bluuebunny/crossref_metadata_2025_split huggingface dataset:
Communicating About Animal Research with the Public
Authors: MacArthur Clark Judy , Clifford Paula , Jarrett Wendy , Pekow Cynthia 
Published: April 2019

Abstract
Animals play a key role in biomedical research and other areas of scientific inquiry. But public opinion plays a key role in influencing how this area of science is regulated and funded. Nevertheless, scientists have historically been reticent to speak openly about their animal research or to open their animal facilities to the public in any way. Consequently, most of the available information has come from those opposed to animal research.
This imbalance has led to suspicion and lagging public support for this work. To reverse this effect, efforts are now being made in many parts of the world to increase openness and transparency in this sector. The authors firmly believe that encouraging more institutions to join this movement, focused on better and greater communication, is essential to preserve the research community’s “permission” to perform justifiable studies involving animals.
For the purposes of this article, we consider “the public” to include that cross-section of society who may be asked their views in opinion poll studies and who may vote in elections. It also includes other influential groups such as the media, scientists working in other disciplines, animal welfare groups, and politicians who may shape regulatory frameworks.
Public opinion on this issue matters. The majority of funding for biomedical research comes, either directly or indirectly, from the public purse. In the case of pharmaceutical research, funding derives from selling medicines to consumers. We therefore all have a vested interest in this funding. Furthermore, legislation that covers the use of animals in research is permissive—it allows scientists to do things that might otherwise contravene animal welfare laws. But this permission is normally contingent on complying with strict protective measures designed to ensure the work stays within the ethical framework that public opinion has deemed appropriate.
Open and transparent communication is the best way to promote public understanding. There is thus a responsibility on all those involved in animal research, whether scientists, animal care staff, physicians, veterinarians, members of ethics committees, or managers and leaders, to support and promote public awareness and trust in this work. Circumstantial evidence shows that, with such open dialogue, there is decreased targeting and harassment of individuals and job pride and satisfaction for all involved is improved.
A mass conserving mixed stress formulation for the Stokes equations
Authors: Gopalakrishnan Jay , Lederer Philip L , Schöberl Joachim 
Published: April 2019

AbstractWe propose stress formulation of the Stokes equations. The velocity $u$ is approximated with $H(\operatorname{div})$-conforming finite elements providing exact mass conservation. While many standard methods use $H^1$-conforming spaces for the discrete velocity $H(\operatorname{div})$-conformity fits the considered variational formulation in this work. A new stress-like variable $\sigma $ equalling the gradient of the velocity is set within a new function space $H(\operatorname{curl} \operatorname{div})$. New matrix-valued finite elements having continuous ‘normal-tangential’ components are constructed to approximate functions in $H(\operatorname{curl} \operatorname{div})$. An error analysis concludes with optimal rates of convergence for errors in $u$ (measured in a discrete $H^1$-norm), errors in $\sigma $ (measured in $L^2$) and the pressure $p$ (also measured in $L^2$). The exact mass conservation property is directly related to another structure-preservation property called pressure robustness, as shown by pressure-independent velocity error estimates. The computational cost measured in terms of interface degrees of freedom is comparable to old and new Stokes discretizations.
Mapping gender transition sentiment patterns via social media data: toward decreasing transgender mental health disparities
Authors: Haimson Oliver L 
Published: April 2019

AbstractObjectiveTransgender people face substantial mental health disparities, and this population’s emotional well-being can be particularly volatile during gender transition. Understanding gender transition sentiment patterns can positively impact transgender people by enabling them to anticipate, and put support in place for, particularly difficult time periods. Yet, tracking sentiment over time throughout gender transition is challenging using traditional research methods. This study’s objective was to use social media data to understand average gender transition sentiment patterns.Materials and MethodsComputational sentiment analysis and statistics were used to analyze 41 066 posts from 240 Tumblr transition blogs (online spaces where transgender people document gender transitions) to understand sentiment patterns over time and quantify relationships between transgender identity disclosures, sentiment, and social support.ResultsFindings suggest that sentiment increases over time on average throughout gender transition, particularly when people receive supportive responses to transgender identity disclosures. However, after disclosures to family members, people experienced temporary increased negative sentiment, followed by increased positive sentiment in the long term. After transgender identity disclosures on Facebook, an important means of mass disclosure, those with supportive networks experienced increased positive sentiment.ConclusionsWith foreknowledge of sentiment patterns likely to occur during gender transition, transgender people and their mental healthcare professionals can prepare with proper support in place throughout the gender transition process. Social media are a novel data source for understanding transgender people’s sentiment patterns, which can help reduce mental health disparities for this marginalized population during a particularly difficult time.
Selection biases in technology-based intervention research: patients’ technology use relates to both demographic and health-related inequities
Authors: Toscos Tammy , Drouin Michelle , Pater Jessica , Flanagan Mindy , Pfafman Rachel , Mirro Michael J 
Published: April 2019

Abstract

Objective
Researchers conduct studies with selection biases, which may limit generalizability and outcomes of intervention research. In this methodological reflection, we examined demographic and health characteristics of implantable cardioverter defibrillator patients who were excluded from an informatics intervention due to lack of access to a computer and/or the internet.

Materials and Methods
Using information gathered from surveys and electronic health records, we compared the intervention group to excluded patients on demographic factors, computer skills, patient activation, and medical history.

Results
Excluded patients were older, less educated, less engaged and activated in their health, and had worse health (ie, more medical comorbidities) than nonexcluded patients.

Discussion
Although excluded from the intervention based solely on lack of access to a computer and/or internet, excluded patients may have needed the intervention more because they were sicker with more comorbidities.

Conclusion
Researchers must be mindful of enrollment biases and demographic and health-related inequities that may exist during recruitment for technology-based interventions.
Things You Can See From There You Can't See From Here: Blind Spots in the American Perspective in IR and Their Effects
Authors: Levin Dov H , Trager Robert F 
Published: April 2019

AbstractHow do the limitations of the American perspective in international relations (IR) affect the accuracy of theorizing? We show that assumptions about the relationship between domestic and international politics that underlie significant segments of American IR scholarship are unwarranted. Publics around the world do not respond to United Nations’ and other intergovernmental organizations’ criticism of their governments in the same way that Americans do. Publics are not universally poorly informed of their country's foreign policies, and they are not equally skeptical of the value of using force for resolving disputes with other states. We demonstrate the limitations of US-based scholarship using new and unique survey data from the United States and other countries. We then address how these US-centric assumptions skew certain IR literatures and limit important research agendas pursued by American scholars.
National Perspectives and Quantitative Datasets: A Silver Lining?
Authors: Bush Sarah Sunn 
Published: April 2019

AbstractAs noted by other contributions to this special issue, an American perspective shapes many leading quantitative datasets used by international relations scholars. This tendency can lead to biased inferences, but it can also enhance scholarly accuracy under certain conditions. Precisely because some datasets reflect national perspectives, they are appropriate to use when seeking to test theories in which the actors of interest subscribe to the same national perspective. This argument is illustrated with the case of US democracy assistance. Using an appropriate measure of democracy reveals that—contrary to some claims in the literature—US policy-makers allocate democracy assistance in ways that reflect their perceptions of countries’ regime types, giving less democracy assistance to countries that they perceive as more democratic.
Radioprotective effect of newly synthesized toll-like receptor 5 agonist, KMRC011, in mice exposed to total-body irradiation
Authors: Kim Jun-Young , Park Jong-Hyung , Seo Sun-Min , Park Jin-Il , Jeon Hee-Yeon , Lee Han-Kyul , Yoo Ran-Ji , Lee Yong-Jin , Woo Sang-Keun , Lee Woo-Jong , Choi Chi-Min , Choi Yang-Kyu 
Published: April 2019

Abstract
Exposure to ionizing radiation leads to severe damages in radiosensitive organs and induces acute radiation syndrome, including effects on the hematopoietic system and gastrointestinal system. In this study, the radioprotective ability of KMRC011, a novel toll-like receptor 5 (TLR5) agonist, was investigated in C57BL6/N mice exposed to lethal total-body gamma-irradiation. In a 30-day survival study, KMRC011-treated mice had a significantly improved survival rate compared with control after 11 Gy total-body irradiation (TBI), and it was found that the radioprotective activity of KMRC011 depended on its dosage and repeated treatment. In a 5-day short-term study, we demonstrated that KMRC011 treatment stimulated cell proliferation and had an anti-apoptotic effect. Furthermore, KMRC011 increased the expressions of genes related to DNA repair, such as Rad21, Gadd45b, Sod2 and Irg1, in the small intestine of lethally irradiated mice. Interestingly, downregulation of NF-κB p65 in the mouse intestine by KMRC011 treatment was observed. This data indicated that KMRC011 exerted a radioprotective activity partially by regulating NF-κB signaling. Finally, peak expression levels of G-CSF, IL-6, IFN-γ, TNF-α and IP-10 induced by KMRC011 treatment were different depending on the route of administration and type of cytokine. These cytokines could be used as candidate biomarkers for the evaluation of KMRC011 clinical efficacy. Our data indicated that KMRC011 has radioprotective activity in lethally irradiated mice and may be developed as a therapeutic agent for radioprotection.
Safety, Health and Trauma among Newly Arrived Refugees in Greece
Authors: Stathopoulou Theoni , Avrami Lydia , Kostaki Anastasia , Cavounidis Jennifer , Eikemo Terje Andreas 
Published: April 2019

Abstract
This study identifies factors that affect safety, health and trauma among refugees and asylum seekers newly arrived and accommodated in Greece. The data of this study was collected from the REHEAL (Refugees’ Healing) project—a population-based survey conducted in six Greek refugee camps during the summer of 2016. We specified two binary logistic-regression models—one for safety and a second for health—as well as a multiple linear-regression model for the trauma score. Safety, health and trauma among refugees appear to be attributable to both pre- and post-displacement factors. The analysis shows that the mental and physical wellbeing of refugees and asylum seekers is strongly affected by post-displacement factors and, more specifically, by exposure to stressors in host countries, such as poor living conditions, limited access to health-care services and uncertainty about the future.
Panel Survey Recruitment with or Without Interviewers? Implications for Nonresponse, Panel Consent, and Total Recruitment Bias
Authors: Sakshaug Joseph W , Hülle Sebastian , Schmucker Alexandra , Liebig Stefan 
Published: April 2019

AbstractPanel surveys are increasingly experimenting with the use of self-administered modes of data collection as alternatives to more expensive interviewer-administered modes. As data collection costs continue to rise, it is plausible that future panel surveys will forego interviewer administration entirely. We examine the implications of this scenario for recruitment bias in the first wave of a panel survey of employees in Germany. Using an experimental multi-mode design and detailed administrative record data available for the full sample, we investigate the magnitude of two sources of panel recruitment bias: nonresponse and panel consent (i.e., consent to follow-up interview). Across 29 administrative estimates, we find relative measures of aggregate nonresponse bias to be comparable between face-to-face and self-administered (mail/Web) recruitment modes, on average. Furthermore, we find the magnitude of panel consent bias to be more severe in self-administered surveys, but that implementing follow-up conversion procedures with the non-consenters diminishes panel consent bias to near-negligible levels. Lastly, we find the total recruitment bias (nonresponse and panel consent) to be similar in both mode groups—a reassuring result that is facilitated by the panel consent follow-up procedures. Implications of these findings for survey practice and suggestions for future research are provided in conclusion.
Arabidopsis glucosinolate storage cells transform into phloem fibres at late stages of development
Authors: Hunziker Pascal , Halkier Barbara Ann , Schulz Alexander 
Published: April 2019

Abstract
The phloem cap of Arabidopsis thaliana accumulates glucosinolates that yield toxic catabolites upon damage-induced hydrolysis. These defence compounds are stored in high concentrations in millimetre long S-cells. At early stages of development, S-cells initiate a process indicative of programmed cell death. How these cells are maintained in a highly turgescent state following this process is currently unknown. Here, we show that S-cells undergo substantial morphological changes during early differentiation. Vacuolar collapse and rapid clearance of the cytoplasm did not occur until senescence. Instead, smooth endoplasmic reticulum, Golgi bodies, vacuoles, and undifferentiated plastids were observed. Lack of chloroplasts indicates that S-cells depend on metabolite supply from neighbouring cells. Interestingly, TEM revealed numerous plasmodesmata between S-cells and neighbouring cells. Photoactivation of a symplasmic tracer showed coupling with neighbouring cells that are involved in glucosinolate synthesis. Hence, symplasmic transport might contribute to glucosinolate storage in S-cells. To investigate the fate of S-cells, we traced them in flower stalks from the earliest detectable stages to senescence. At late stages, S-cells were shown to deposit thick secondary cell walls and transform into phloem fibres. Thus, phloem fibres in the herbaceous plant Arabidopsis pass a pronounced phase of chemical defence during early stages of development.
AutoMLST: an automated web server for generating multi-locus species trees highlighting natural product potential
Authors: Alanjary Mohammad , Steinke Kat , Ziemert Nadine 
Published: April 2019

Abstract
Understanding the evolutionary background of a bacterial isolate has applications for a wide range of research. However generating an accurate species phylogeny remains challenging. Reliance on 16S rDNA for species identification currently remains popular. Unfortunately, this widespread method suffers from low resolution at the species level due to high sequence conservation. Currently, there is now a wealth of genomic data that can be used to yield more accurate species designations via modern phylogenetic methods and multiple genetic loci. However, these often require extensive expertise and time. The Automated Multi-Locus Species Tree (autoMLST) was thus developed to provide a rapid ‘one-click’ pipeline to simplify this workflow at: https://automlst.ziemertlab.com. This server utilizes Multi-Locus Sequence Analysis (MLSA) to produce high-resolution species trees; this does not preform multi-locus sequence typing (MLST), a related classification method. The resulting phylogenetic tree also includes helpful annotations, such as species clade designations and secondary metabolite counts to aid natural product prospecting. Distinct from currently available web-interfaces, autoMLST can automate selection of reference genomes and out-group organisms based on one or more query genomes. This enables a wide range of researchers to perform rigorous phylogenetic analyses more rapidly compared to manual MLSA workflows.
LitSense: making sense of biomedical literature at sentence level
Authors: Allot Alexis , Chen Qingyu , Kim Sun , Vera Alvarez Roberto , Comeau Donald C , Wilbur W John , Lu Zhiyong 
Published: April 2019

AbstractLiterature search is a routine practice for scientific studies as new discoveries build on knowledge from the past. Current tools (e.g. PubMed, PubMed Central), however, generally require significant effort in query formulation and optimization (especially in searching the full-length articles) and do not allow direct retrieval of specific statements, which is key for tasks such as comparing/validating new findings with previous knowledge and performing evidence attribution in biocuration. Thus, we introduce LitSense, which is the first web-based system that specializes in sentence retrieval for biomedical literature. LitSense provides unified access to PubMed and PMC content with over a half-billion sentences in total. Given a query, LitSense returns best-matching sentences using both a traditional term-weighting approach that up-weights sentences that contain more of the rare terms in the user query as well as a novel neural embedding approach that enables the retrieval of semantically relevant results without explicit keyword match. LitSense provides a user-friendly interface that assists its users to quickly browse the returned sentences in context and/or further filter search results by section or publication date. LitSense also employs PubTator to highlight biomedical entities (e.g. gene/proteins) in the sentences for better result visualization. LitSense is freely available at https://www.ncbi.nlm.nih.gov/research/litsense.
Postoperative Hearing Preservation in Patients Undergoing Retrosigmoid Craniotomy for Resection of Vestibular Schwannomas: A Systematic Review of 2034 Patients
Authors: Preet Komal , Ong Vera , Sheppard John P , Udawatta Methma , Duong Courtney , Romiyo Prasanth , Nguyen Thien , Kwan Isabelle , Yang Isaac 
Published: April 2019

Abstract

BACKGROUND
Vestibular schwannomas (VS) are benign tumors derived from Schwann cells ensheathing the vestibulocochlear nerve. The retrosigmoid (RS) surgical approach is useful to resect tumors of multiple sizes while affording the possibility of preserving postoperative hearing.

OBJECTIVE
To conduct a systematic review of published literature investigating hearing preservation rates in patients who underwent the RS approach for VS treatment.

METHODS
The PubMed, Scopus, and Embase databases were surveyed for studies that reported preoperative and postoperative hearing grades on VS patients who underwent RS treatment. Hearing preservation rates were calculated, and additional patient demographic data were extracted. Tumor size data were stratified to compare hearing preservation rates after surgery for intracanalicular, small (0-20 mm), and large (>20 mm) tumors.

RESULTS
Of 383 deduplicated articles, 26 studies (6.8%) met eligibility criteria for a total of 2034 patients with serviceable preoperative hearing, for whom postoperative hearing status was evaluated. Aggregate hearing preservation was 31% and 35% under a fixed and random effects model, respectively. A mixed effects model was used to determine hearing preservation rates depending on tumor size, which were determined to be 57%, 37%, and 12% for intracanalicular, small, and large tumors, respectively. Significant cross-study heterogeneity was found (I2 = 93%, τ2 = .964, P < .01; Q = 287.80, P = < .001), with rates of hearing preservation ranging from 0% to 100%.

CONCLUSION
Tumor size may have an effect on hearing preservation rates, but multiple factors should be considered. Discussion of a patient's expectations for hearing preservation is critical when deciding on VS treatment plans.
Weak Assertion
Authors: Incurvati Luca , Schlöder Julian J 
Published: April 2019

AbstractWe present an inferentialist account of the epistemic modal operator might. Our starting point is the bilateralist programme. A bilateralist explains the operator not in terms of the speech act of rejection; we explain the operator might in terms of weak assertion, a speech act whose existence we argue for on the basis of linguistic evidence. We show that our account of might provides a solution to certain well-known puzzles about the semantics of modal vocabulary whilst retaining classical logic. This demonstrates that an inferentialist approach to meaning can be successfully extended beyond the core logical constants.
Backlash: The Unintended Effects of Language Prohibition in U.S. Schools after World War I
Authors: Fouka Vasiliki 
Published: April 2019

AbstractDo forced assimilation policies always succeed in integrating immigrant groups? This article examines how a specific assimilation policy—language restrictions in elementary school—affects integration and identification with the host country later in life. After World War I, several U.S. states barred the German language from their schools. Affected individuals were less likely to volunteer in World War II and more likely to marry within their ethnic group and to choose decidedly German names for their offspring. Rather than facilitating the assimilation of immigrant children, the policy instigated a backlash, heightening the sense of cultural identity among the minority.
Idiosyncratic Jump Risk Matters: Evidence from Equity Returns and Options
Authors: Bégin Jean-François , Dorion Christian , Gauthier Geneviève 
Published: April 2019

Abstract
The recent literature provides conflicting empirical evidence about the pricing of idiosyncratic risk. This paper sheds new light on the matter by exploiting the richness of option data. First, we find that idiosyncratic risk explains 28% of the variation in the risk premium on a stock. Second, we show that the contribution of idiosyncratic risk to the equity premium arises exclusively from jump risk. Third, we document that the commonality in idiosyncratic tail risk is much stronger than that in total idiosyncratic risk documented in the literature. Tail risk thus plays a central role in the pricing of idiosyncratic risk.
Received May 15, 2017; editorial decision September 12, 2018 by Editor Stijn Van Nieuwerburgh. Authors have furnished code and an Internet Appendix, which are available on the Oxford University PressWeb site next to the link to the final published paper online.