bluuebunny/crossref_metadata_2025_split huggingface dataset:
Leading Practices and Future Directions for Technical Standards in Medical Education
Authors: Kezar Laura B. , Kirschner Kristi L. , Clinchot Daniel M. , Laird-Metke Elisa , Zazove Philip , Curry Raymond H. 
Published: November 2018

The medical profession first addressed the need for technical standards (TS), defining the nonacademic requirements deemed essential for participation in an educational program, in guidelines published by the Association of American Medical Colleges in 1979. Despite many changes in the practice of medicine and legal, cultural, and technological advances that afford greater opportunities for people with disabilities, the profession’s approach to TS largely has not changed over the ensuing four decades. Although physicians with disabilities bring unique perspectives to medicine and contribute to a diverse physician workforce of culturally competent practitioners, they remain underrepresented in the profession.
As part of an initiative sponsored by the Association of Academic Physiatrists, the authors describe the need for an updated TS framework, outlining interval changes in the legal and regulatory climate, medical practice, and medical education since the initial TS guidelines were put forth. They conclude by offering eight recommendations and two functional approaches to TS that are consistent with now-prevalent competency-based medical education constructs.
The profession’s commitment to diversity and inclusion should extend explicitly to people with disabilities, and this stance should be clearly communicated through medical schools’ TS and procedures for requesting accommodations. To this end, schools should consider the principles of universal design to create policies and assessments that work for all learners, to the greatest extent possible, without the need for after-the-fact accommodations. A thoughtful and concerted effort along these lines is long overdue in medical education.
Simulation-based Assessment to Reliably Identify Key Resident Performance Attributes
Authors: Blum Richard H. , Muret-Wagstaff Sharon L. , Boulet John R. , Cooper Jeffrey B. , Petrusa Emil R. 
Published: November 2018

Abstract

Background
Obtaining reliable and valid information on resident performance is critical to patient safety and training program improvement. The goals were to characterize important anesthesia resident performance gaps that are not typically evaluated, and to further validate scores from a multiscenario simulation-based assessment.

Methods
Seven high-fidelity scenarios reflecting core anesthesiology skills were administered to 51 first-year residents (CA-1s) and 16 third-year residents (CA-3s) from three residency programs. Twenty trained attending anesthesiologists rated resident performances using a seven-point behaviorally anchored rating scale for five domains: (1) formulate a clear plan, (2) modify the plan under changing conditions, (3) communicate effectively, (4) identify performance improvement opportunities, and (5) recognize limits. A second rater assessed 10% of encounters. Scores and variances for each domain, each scenario, and the total were compared. Low domain ratings (1, 2) were examined in detail.

Results
Interrater agreement was 0.76; reliability of the seven-scenario assessment was r = 0.70. CA-3s had a significantly higher average total score (4.9 ± 1.1 vs. 4.6 ± 1.1, P = 0.01, effect size = 0.33). CA-3s significantly outscored CA-1s for five of seven scenarios and domains 1, 2, and 3. CA-1s had a significantly higher proportion of worrisome ratings than CA-3s (chi-square = 24.1, P < 0.01, effect size = 1.50). Ninety-eight percent of residents rated the simulations more educational than an average day in the operating room.

Conclusions
Sensitivity of the assessment to CA-1 versus CA-3 performance differences for most scenarios and domains supports validity. No differences, by experience level, were detected for two domains associated with reflective practice. Smaller score variances for CA-3s likely reflect a training effect; however, worrisome performance scores for both CA-1s and CA-3s suggest room for improvement.
Brief Report: Rate of Nicotine Metabolism and Tobacco Use Among Persons With HIV: Implications for Treatment and Research
Authors: Schnoll Robert A. , Thompson Morgan , Serrano Katrina , Leone Frank , Metzger David , Frank Ian , Gross Robert , Mounzer Karam , Tyndale Rachel F. , Weisbrot Jessica , Meline Miles , Collman Ronald G. , Ashare Rebecca L. 
Published: November 2018

Background:
The nicotine metabolite ratio (NMR) is a biomarker that represents individual variation in the speed that nicotine is metabolized. The rate of nicotine metabolism alters smoking behavior (eg, amount) and has been validated for personalizing tobacco dependence medication selection to increase treatment efficacy and reduce treatment side effects in the general population of smokers. Although smoking rates are extremely high among those with HIV, the NMR has not been evaluated in this underserved population.

Methods:
We used baseline data from a smoking cessation clinical trial for smokers with HIV (N = 131) to examine associations between NMR and demographic, smoking, disease-related, and psychological characteristics. Pearson r and analysis of variance were used to identify univariate correlates of NMR, which were then entered into a multiple linear regression model.

Results:
In univariate analyses, a higher NMR (faster nicotine metabolism) was associated with being white, and more cigarettes per day, nicotine dependence, exhaled carbon monoxide, and symptoms of depression and anxiety, and using efavirenz. In a multiple regression model, a higher NMR was associated with more cigarettes per day, higher anxiety symptoms, and efavirenz use.

Conclusions:
As in other populations, faster nicotine metabolism was associated with the use of more cigarettes and higher anxiety symptoms. Notably, efavirenz use was associated with faster metabolism, which might make it harder to quit smoking for people with HIV treated with that medication. These findings could help guide further study and the clinical use of the NMR to personalize nicotine dependence treatment in this underserved population.
Brief Report: Role of Sociobehavioral Factors in Subprotective TFV-DP Levels Among YMSM Enrolled in 2 PrEP Trials
Authors: Arrington-Sanders Renata , Wilson Craig M. , Perumean-Chaney Suzanne E. , Patki Amit , Hosek Sybil 
Published: November 2018

Background:
Young men who have sex with men (YMSM) experience disparities in HIV acquisition more than any other group. Daily oral pre-exposure prophylaxis (PrEP) with tenofovir/emtricitabine has been shown to effectively prevent HIV transmission in YMSM; however, recent studies suggest that young Black men who have sex with men experience subprotective levels of tenofovir diphosphate more frequently than other groups.

Setting:
Combined data from Adolescent Medicine Trials Network for HIV/AIDS Interventions (ATN) 110/113, 2 open-label PrEP studies that provided PrEP and evidence-based behavioral interventions to YMSM aged 15–22 years.

Methods:
Bivariate and logistic regression analyses were used to examine sociodemographic and behavioral factors associated with protective tenofovir diphosphate levels (defined as ≥700 fmol/punch) in ATN 110/113 data.

Results:
In bivariate analysis, self-identified Black participants, residential displacement due to sexual orientation, low perceived risk, and stigma with the medication were associated with subprotective levels. Hispanic ethnicity was associated with protective levels. In the final models, Black males were less likely to have subprotective levels than non-Black males at 4, 8, and 12 weeks. Self-reported displacement due to sexual orientation was associated with subprotective levels, whereas older age was as associated with protective levels.

Conclusions:
These findings highlight how future behavioral research and biomedical prevention efforts in YMSM will need to address PrEP disparities that may occur in young Black men who have sex with men, perception of risk, and lack of key supportive housing during this period that may be critical factors that contribute to HIV acquisition.
Possible Sertraline-Induced Hiccups in a Boy With Obsessive-Compulsive Disorder and Attention-Deficit/Hyperactivity Disorder
Authors: Bilgiç Ayhan 
Published: November 2018

AbstractHiccup is a sudden-onset repeated involuntary and spasmodic contraction of the diaphragm and intercostal muscle accompanied by laryngeal closure, generating the characteristic inspiratory sound and discomfort. Various factors including drugs may trigger the hiccups. There are some reports regarding the possible links between psychotropic agents that can affect the dopaminergic system and the triggering of hiccup; however, to our knowledge, there are no data regarding sertraline-induced hiccup. We present the case of a boy with obsessive-compulsive disorder and attention-deficit/hyperactivity disorder who displayed hiccup after sertraline therapy.
5′ and 3′ modifications controlling RNA degradation: from safeguards to executioners
Authors: Gagliardi Dominique , Dziembowski Andrzej 
Published: November 2018

RNA degradation is a key process in the regulation of gene expression. In all organisms, RNA degradation participates in controlling coding and non-coding RNA levels in response to developmental and environmental cues. RNA degradation is also crucial for the elimination of defective RNAs. Those defective RNAs are mostly produced by ‘mistakes’ made by the RNA processing machinery during the maturation of functional transcripts from their precursors. The constant control of RNA quality prevents potential deleterious effects caused by the accumulation of aberrant non-coding transcripts or by the translation of defective messenger RNAs (mRNAs). Prokaryotic and eukaryotic organisms are also under the constant threat of attacks from pathogens, mostly viruses, and one common line of defence involves the ribonucleolytic digestion of the invader's RNA. Finally, mutations in components involved in RNA degradation are associated with numerous diseases in humans, and this together with the multiplicity of its roles illustrates the biological importance of RNA degradation. RNA degradation is mostly viewed as a default pathway: any functional RNA (including a successful pathogenic RNA) must be protected from the scavenging RNA degradation machinery. Yet, this protection must be temporary, and it will be overcome at one point because the ultimate fate of any cellular RNA is to be eliminated. This special issue focuses on modifications deposited at the 5′ or the 3′ extremities of RNA, and how these modifications control RNA stability or degradation.
This article is part of the theme issue ‘5′ and 3′ modifications controlling RNA degradation’.
mRNA decapping: finding the right structures
Authors: Charenton Clément , Graille Marc 
Published: November 2018

In eukaryotes, the elimination of the m7GpppN mRNA cap, a process known as decapping, is a critical, largely irreversible and highly regulated step of mRNA decay that withdraws the targeted mRNAs from the pool of translatable templates. The decapping reaction is catalysed by a multi-protein complex formed by the Dcp2 catalytic subunit and its Dcp1 cofactor, a holoenzyme that is poorly active on its own and needs several accessory proteins (Lsm1–7 complex, Pat1, Edc1–2, Edc3 and/or EDC4) to be fully efficient. Here, we discuss the several crystal structures of Dcp2 domains bound to various partners (proteins or small molecules) determined in the last couple of years that have considerably improved our current understanding of how Dcp2, assisted by its various activators, is recruited to its mRNA targets and adopts its active conformation upon substrate recognition. We also describe how, over the years, elegant integrative structural biology approaches combined to biochemistry and genetics led to the identification of the correct structure of the active Dcp1–Dcp2 holoenzyme among the many available conformations trapped by X-ray crystallography.This article is part of the theme issue ‘5′ and 3′ modifications controlling RNA degradation’.
Fidelity in RNA-based recognition of transposable elements
Authors: Ugolini Ilaria , Halic Mario 
Published: November 2018

Genomes are under constant threat of invasion by transposable elements and other genomic parasites. How can host genomes recognize these elements and target them for degradation? This requires a system that is highly adaptable, and at the same time highly specific. Current data suggest that perturbation of transcription patterns by transposon insertions could be detected by the RNAi surveillance pathway. Multiple transposon insertions might generate sufficient amounts of primal small RNAs to initiate generation of secondary small RNAs and silencing. At the same time primal small RNAs need to be constantly degraded to reduce the level of noise small RNAs below the threshold required for initiation of silencing. Failure in RNA degradation results in loss of fidelity of small RNA pathways and silencing of ectopic targets.This article is part of the theme issue ‘5′ and 3′ modifications controlling RNA degradation’.
Recombinant production of rabbit β-Nerve Growth Factor and its biological effect on rabbit sperm
Authors: Sanchez-Rodriguez Ana , Abad Paloma , Arias-Alvarez Maria , Rebollar Pilar G. , Bautista José M. , Lorenzo Pedro L. , Garcia-Garcia Rosa M. 
Published: November 2018

AbstractThe neurotrophin β-Nerve Growth Factor (β-NGF) is flourishing as a protein with important roles in the ovulation induction process in induced-ovulation species but data in rabbits are still inconclusive, probably due to the species-specificity effect of the neurotrophin to trigger the ovulation. Moreover, β-NGF seems to have a role in sperm function. To clarify these functionalities we aimed, in the present research: 1) to newly synthesize a functional recombinant β-NGF from rabbit (rrβ-NGF), 2) to reveal differences in the amino acid sequence of rabbit β-NGF compared to other sequences of induced and spontaneous ovulator species, and 3) to assess the effects of rrβ-NGF on sperm viability and motility. The nucleotide sequence of NGF from rabbit prostate was sequenced by Rapid Amplification of cDNA Ends (RACE) and annotated in GenBank (KX528686). Then, rrβ-NGF was produced in CHO cells and purified by affinity chromatography. Western blot and MALDI-TOF analyses confirmed the correct identity of the recombinant protein. rrβ-NGF functionality was validated in PC12 cells through a successful dose-response effect along 8 days. The comparison of the amino acid sequences of NGF between rabbit and other species suggested some relevant substitutions at its binding site to both the high-(TrkA) and the low-(p75) affinity receptors. The addition of rrβ-NGF in rabbit sperm, in a time- and dose-response study, did not affect its viability but slightly changed some of its motility parameters at the highest concentration used (100 ng/ml). Thus, it can be considered that this new recombinant protein may be used for biotechnological and reproduction assisted techniques in ovulation-induced species.
Universal nature of collapsibility in the context of protein folding and evolution
Authors: Thirumalai D. , Samanta Himadri S. , Maity Hiranmay , Reddy Govardhan 
Published: November 2018

AbstractTheory and simulations predicted sometime ago that the sizes of unfolded states of globular proteins should decrease continuously as the denaturant concentration is shifted from a high to a low value. However, small angle X-ray scattering (SAXS) data were used to assert the opposite, while interpretation of single molecule Forster resonance energy transfer experiments (FRET) supported the theoretical predictions. The disagreement between the two experiments is the SAXS-FRET controversy. By harnessing recent advances in SAXS and FRET experiments and setting these findings in the context of a general theory and simulations, we establish that compaction of unfolded states is universal. The theory also predicts that proteins rich inβ-sheets are more collapsible thanα-helical proteins. Because the extent of compaction is small, experiments have to be accurate and their interpretations should be as model free as possible. Theory also suggests that collapsibility itself could be a physical restriction on the evolution of foldable sequences, and provides a physical basis for the origin of multi-domain proteins.
Characterization of oral microbiota in marmosets: feasibility of using the marmoset as a human oral disease model
Authors: Takehara Sachiko , Zeredo Jorge L , Kumei Yasuhiro , Kagiyama Kensuke , Fukasawa Kazumasa , Oshiro Akiko , Ueno Masayuki , Minakuchi Shunsuke , Kawaguchi Yoko 
Published: November 2018

AbstractAs the world’s population is aging, there is an increasing demand for research regarding aging and aging-related disorders, to achieve better understanding of aging. Ideally, such research would be performed with human subjects. However, due to ethical considerations, animals such as rodents and monkeys are used as alternatives. Among these alternative models, non-human primates are preferred because they share common traits with humans. The small South American common marmoset (Callithrix jacchus) may offer a number of advantages over other non-human primates in terms of its relatively small size, short life span, and identical dental anatomy, compared with humans. The purpose of this study was to clarify the viability of using the marmoset as a human oral disease model.We collected saliva samples from eight common marmosets and eight human subjects. Prokaryotic DNA was extracted from the saliva samples, and 16S bacterial rRNA gene sequencing was performed on each of the samples. Our results indicated that the types of oral microbiomes detected among human and marmoset samples were nearly identical. In contrast, the oral microbiomes of our human and marmoset subjects were distinctly different from those of rat and dogs, which are popular animal models. The oral microbiomes of marmosets showed greater diversity than those of humans. With respect to individual variation, marmosets exhibited less variation in their oral flora, compared with humans. This difference in variation might be attributed to the fact that marmoset subjects were kept in a controlled environment with identical lifestyles.The characteristics of its oral microbiota, combined with other technical advantages, suggest that the marmoset may provide the best animal model thus far for the study of oral health. This study characterized the oral microbes of the marmoset, thereby providing information to support future application of the marmoset as a model for age-related oral disease.
PREMONition: An algorithm for predicting the circadian clock-regulated molecular network
Authors: Bosman Jasper , Eelderink-Chen Zheng , Laing Emma , Merrow Martha 
Published: November 2018

AbstractA transcriptional feedback loop is central to clock function in animals, plants and fungi. The clock genes involved in its regulation are specific to - and highly conserved within - the kingdoms of life. However, other shared clock mechanisms, such as phosphorylation, are mediated by proteins found broadly among living organisms, performing functions in many cellular sub-systems. Use of homology to directly infer involvement/association with the clock mechanism in new, developing model systems, is therefore of limited use. Here we describe the approach PREMONition,PREdictingMolecularNetworks, that uses functional relationships to predict molecular circadian clock associations. PREMONition is based on the incorporation of proteins encoded by known clock genes (when available), rhythmically expressed clock-controlled genes and non-rhythmically expressed but interacting genes into a cohesive network. After tuning PREMONition on the networks derived for human, fly and fungal circadian clocks, we deployed the approach to predict a molecular clock network forSaccharomyces cerevisiae, for which there are no readily-identifiable clock gene homologs. The predicted network was validated using gene expression data and a growth assay for sensitivity to light, a zeitgeber of circadian clocks of most organisms. PREMONition may be used to identify candidate clock-regulated processes and thus candidate clock genes in other organisms.
Carbon footprint model for reverse logistics of waste disposal in interior design industry
Authors: Liang Chih-Chin , Lee Jia-Ping 
Published: November 2018

Purpose
Due to the increasing awareness of the need to protect the environment, reverse logistics (RL) is being promoted to improve the ecological sustainability of production. RL can lower the costs of waste disposal, increase market competitiveness, and maintain a good corporate image. Hence, modern companies are focusing on environmental protection to demonstrate social responsibility. According to the OECD report of 2003, buildings consume 32 percent of resources, 12 percent of water, and 40 percent of energy worldwide, and the building waste comprises almost 40 percent of the all waste in the world. Therefore, controlling waste from the interior design sector may help slow global warming. This paper aims to discuss these issues.

Design/methodology/approach
This investigation models the current and new RL of disposing interior design waste in Taiwan. Modeling the carbon footprint (CF) of disposing interior design waste can help companies be aware of the environmental impact of disposing of waste, and how to improve it through RL. This investigation models the CFs of disposing interior design waste based on studies from Benjaafar et al. (2013), Pishvaee et al. (2009, 2010), and Tascione et al. (2014).

Findings
Analytical results showed that the RL significantly decreases the environmental impact of wastes. Companies can control carbon emission through the findings of this study and find how to improve their recycling process through RL.

Research limitations/implications
This study used the model proposed by Tascione et al. (2014) to develop an RL model for Taiwan. Whereas most studies in the literature analyze the carbon emissions from the comparison between cost and benefit, this study considered the logistics for the whole lifecycle of a product. The analytical results of this study reveal that that RL can reduce the environmental impact of wastes. This case study is the first to obtain results that can be extended to other countries. This study also reveals the importance of recycling plants that can process demolition waste for reuse.

Originality/value
This is the first study to model the RL based on literatures. The findings of this study can be extended to other cases.