiation and promoter architecture in crustaceans. The Daphnia Promoter Atlas presented here provides a valuable resource for comparative study ofcis-regulatory regions in arthropods, as well as for investigations into the circuitries that underpin meiosis and parthenogenesis.
Temporal microbiome road-maps guided by perturbations
Authors: García-Jiménez Beatriz , Wilkinson Mark 
Published: April 2016

AbstractMotivationThere are few tools that allow longitudinal analysis of metagenomic data subjected to distinct perturbations.MethodsThis study examines longitudinal metagenomics data modelled as a Markov Decision Process (MDP). Given an external perturbation, the MDP predicts the next microbiome state in a temporal sequence, selected from a finite set of possible microbiome states.ResultsWe examined three distinct datasets to demonstrate this approach. An MDP created for a vaginal microbiome time series generates a variety of behaviour policies. For example, that moving from a state associated with bacterial vaginosis to a healthier one, requires avoiding perturbations such as lubricant, sex toys, tampons and anal sex. The flexibility of our proposal is verified after applying MDPs to human gut and chick gut microbiomes, taking nutritional intakes, or salmonella and probiotic treatments, respectively, as perturbations. In the latter case, MDPs provided a quantitative explanation for why salmonella vaccine accelerates microbiome maturation in chicks. This novel analytical approach has applications in, for example, medicine where the MDP could suggest the sequence of perturbations (e.g. clinical interventions) to apply to follow the best path from any given starting state, to a desired (healthy) state, avoiding strongly negative states.
From Visual Exploration to Storytelling and Back Again
Authors: Gratzl Samuel , Lex Alexander , Gehlenborg Nils , Cosgrove Nicola , Streit Marc 
Published: April 2016

AbstractA major challenge of data-driven biomedical research lies in the collection and representation of data provenance information to ensure reproducibility of findings. In order to communicate and reproduce multi-step analysis workflows executed on datasets that contain data for dozens or hundreds of samples, it is crucial to be able to visualize the provenance graph at different levels of aggregation. Most existing approaches are based on node-link diagrams, which do not scale to the complexity of typical data provenance graphs. In our proposed approach we reduce the complexity of the graph using hierarchical and motif-based aggregation. Based on user action and graph attributes a modular degree-of-interest (DoI) function is applied to expand parts of the graph that are relevant to the user. This interest-driven adaptive provenance visualization approach allows users to review and communicate complex multi-step analyses, which can be based on hundreds of files that are processed by numerous workflows. We integrate our approach into an analysis platform that captures extensive data provenance information and demonstrate its effectiveness by means of a biomedical usage scenario.
A theory of managerial tax aggression: evidence from China, 2008-2013 (9702 observations)
Authors: Li Yuanhui , Luo Ying , Wang Jiali , Foo Check-Teck 
Published: April 2016

Purpose
This paper aims to investigate the economic consequence of the tax reductive strategy on stock price. The authors’ theory, empirically reinforced, suggests managerial tax aggressiveness endangers the corporation through a heightened risk in stock price crashing. Information opacity worsens the situation by reinforcing the relationship. Policymakers should emphasize two aspects: market openness and tighter institutional monitoring. The evidence shown in this paper demonstrates that these two weaken the tax aggressiveness impact on risk of a crashing stock price.

Design/methodology/approach
The sample in this paper consists of 9,702 observations from listed firms from 2008 to 2013 in China. The tax rate is manually collected and all the other original data used in this study are sourced from Wind and China Capital Market and Accounting Research databases. Both logistic regression and ordinary least squares regression methods are used to test the hypothesis in this paper.

Findings
One key insight is in tax aggressiveness to be strongly correlated with a greater risk of future stock price crashing. The authors also found information opacity to exert a positive moderating effect. That is, the higher the information opacity, the stronger and more positive the correlation between tax aggression and stock price crash risk. However, the market process and an institutional investor have opposite, negative impacts. An open market environment reduces their correlativeness. Similarly, stronger institutional vigilance leads to an attenuation of such a co-relationship.

Practical implications
The findings of this paper have wide policy implications for management and control by authorities of listed corporations. Aggressiveness in management of corporate taxes accentuates the risks borne by stockholders. If so, internally within the corporation, such aggression shown by management, if not proscribed, could be subject to scrutiny, possibly by an independent committee. Externally, this may be countered by the authority in emphasizing three key factors: openness in information sharing, the market environment and tighter institutional monitoring.

Originality/value
This study provides a consequential theory of aggressive management of tax, rigorously analyzed and strongly, empirically supported. Overall, aggressiveness in tax management is related with assumption of higher risks in the crashing of stock price. The relationship is enhanced through information opacity, but reduced via market environment and institutional monitoring.
Frontiers of research on Chinese management
Authors: Foo Check Teck 
Published: April 2016

Purpose
The purpose of this paper is to provide a brief yet insightful survey of papers in the first issue of Chinese Management Studies. In the process, the founding Editor focuses on the key concepts and how scholars may further extend and build on the research undertaken.

Design/methodology/approach
The Editor provides a snapshot of the research undertaken in the papers selected for this issue. Instead of simply summarizing the work undertaken, the Editor, where it is highly appropriate, incorporates aspects of underlying Chinese culture. For instance, how the Confucian concept of the doctrine of mean – very broad as it is in scope – is supported in research reported here. Also, in contradiction to what authors may have argued on meaningfulness of work per se, to highlight an old Chinese adage: for example, 工字不出头 (gong-zhi-bu-chu-tuo). A literal translation into English will fail to render the true intent of the phrase. What it means is that the Chinese character for “work” implies a much deeper meaning: The horizontal line on top of the vertical limits the potential of future growth. Other concepts are visualized for ease of readers grasping the key concepts.

Findings
The series of papers here highlight the significance of research into managerial behaviors (negatively, tax aggression and abuse of power for self-enrichment), meaningfulness of work, reading of timeless Chinese novels, innovation (ZTE) and the knowledge organization, changing and transforming China and of Russian-Chinese (Taiwan) strategic alliances. The insights gained through these intensive research efforts ought to be shared with scholars globally.

Social implications
The research in this issue has wide practical relevance as in highlighting the critical importance of a range of topics: Jiang Hu organizing theory, managerial behaviors, innovation and knowledge, Russo-Chinese strategic alliances, fit in strategic management and China-in-transition. This paper ties these together for the reader.

Originality/value
Through a review of these papers, the Editor provides insights for scholars on the possibilities for extending the frontiers of research on Chinese management. Where relevant the Editor highlights additionally, perspectives from deeply rooted Chinese beliefs, values and philosophy.
The impact of explicit CSR regulation: evidence from China’s mining firms
Authors: Dong Shidi , Xu Lei 
Published: April 2016

Purpose– With its rapid economic expansion and its growing environmental and social issues, China has introduced explicit corporate social responsibility (CSR) regulations since 2006 as part of its social harmony policy. The purpose of this paper is to examine the CSR disclosure practices of the historically unaccountable mining firms in China’s current regulatory context.Design/methodology/approach– The sample covers all 60 listed mining firms on the Shanghai and Shenzhen Stock Exchanges between 2007 and 2012, totalling 360 firm-year observations. The authors adopt the “Chinese CSR Report Preparation Guide” as the benchmark for content analysis. To strengthen the analysis, the authors apply binary logistic regression with the determinants of state government, social responsibility index, and cross-listing overseas status.Findings– The authors discover that mining firms rapidly adopt CSR disclosure in response to the regulatory pressures from the state government and the stock exchanges to maintain legitimacy and survival prospects. However, the quality of CSR disclosures becomes a new concern.Research limitations/implications– The most environmentally and socially sensitive mining sector can provide good samples of firm CSR practice in the second largest economy. Although mandatory requirements may result in the firms’ passive compliance, strict regulation is still the key to the changes in corporate accountability and transparency. China may need to strengthen its CSR regulation for its sustainable growth in the coming Asian Era.Practical implications– In the institutional context of China, the imposition of strict regulation seems to be the key to improving CSR practice. However, the mandatory requirements may also result in passive compliance without effective change in corporate accountability and transparency. The sustainable development of the mining sector and advocacy of CSR behaviour require cooperation at national, social and corporate levels.Originality/value– This study contributes to the evolving CSR literature about China and the literature from an industry perspective where governance and regulation are highly influential. The methodology may also enrich future research in the area with a fairly long sample period.
Accommodating new ways of working: lessons from best practices and worst cases
Authors: Brunia Sandra , De Been Iris , van der Voordt Theo J.M. 
Published: April 2016

Purpose
The purpose of this study is to explore which factors may explain the high or low percentages of satisfied employees in offices with shared activity-based workplaces.

Design/methodology/approach
The paper compares data on employee satisfaction from two cases with remarkably high satisfaction scores and two cases with significantly lower satisfaction scores (total N = 930), all of the same organisation. These cases were selected from a database with employee responses to a standardised questionnaire in 52 flexible work environments. In the four case studies, also group interviews were conducted.

Findings
Overall, there are large differences in employee satisfaction between cases with, at first sight, a similar activity-based office concept. The main differences between the best and worst cases regard employee satisfaction with the interior design, level of openness, subdivision of space, number and diversity of work places and accessibility of the building. Employee satisfaction shows to be influenced by many physical characteristics of the work environment and by the implementation process. Satisfaction with the organisation may have an impact as well.

Research limitations/implications
Almost all cases regard Dutch organisations. Due to the lack of quantitative scales to define the physical characteristics of the work environment, the study is mainly descriptive and explorative and does not include advanced multivariate statistical analyses.

Practical implications
The data revealed clear critical success factors including a supportive spatial layout to facilitate communication and concentration, attractive architectural design, ergonomic furniture, appropriate storage facilities and coping with psychological and physical needs, such as privacy, thermal comfort, daylight and view. Critical process factors are the commitment of managers, a balance between a top-down and a bottom-up approach and clear instructions on how to use activity-based workplaces.

Originality/value
The study connects descriptive research with inductive reasoning to explore why employees may be satisfied or dissatisfied with flex offices. It is based on a combination of quantitative survey data from 52 cases and a closer look at two best cases and two worst cases based on qualitative data from interviews and personal observations. The study has high practical value due to the integral approach that incorporates many items of the physical environment and context factors like the implementation process.
Lymphedema‐associated neutrophilic dermatosis: Two cases of localized Sweet syndrome on the lymphedematous lower limbs
Authors: Chu Chien‐Ho , Cheng Yu‐Ping , Kao Hua‐Lin , Liang Cher‐Wei , Chan Jung‐Yi , Yu Yu 
Published: April 2016

AbstractNeutrophilic dermatosis on the site of lymphedema is a rare condition and considered as a localized and less severe variant of Sweet syndrome. Only 13 cases of this variant have been reported after mastectomy for breast cancer in the English‐language published work. However, this condition has never been described on the lower limbs or from other causes of lymphedema. Herein, we report two cases of localized Sweet syndrome on the lymphedematous lower limbs: one occurred after radical hysterectomy, bilateral pelvic lymph node dissection and radiotherapy for cervical cancer; the other developed after radiotherapy for malignant melanoma on the right groin. Based on clinical and histological features, we suggest the name “lymphedema‐associated neutrophilic dermatosis” for this underrecognized disease entity.
Effect and Safety of Daclatasvir‐Asunaprevir Combination Therapy for Chronic Hepatitis C Virus Genotype 1b ‐Infected Patients on Hemodialysis
Authors: Miyazaki Ryoichi , Miyagi Kyoko 
Published: April 2016

AbstractThe prevalence of anti‐hepatitis C virus (HCV)antibodies is higher in hemodialysis patients than in the general population, and several studies have reported poor vital prognosis in HCV‐infected dialysis patients because infection with HCV is not only the cause of cirrhosis and hepatocellular carcinoma, but also a risk factor for cardiovascular disease. Although sustained virologic response (SVR) is achievable with interferon and ribavirin in dialysis patients, SVR rates are lower, and the use of ribavirin is challenging because of the risk of hemolytic anemia. Recently, interferon‐ribavirin free direct acting antivirals (DAAs) treatment has shown strong efficacy and fewer adverse events for chronic HCV infection patients without using dialysis, but there are few reports about DAAs for such patients. Thus, we conducted a study to examine the effect and safety of daclatasvir and asunaprevir in chronic hepatitis C virus genotype 1b‐infected hemodialysis patients. We treated 10 patients: seven males and three females. Before treatment, we detected resistance‐associated variants on the NS5A region, which is the L31M site variant, in two patients. Although two patients showed resistance‐associated variant, all the patients showed quick disappearance of HCV RNA in the serum and achieved a SVR12. During this therapy, no patients displayed abnormal liver function during treatment. Two patients experienced diarrhea and another one patient complained of nausea soon after treatment but these were relieved by symptomatic therapy. We report good results of treatment for chronic hepatitis C virus genotype 1b ‐infected patients on hemodialysis with all oral DAAs (daclatasvir and asunaprevir).