bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quantum critical scaling and fluctuations in Kondo lattice materials
Authors: Yang Yi-feng , Pines David , Lonzarich Gilbert 
Published: May 2017

Significance
Quantum critical materials contain quantum critical points (QCP) associated with continuous phase transitions between ordered states at zero temperature that give rise to strong quantum fluctuations of order parameter fields. Their coupling to conduction electrons in metals typically yields logarithmic or power law scaling in their electronic properties. Here, we study a particularly interesting class of quantum critical materials, Kondo lattice materials, composed of interacting local moments and conduction electrons. We propose a phenomenological framework based on the interplay of the fluctuations associated with their antiferromagnetic and delocalization QCPs and show that it explains the many anomalous scaling properties measured in these materials.
Exploring the Use of Environmental DNA to Determine the Species of Salmon Redds
Authors: Strobel Burke , Laramie Matthew B. , Pilliod David S. 
Published: May 2017

Abstract
Annual redd counts are used to monitor the status and trends of salmonid populations, but methods to easily and reliably determine which of sympatric species made specific redds are lacking. We explored whether environmental DNA (eDNA) analysis might prove useful for assigning salmon redds to the species of origin. We collected eDNA samples from the interstitial spaces of redds constructed by Chinook Salmon Oncorhynchus tshawytscha, redds constructed by Coho Salmon O. kisutch, and areas of undisturbed gravel (n = 10 of each type) as well as from the water column adjacent to each of those sites in the Sandy River basin, Oregon, during fall 2013. The concentrations of Chinook Salmon and Coho Salmon eDNA were quantified within each sample by using real-time PCR. The water in the interstitial spaces of redds contained significantly higher concentrations of eDNA from the species that made the redd than from the other species; concentrations of eDNA from the species that built the redd were also significantly higher in the redd than in the adjacent water column. In contrast, within samples of water from the interstitial spaces of undisturbed gravel, neither Chinook Salmon eDNA nor Coho Salmon eDNA was significantly more concentrated than the other. The interstitial water of undisturbed gravel contained significantly higher Coho Salmon eDNA concentrations than the adjacent water column. In contrast, Chinook Salmon eDNA concentrations in the interstitial water of undisturbed gravel and in the adjacent water column were similar. Both species’ redds had significantly higher concentrations of their respective eDNA than did undisturbed gravel, but conclusions were confounded by differences in the timing and locations of sampling. This initial investigation highlights the potential value and some of the complexities involved in using eDNA analysis to identify the species that constructed a given redd.
Received November 18, 2016; accepted May 20, 2017Published online August 4, 2017
Environmental Drivers of the Spatial and Temporal Distribution of Spawning Blue Crabs Callinectes sapidus in the Western Gulf of Mexico
Authors: Anderson Joel , Olsen Zachary , Glen Sutton Tom Wagner , Gelpi Carey , Topping Darin 
Published: May 2017

Abstract
The blue crab Callinectes sapidus is an economically important shellfish found in the Gulf of Mexico and elsewhere. Recent declines in abundance of this species have driven progressive management actions throughout its range, including protection of spawning females by establishing “no-take” zones on the Atlantic coast. To date, no-take zones have not been established in the western Gulf of Mexico, although annual closures associated with mitigation of derelict traps exist in both Texas and Louisiana. In this study, we used long-term data acquired via fishery-independent sampling by the Texas Parks and Wildlife Department to assess spatial and seasonal distribution of spawning females in order to inform future evaluations of no-take areas. The presence of spawning females was modeled statistically by using water quality and spatial variables as predictors. Distance to the nearest Gulf pass was the most reliable predictor of presence, accounting for over 43% of the deviance observed in models from two independent sampling eras. Salinity (&gt;21% of deviance) and temperature (&gt;12% of deviance) were also reliable predictors, and the values of salinity and temperature that were associated with peak presence remained consistent over an approximately 30-year span despite increasing mean annual values of both variables through time. Peak presence in spawning grounds now occurs in early spring (March–April), contrasting with historical peak presence in the summer (June–July). These data imply seasonal shifts in spawning behavior despite relative spatial consistency through time, suggesting that Gulf pass areas would be ideal for protection of spawning blue crabs via no-take zones if such a measure is deemed necessary.
Received March 6, 2017; accepted May 18, 2017 Published online July 19, 2017
Turning the world to glass: poetic sensibility and the decolonization of imagination
Authors: Butler Jason 
Published: May 2017

ABSTRACTThe rupture between event and meaning has shown itself to be a key issue plaguing collective psychology. This rupture requires as remedy a poetic sensibility that can imagine the central images or root metaphors which make experience qualitatively intelligible, an imaginal literacy that reads images while also making new images from that which is presented. Bachelard’s [(1988).Air and dreams: An essay on the imagination of movement] notion of images as liberatory, disentangling one from superficial impressions by transmuting surface to depth, and Hillman’s [(1975).Re-visioning psychology] move of ‘seeing through’ the archetypal images expressed in events will serve as foundational ideas for the author’s description of poetic sensibility as the capacity to read and make images through ‘deform[ing] what we perceive’ (p. 1). The author will highlight the central function of poetic sensibility as an essential engagement of imagination required by any movement resisting the neocolonial policies and ‘inverted totalitarianism’ [Wolin, S. (2003). Inverted totalitarianism: How the Bush regime is effecting the transformation to a fascist-like state] of the corporate and political state.
Repeated Impact Method and Devices to Simulate the Impact Fatigue Property of Drillstring
Authors: Lin Y H , Li B , Pan J , Li Q , Liu W Y , Pan Y 
Published: May 2017

Abstract
It is well known that drillstring failures are a pendent problem in drilling engineering, because of the fatigue accumulation caused by the low amplitude-repeated impact. In order to reveal the effect of low amplitude-repeated impact on the failure mechanism of the drillstring, a repeated impact method and instrument have been developed based on the Charpy impact method, by which a series of tests have been performed in the condition of non-corrosive medium and with H2S environment respective. Test results of non-corrosive medium environment indicates that, with the increase of single impact energy, the low amplitude-repeated impact resistance of drillstring decreases significantly; For H2S corrosion environment, the low amplitude-repeated impact resistances with H2S is much lower than that without H2S corrosion, and high strength material such as V-150 drillstring is more sensitive to H2S corrosion media. Furthermore, based on the experiment data, the accumulation fatigue model to predict the service life of the drillstring is developed, which could be used to predict the fatigue life. Research fruits are very vital to select a suitable rotational speed for drilling job and drillstring design.
COMPASS: the COMPletely Arbitrary Sequence Simulator
Authors: Low Andrew , Rodrigue Nicolas , Wong Alex 
Published: May 2017

Abstract

Summary
Simulated sequence alignments are frequently used to test bioinformatics tools, but current sequence simulators are limited to defined state spaces. Here, we present the COMPletely Arbitrary Sequence Simulator (COMPASS), which is able to simulate the evolution of absolutely any discrete state space along a tree, for any form of time-reversible model.

Availability and implementation
COMPASS is implemented in Python 2.7, and is freely available for all platforms with the Supplementary Information, as well as at http://labs.carleton.ca/eme/software-and-data.

Supplementary information
Supplementary data are available at Bioinformatics online.
ISAMBARD: an open-source computational environment for biomolecular analysis, modelling and design
Authors: Wood Christopher W , Heal Jack W , Thomson Andrew R , Bartlett Gail J , Ibarra Amaurys Á , Brady R Leo , Sessions Richard B , Woolfson Derek N 
Published: May 2017

Abstract

Motivation
The rational design of biomolecules is becoming a reality. However, further computational tools are needed to facilitate and accelerate this, and to make it accessible to more users.

Results
Here we introduce ISAMBARD, a tool for structural analysis, model building and rational design of biomolecules. ISAMBARD is open-source, modular, computationally scalable and intuitive to use. These features allow non-experts to explore biomolecular design in silico. ISAMBARD addresses a standing issue in protein design, namely, how to introduce backbone variability in a controlled manner. This is achieved through the generalization of tools for parametric modelling, describing the overall shape of proteins geometrically, and without input from experimentally determined structures. This will allow backbone conformations for entire folds and assemblies not observed in nature to be generated de novo, that is, to access the ‘dark matter of protein-fold space’. We anticipate that ISAMBARD will find broad applications in biomolecular design, biotechnology and synthetic biology.

Availability and implementation
A current stable build can be downloaded from the python package index (https://pypi.python.org/pypi/isambard/) with development builds available on GitHub (https://github.com/woolfson-group/) along with documentation, tutorial material and all the scripts used to generate the data described in this paper.

Supplementary information
Supplementary data are available at Bioinformatics online.
What to expect from dynamical modelling of galactic haloes
Authors: Wang Wenting , Han Jiaxin , Cole Shaun , Frenk Carlos , Sawala Till 
Published: May 2017

AbstractMany dynamical models of the Milky Way halo require assumptions that the distribution function of a tracer population should be independent of time (i.e. a steady-state distribution function) and that the underlying potential is spherical. We study the limitations of such modelling by applying a general dynamical model with minimal assumptions to a large sample of galactic haloes from cosmological N-body and hydrodynamical simulations. Using dark matter particles as dynamical tracers, we find that the systematic uncertainties in the measured mass and concentration parameters typically have an amplitude of 25–40 per cent. When stars are used as tracers, however, the systematic uncertainties can be as large as a factor of 2–3. The systematic uncertainties are not reduced by increasing the tracer sample size and vary stochastically from halo to halo. These systematic uncertainties are mostly driven by underestimated statistical noise caused by correlated phase-space structures that violate the steady-state assumption. The number of independent phase-space structures inferred from the uncertainty level sets a limiting sample size beyond which a further increase no longer significantly improves the accuracy of dynamical inferences. The systematic uncertainty level is determined by the halo merger history, the shape and environment of the halo. Our conclusions apply generally to any spherical steady-state model.
Energetic constraints on electromagnetic signals from double black hole mergers
Authors: Dai Lixin , McKinney Jonathan C. , Miller M. Coleman 
Published: May 2017

Abstract
The possible Fermi detection of an electromagnetic counterpart to the double black hole merger GW150914 has inspired many theoretical models, some of which propose that the holes spiralled together inside a massive star. However, we show that the heat produced by the dynamical friction on such black hole orbits can exceed the stellar binding energy by a large factor, which means that this heat could destroy the star. The energy scale of the explosion and the terminal velocity of the gas can be much larger than those in conventional supernovae. If the star unbinds before the merger, it would be hard for enough gas to remain near the holes at the merger to produce a gamma-ray burst, and this consideration should be taken into account when models are proposed for electromagnetic counterparts to the coalescence of two stellar-mass black holes. We find that only when the two black holes form very close to the centre can the star certainly avoid destruction. In that case, dynamical friction can make the black holes coalesce faster than they would in vacuum, which leads to a modification of the gravitational waveform that is potentially observable by advanced LIGO.
The Educational Climate Inventory: Measuring Students’ Perceptions of the Preclerkship and Clerkship Settings
Authors: Krupat Edward , Borges Nicole J. , Brower Richard D. , Haidet Paul M. , Schroth W. Scott , Fleenor Thomas J. , Uijtdehaage Sebastian 
Published: May 2017

Purpose
To develop an instrument to assess educational climate, a critical aspect of the medical school learning environment that previous tools have not explored in depth.

Method
Fifty items were written, capturing aspects of Dweck’s performance–learning distinction, to distinguish students’ perceptions of the educational climate as learning/mastery oriented (where the goal is growth and development) versus performance oriented (where the goal is appearance of competence). These items were included in a 2014 survey of first-, second-, and third-year students at six diverse medical schools. Students rated their preclerkship or clerkship experiences and provided demographic and other data. The final Educational Climate Inventory (ECI) was determined via exploratory and confirmatory factor analysis. Relationships between scale scores and other variables were calculated.

Results
Responses were received from 1,441/2,590 students (56%). The 20-item ECI resulted, with three factors: centrality of learning and mutual respect; competitiveness and stress; and passive learning and memorization. Clerkship students’ ratings of their learning climate were more performance oriented than preclerkship students’ ratings (P < .001). Among preclerkship students, ECI scores were more performance oriented in schools with grading versus pass–fail systems (P < .04). Students who viewed their climate as more performance oriented were less satisfied with their medical school (P < .001) and choice of medicine as a career (P < .001).

Conclusions
The ECI allows educators to assess students’ perceptions of the learning climate. It has potential as an evaluation instrument to determine the efficacy of attempts to move health professions education toward learning and mastery.
Considerations for Residency Programs Regarding Accepting Undocumented Students Who Are DACA Recipients
Authors: Nakae Sunny , Rojas Marquez Denisse , Di Bartolo Isha Marina , Rodriguez Raquel 
Published: May 2017

The Deferred Action for Childhood Arrivals (DACA) initiative provides for the temporary deferral of enforcement of immigration laws for certain undocumented individuals brought to the United States before age 16. More than 50 medical schools now consider applicants who are DACA recipients, and medical school graduates with DACA are eligible to continue their training in graduate medical education. In this article, the authors summarize current policy and provide data on DACA recipients in medical school. They then review the implications for considering DACA recipients in graduate medical education, including employment guidelines, employer responsibilities, training at Veterans Affairs facilities, research funding, and professional licensure. They conclude by discussing the future of the DACA program and best practices for supporting students who are DACA recipients.
First, there are no employment restrictions for DACA recipients with valid work authorization documents as long as their employers use Form I-9 Employment Eligibility Verification. Second, unlike H-1B or J-1 visa holders, DACA recipients do not generate additional immigration-related costs for their residency programs. Next, provisions in the Civil Rights Act prohibit employers from discriminating against applicants based on national origin or, in some cases, citizenship status. Furthermore, trainees with DACA are eligible to rotate through Veterans Affairs facilities. Finally, some states, like California and New York, have adopted policies and regulations allowing trainees with DACA who meet all professional requirements to receive a medical license. Given this state of affairs, DACA recipients should have equal standing to their peers when being evaluated for residency positions.
Development of a Self-Rated Mixed Methods Skills Assessment: The National Institutes of Health Mixed Methods Research Training Program for the Health Sciences
Authors: Guetterman Timothy C. , Creswell John W. , Wittink Marsha , Barg Fran K. , Castro Felipe G. , Dahlberg Britt , Watkins Daphne C. , Deutsch Charles , Gallo Joseph J. 
Published: May 2017

Introduction:
Demand for training in mixed methods is high, with little research on faculty development or assessment in mixed methods. We describe the development of a self-rated mixed methods skills assessment and provide validity evidence. The instrument taps six research domains: “Research question,” “Design/approach,” “Sampling,” “Data collection,” “Analysis,” and “Dissemination.” Respondents are asked to rate their ability to define or explain concepts of mixed methods under each domain, their ability to apply the concepts to problems, and the extent to which they need to improve.

Methods:
We administered the questionnaire to 145 faculty and students using an internet survey. We analyzed descriptive statistics and performance characteristics of the questionnaire using the Cronbach alpha to assess reliability and an analysis of variance that compared a mixed methods experience index with assessment scores to assess criterion relatedness.

Results:
Internal consistency reliability was high for the total set of items (0.95) and adequate (≥0.71) for all but one subscale. Consistent with establishing criterion validity, respondents who had more professional experiences with mixed methods (eg, published a mixed methods article) rated themselves as more skilled, which was statistically significant across the research domains.

Discussion:
This self-rated mixed methods assessment instrument may be a useful tool to assess skills in mixed methods for training programs. It can be applied widely at the graduate and faculty level. For the learner, assessment may lead to enhanced motivation to learn and training focused on self-identified needs. For faculty, the assessment may improve curriculum and course content planning.
Health Professions Education Graduate Programs Are a Pathway to Strengthening Continuing Professional Development
Authors: Cervero Ronald M. , Artino Anthony R. , Daley Barbara J. , Durning Steven J. 
Published: May 2017

Abstract:
The need to strengthen the preparation of individuals leading and providing continuing professional development (CPD) programs has grown dramatically within the current health care context. CPD is an integral part of the continuum of health professions education and cuts across the multiple disciplines and professions delivering health care. Each health care profession needs not only to keep up to date on new information within their specific discipline but also continue to develop and expand skills in areas that link interdisciplinary areas, such as quality of care delivery and communication skills, across various professions. In this article, we examine the changing context in which CPD is provided and explain how graduate programs in health professions education can be used as a strategy to strengthen the preparation of individuals for CPD practice and advance the delivery of CPD through evidence-based and innovative strategies.
A theory of eu-estrogenemia: a unifying concept
Authors: Turner Ralph J. , Kerber Irwin J. 
Published: May 2017

Abstract

Objective:
The aim of the study was to propose a unifying theory for the role of estrogen in postmenopausal women through examples in basic science, randomized controlled trials, observational studies, and clinical practice.

Methods:
Review and evaluation of the literature relating to estrogen.

Discussion:
The role of hormone therapy and ubiquitous estrogen receptors after reproductive senescence gains insight from basic science models. Observational studies and individualized patient care in clinical practice may show outcomes that are not reproduced in randomized clinical trials. The understanding gained from the timing hypothesis for atherosclerosis, the critical window theory in neurosciences, randomized controlled trials, and numerous genomic and nongenomic actions of estrogen discovered in basic science provides new explanations to clinical challenges that practitioners face. Consequences of a hypo-estrogenemic duration in women's lives are poorly understood. The Study of Women Across the Nation suggests its magnitude is greater than was previously acknowledged. We propose that the healthy user bias was the result of surgical treatment (hysterectomy with oophorectomy) for many gynecological maladies followed by pharmacological and physiological doses of estrogen to optimize patient quality of life. The past decade of research has begun to demonstrate the role of estrogen in homeostasis.

Conclusions:
The theory of eu-estrogenemia provides a robust framework to unify the timing hypothesis, critical window theory, randomized controlled trials, the basic science of estrogen receptors, and clinical observations of patients over the past five decades.
INTERMEDIATE UVEITIS ASSOCIATED WITH PERIODIC FEVER, APHTHOUS STOMATITIS, PHARYNGITIS, AND CERVICAL ADENITIS SYNDROME
Authors: Choi Rene Y. , Shakoor Akbar , Bohnsack John , Vitale Albert T. 
Published: May 2017

Background/Purpose:
To report two novel cases of intermediate uveitis associated with Periodic Fever, Aphthous Stomatitis, Pharyngitis, and Cervical Adenitis syndrome.

Methods:
Observational case reports and review of the literature.

Results:
Both patients in this report had an established diagnosis of Periodic Fever, Aphthous Stomatitis, Pharyngitis, and Cervical Adenitis syndrome before the onset of ocular inflammation. Infectious and noninfectious systemic conditions known to be associated with intermediate uveitis were excluded. Intermediate uveitis was confirmed clinically in both patients by the presence of vitritis, snowballs, and peripheral snowbanks in the region of the pars plana. Both cases had a course characterized by recurrent inflammation; in which systemic steroid treatment, and in one case, immunomodulatory therapy was necessary.

Conclusion:
Periodic Fever, Aphthous Stomatitis, Pharyngitis, and Cervical Adenitis syndrome is an auto-inflammatory fever disorder in childhood. Although other auto-inflammatory disorders such as, Blau syndrome, Muckle-Wells syndrome, and Behcets disease have been associated with various forms of uveitis, Periodic Fever, Aphthous Stomatitis, Pharyngitis, and Cervical Adenitis has never been reported to be associated with any type of ocular inflammation. We describe for the first time, two cases of Periodic Fever, Aphthous Stomatitis, Pharyngitis, and Cervical Adenitis syndrome presenting with intermediate uveitis.