bluuebunny/crossref_metadata_2025_split huggingface dataset:
On Local definability of holomorphic functions
Authors: Jones Gareth , Kirby Jonathan , Le Gal Olivier , Servi Tamara 
Published: April 2019

Abstract
Given a collection $\mathcal {A}$ of holomorphic functions, we consider how to describe all the holomorphic functions locally definable from $\mathcal {A}$. The notion of local definability of holomorphic functions was introduced by Wilkie, who gave a complete description of all functions locally definable from $\mathcal {A}$ in the neighbourhood of a generic point. We prove that this description is no longer complete in the neighbourhood of non-generic points. More precisely, we produce three examples of holomorphic functions that suggest that at least three new operations need to be added to Wilkie’s description in order to capture local definability in its entirety. The constructions illustrate the interaction between resolution of singularities and definability in the o-minimal setting.
AIDS, Antiretrovirals, Brazil and the International Politics of Global Health, 1996–2008
Authors: Cueto Marcos , Lopes Gabriel 
Published: April 2019

Summary
In the mid-1990s, Brazil became a player in the global politics of AIDS through its participation in debates on whether antiretroviral drugs were commodities or public goods. Brazilian actors not only challenged powerful pharmaceutical companies but the assumption that international health policies were solely defined in developed countries. After 1996, a coalition of Brazilian officers, health activists, people living with Aids and medical scientists advocated for universal access to generic medication (instead of costly patented drugs) and publicized its achievements at home and abroad, such as a marked decline in AIDS cases. However, during the first decade of the twenty-first century increased costs, little attention to prevention and the persistence of homophobia hindered treatment. Moreover, unilateral US programmes and conservative evangelicals glorifying sexual abstinence sabotaged anti-AIDS work. After the financial crisis of 2008, universal access to ARVs lost political momentum and sustaining treatment became difficult in Brazil.
Addressing common errors and misconceptions in integral calculus with clickers and classroom voting
Authors: Cline Kelly , Zullo Holly , Huckaby David A 
Published: April 2019

AbstractCommon student errors and misconceptions can be addressed through the method of classroom voting, in which the instructor presents a multiple-choice question to the class, and after a few minutes for consideration and small-group discussion, each student votes on the correct answer, using a clicker or a phone. If a large number of students have voted for one particular incorrect answer, the instructor can recognize and address the issue. In order to identify multiple-choice questions that are especially effective at provoking common errors and misconceptions, we recorded the percentages of students voting for each option on each question used in 25 sections of integral calculus, taught by 7 instructors, at 4 institutions, over the course of 12 years, on a collection of 172 questions. We restricted our analysis to the 115 questions which were voted on by at least 5 different classes. We present the six questions that caused the largest percentages of students to vote for a particular incorrect answer, discuss how we used these questions in the classroom, and examine the common features of these questions. Further, we look for correlations between question characteristics and the mean percentage of students voting for common errors on these questions, and we find that questions based on general cases have higher percentages of students voting for common errors.
Spatial epidemiology of cutaneous leishmaniasis in Colombia: socioeconomic and demographic factors associated with a growing epidemic
Authors: Hernández Andrés M , Gutierrez Juan D , Xiao Yanyu , Branscum Adam J , Cuadros Diego F 
Published: April 2019

Abstract

Background
Despite the identification of some environmental factors linked to the cutaneous leishmaniasis (CL) epidemic, little is known about the impact of environmental disturbances caused by human activities. We assessed the association between socioeconomic and demographic factors with the spatial structure of the CL epidemic in Colombia.

Methods
Using data from more than 65 000 CL cases collected across the entire country from publicly available sources, we conducted a spatial clustering analysis to identify high burden areas (clusters) of CL. Associations between CL clusters and socioeconomic variables were investigated.

Results
We identified seven statistically significant clusters of CL located across all Colombian biomes. Deforestation and livestock were statistically significantly associated with the spatial clustering of CL. Urbanization, time spent traveling to main cities and water bodies were other factors linked with the clustering of CL.

Conclusions
This study found that human activities such as deforestation linked to agriculture, livestock production and mining activities are key drivers of the spatial distribution of the CL epidemic. The intensity of these human activities, which are projected to increase because of social and economic transformations in progress in Colombia, will potentially exacerbate the already growing CL epidemic in the country.
A Daily Diary Study of Responses to Age Meta-stereotypes
Authors: Finkelstein Lisa M , Voyles Elora C , Thomas Courtney L , Zacher Hannes 
Published: April 2019

Abstract
An age meta-stereotype occurs when we activate the idea that another age group is holding a stereotype of our age group, but what happens after this occurs? We used experience sampling methodology to explore reactions to, and subsequent behaviors associated with, positive and negative age meta-stereotypes occurring over the course of a work week. One hundred eighty-five employees from various organizations across the United States responded to a daily survey tapping into activation of positive and negative age meta-stereotypes, reactions (threat, challenge, or boost), and interpersonal behaviors (avoidance, conflict, and engagement). Hypotheses regarding relationships among reactions and behaviors were largely supported, but there were some unexpected findings regarding reactions to positive and negative age meta-stereotypes. Of particular interest: (a) younger respondents experienced more negative age meta-stereotypes than older respondents, even those that have been shown to be typically older meta-stereotypes, and (b) experiencing older negative meta-stereotypes, regardless of the age of the respondent, was related to challenge reactions while experiencing younger negative meta-stereotypes, regardless of the age of respondent, was related to threat. Our findings demonstrate advantages to studying age meta-stereotypes using experience sampling methods, and point to a need for more theoretical refinement to account for different reactions and behaviors depending on respondent age and type of meta-stereotype.
Gait Variability in Women With Hip Osteoarthritis Before and After Total Hip Replacement
Authors: Wada Osamu , Asai Tsuyoshi , Hiyama Yoshinori , Nitta Shingo , Mizuno Kiyonori 
Published: April 2019

Objective
Gait variability changes before and after total hip arthroplasty are unclear. This study aimed to investigate gait variability changes in hip osteoarthritis patients before and after total hip arthroplasty and to examine the relationships between gait variability changes and hip function.

Design
Twenty-three female patients with hip osteoarthritis (61.0 ± 7.1 yrs) and 10 healthy female participants (57.8 ± 3.9 yrs) were assessed 1 mo before and 12 mos after surgery. Heel and lower trunk accelerations were measured using two triaxial accelerometers. The coefficient of variation of stride time for gait variability of lower limb motions and the harmonic ratio for trunk variability were calculated. Radiographic leg-length discrepancy, hip abductor strength, hip abduction, extension range of motion, and pain level during gait were measured.

Results
The coefficient of variation was significantly decreased after total hip arthroplasty and was comparable with that in healthy individuals. Although postoperative harmonic ratios were greater than preoperative harmonic ratios, they were not comparable with those in healthy individuals. The coefficient of variation changes were associated with pain relief during gait. Harmonic ratio changes were associated with hip abductor strength, extension range of motion, and limb lengthening.

Conclusion
Gait variability improved after total hip arthroplasty due to improved hip function. However, trunk variability was insufficient compared with that in healthy individuals.
Bone Marrow Edema
Authors: Pimenta Tiago , Parada Fernando , Rocha J. Afonso 
Published: April 2019

Abstract
Bone marrow edema represents a typical pattern on magnetic resonance imaging consisting of an area of abnormal bone signal with low to intermediate intensity on T1-weighted images and a high intensity on fat-suppressed T2-weighted images. Bone marrow edema syndromes are a group of entities characterized by idiopathic bone marrow edema and osteoporosis. Regional migratory osteoporosis is a bone marrow edema syndrome characterized by a self-limited migrating arthralgia of the lower limbs not related to trauma or other events. Its clinical presentation is variable and may include a less frequent form of migration of the bone marrow edema within the same joint, illustrated here by means of a case report. Conservative treatment is the preferred approach to this condition, and usually, it resolves completely and with no sequelae. Physicians should be made aware of this condition to avoid unnecessary and costly diagnostic and therapeutic measures.
Integrated Hypertension and HIV Care Cascades in an HIV Treatment Program in Eastern Uganda: A Retrospective Cohort Study
Authors: Muddu Martin , Tusubira Andrew K. , Sharma Srish K. , Akiteng Ann R. , Ssinabulya Isaac , Schwartz Jeremy I. 
Published: April 2019

Background:
Persons living with HIV (PLHIV) are at increased risk of cardiovascular disease. Integration of services for hypertension (HTN), the primary cardiovascular disease risk factor, into HIV care programs is recommended in Uganda, though, uptake has been limited. We sought to compare the care cascades for HTN and HIV within an HIV program in Eastern Uganda.

Methods:
We conducted a retrospective cohort study of all PLHIV enrolled in 3 HIV clinics between 2014 and 2017. We determined the proportion of patients in the following cascade steps over 12 months: Screened, Diagnosed, Initiated on treatment, Retained, Monitored, and Controlled. Cascades were analyzed using descriptive statistics and compared using χ2 and t tests.

Results:
Of 1649 enrolled patients, 98.5% were initiated on HIV treatment, of whom 70.7% were retained in care, 100% had viral load monitoring, and 90.3% achieved control (viral suppression). Four hundred fifty-six (27.7%) participants were screened for HTN, of whom 46.9% were diagnosed, 88.1% were initiated on treatment, 57.3% were retained in care, 82.7% were monitored, and 24.3% achieved blood pressure control. There were no differences in any HIV cascade step between participants with HIV alone and those with both conditions.

Conclusions:
The HIV care cascade approached global targets, whereas the parallel HTN care cascade demonstrated notable quality gaps. Management of HTN within this cohort did not negatively impact HIV care. Our findings suggest that models of integration should focus on screening PLHIV for HTN and retention and control of those diagnosed to fully leverage the successes of HIV programs.
Bayesian inference of distributed time delay in transcriptional and translational regulation
Authors: Choi Boseung , Cheng Yu-Yu , Cinar Selahittin , Ott William , Bennett Matthew R. , Josić Krešimir , Kim Jae Kyoung 
Published: April 2019

AbstractMotivationAdvances in experimental and imaging techniques have allowed for unprecedented insights into the dynamical processes within individual cells. However, many facets of intracellular dynamics remain hidden, or can be measured only indirectly. This makes it challenging to reconstruct the regulatory networks that govern the biochemical processes underlying various cell functions. Current estimation techniques for inferring reaction rates frequently rely on marginalization over unobserved processes and states. Even in simple systems this approach can be computationally challenging, and can lead to large uncertainties and lack of robustness in parameter estimates. Therefore we will require alternative approaches to efficiently uncover the interactions in complex biochemical networks.ResultsWe propose a Bayesian inference framework based on replacing uninteresting or unobserved reactions with time delays. Although the resulting models are non-Markovian, recent results on stochastic systems with random delays allow us to rigorously obtain expressions for the likelihoods of model parameters. In turn, this allows us to extend MCMC methods to efficiently estimate reaction rates, and delay distribution parameters, from single-cell assays. We illustrate the advantages, and potential pitfalls, of the approach using a birth-death model with both synthetic and experimental data, and show that we can robustly infer model parameters using a relatively small number of measurements. We demonstrate how to do so even when only the relative molecule count within the cell is measured, as in the case of fluorescence microscopy.
Epigenome-wide analysis uncovers a blood-based DNA methylation biomarker of lifetime cannabis use
Authors: Markunas Christina A. , Hancock Dana B. , Xu Zongli , Quach Bryan C. , Sandler Dale P. , Johnson Eric O. , Taylor Jack A. 
Published: April 2019

ABSTRACTCannabis use is highly prevalent and is associated with adverse and beneficial effects. To better understand the full spectrum of health consequences, biomarkers that accurately classify cannabis use are needed. DNA methylation (DNAm) is an excellent candidate, yet no blood-based epigenome-wide association studies (EWAS) in humans exist. We conducted an EWAS of lifetime cannabis use (ever vs. never) using blood-based DNAm data from a case-cohort study within Sister Study, a prospective cohort of women at risk of developing breast cancer (Discovery N=1,730 [855 ever users]; Replication N=853 [392 ever users]). We identified and replicated an association with lifetime cannabis use at cg15973234 (CEMIP): combined P=3.3×10−8. We found no overlap between published blood-based cis-meQTLs of cg15973234 and reported lifetime cannabis use-associated SNPs (P<0.05), suggesting that the observed DNAm difference was driven by cannabis exposure. We also developed a multi-CpG classifier of lifetime cannabis use using penalized regression of top EWAS CpGs. The resulting 49-CpG classifier produced an area under the curve (AUC)=0.74 (95% confidence interval [0.72, 0.76], P=2.00×10−5) in the discovery sample and AUC=0.54 ([0.51, 0.57], P=4.64×10−2) in the replication sample. Our EWAS findings provide evidence that blood-based DNAm is associated with lifetime cannabis use.
Phytolacca americana PaGT2 is an ambidextrous polyphenol glucosyltransferase
Authors: Maharjan Rakesh , Fukuda Yohta , Shimomura Naomichi , Nakayama Taisuke , Nakayama Toru , Hamada Hiroki , Inoue Tsuyoshi , Ozaki Shin-ichi 
Published: April 2019

AbstractThe health benefits of polyphenols have attracted their use as potential therapeutic agents, food additives, and cosmetics. However, low water solubility of polyphenols limits their cell absorbability, obscuring further exploration. Glycosylation is known to enhance the solubility of polyphenols preserving their pharmacological properties. Here, we show that a uridine diphosphate (UDP) glucosyltransferase from Phytolacca americana (PaGT2) regioselectively catalyzes the transfer of glucose from UDP-glucose to stilbenoids such as piceatannol and flavonoids such as kaempferol. To understand the structure-function relationship of PaGT2, we determined the crystal structure of PaGT2 as well as PaGT2 complexed with donor analogue UDP-2-fluoro glucose and stilbenoid acceptor analogues. While only one conserved histidine residue is recognized as a catalytic residue in known UGTs, the crystal structures of PaGT2 suggested the presence of two catalytically active residues (His18 and His81) at two sides of the catalytic pocket. Although the single catalytic residue mutant His18Ala or His81Ala did not completely impair the glucosylation activity of the enzyme, the double mutant His18Ala/His81Ala failed to form glucoside products. These results showed that both catalytic residues in PaGT2 actively and independently catalyze glucosylation, hence we called PaGT2 as an ambidextrous UGT. The information from PaGT2 will be advantageous for the engineering of efficient biocatalysts for production of therapeutic polyphenols.
In the absence of reproductive isolation – Extensive gene flow after speciation
Authors: Wang Xinfeng , Guo Zixiao , He Ziwen , Xu Shaohua , Shao Shao , Li Sen , Yang Ming , Chen Qipian , Zhong Cairong , Wu Zhongyi , Duke Norman C. , Shi Suhua 
Published: April 2019

AbstractIn the conventional view, species are separate gene pools delineated by reproductive isolation (RI). However, species may also be delineated by merely a small set of “speciation genes” without full RI. It is thus important to know whether “good species” (defined by the “secondary sympatry” test) do continue to exchange genes. Here, we carry out sequencing andde novohigh-quality assembly of the genomes of two closely related mangrove species (Rhizophora mucronataandR. stylosa). Whole-genome re-sequencing of individuals across their range on the tropical coasts shows their genomes to be well delineated in allopatry. They became sympatric in northeastern Australia but remain distinct species in contact. Nevertheless, their genomes harbor ∼ 4,000 to 10,000 introgression blocks, each averaging only about 3-4 Kb. These fine-grained introgressions indicate that gene flow has continued long after speciation. Non-introgressable “genomic islets,” averaging only 1.4 Kb, may contribute to speciation as they often harbor diverging genes underlying flower development and gamete production. In conclusion, RI needs not be the main criterion of species delineation even though all species would eventually be fully reproductively isolated.
Genetic diversity and domestication of hazelnut (Corylus avellana) in Turkey
Authors: Helmstetter Andrew J. , Oztolan-Erol Nihal , Lucas Stuart J. , Buggs Richard J. A. 
Published: April 2019

SUMMARYAssessing and describing genetic diversity in crop plants is a crucial first step towards their improvement. The European hazelnut, Corylus avellana, is one of the most economically important tree nut crops worldwide. It is primarily produced in Turkey where rural communities depend on it for their livelihoods. Despite this we know little about hazelnut’s domestication history and the genetic diversity it holds.We use double digest Restriction-site Associated DNA (ddRAD) sequencing to produce genome-wide dataset containing wild and domesticated hazelnut. We uncover patterns of population structure and diversity, determine levels of crop-wild gene flow and estimate the timing of key divergence events.We find that genetic clusters of cultivars do not reflect their given names and that there is limited evidence for a reduction in genetic diversity in domesticated individuals. Admixture has likely occurred multiple times between wild and domesticated hazelnut. Domesticates appear to have first diverged from their wild relatives during the Mesolithic.We provide the first genomic assessment of Turkish hazelnut diversity and suggest that it is currently in a partial stage of domestication. Our study provides a platform for further research that will protect this crop from the threats of climate change and an emerging fungal disease.
Decomposing variation in immune response in a wild rodent population
Authors: Wanelik Klara M. , Begon Mike , Arriero Elena , Bradley Janette E. , Friberg Ida M. , Jackson Joseph A. , Taylor Christopher H. , Paterson Steve 
Published: April 2019

AbstractIndividuals vary in their immune response and, as a result, some are more susceptible to infectious disease than others. Little is known about which components of immune pathways are responsible for this variation, but understanding these underlying processes could allow us to predict the outcome of infection for an individual, and to manage their health more effectively. In this study, we describe transcriptome-wide variation in immune response (to a standardised challenge) in a wild population of field voles (Microtus agrestis). We find that this variation can be categorised into three main types. We also identify markers, across these three categories, which display particularly strong individual variation in response. This work shows how a simple standardised challenge performed on a natural population can reveal complex patterns of natural variation in immune response.
DNA barcode-guided lentiviral CRISPRa tool to trace and isolate individual clonal lineages in heterogeneous cancer cell populations
Authors: Akimov Y , Bulanova D , Abyzova M , Wennerberg K , Aittokallio T 
Published: April 2019

AbstractThe genetic and functional heterogeneity of tumors imposes the challenge of understanding how a cancer progresses, evolves and adapts to treatment at the subclonal level. Therefore, there is a critical need for methods that enable profiling of individual cancer cell lineages. Here, we report a novel system that couples an established DNA barcoding technique for lineage tracing with a controlled DNA barcode-guided lineage isolation (B-GLI). B-GLI allows both high-complexity of lineage tracing and effective isolation of individual clones by CRISPRa-mediated induction of puromycin resistance, making it possible to unbiasedly trace, isolate, and study individual cancer cell lineages. We present experimental evaluation of the system performance in isolation of lineages and outline a comprehensive workflow for B-GLI applications. We believe the system has broad applications aimed at molecular and phenotypic profiling of individual lineages in heterogeneous cell populations.
A survey of vaccine-induced measles IgG antibody titer and the verification of changes in temporal differences of measles vaccination in young adults
Authors: Sasaki Hiraku , Fukunaga Tomoko , Asano Ai , Suzuki Yoshio , Nakanishi Yuko , Kondo Junzi , Ishikawa Hiroki , Shibata Nobuto 
Published: April 2019

AbstractIn Japan, sporadic measles cases increased rapidly in 2019 compared to that in past 6 years. To clarify the persistence of immunity against measles in young adult, this study explored the prevalence of IgG antibody titer against measles virus in 18-to 24-year-old young adult participants. Measles-specific IgG antibody titers determined by enzyme immunoassay in serum samples collected from 506 participants between 18 to 24 years were assessed through statistical analyses. Multiple regression analysis revealed that the distribution of measles IgG antibody titers was significantly correlated with medical history (P < 0.05), while there was no significant difference among the number of vaccinations related to measles IgG titers. Further, measles IgG titers were significantly different, which was determined by the temporal change that elapsed period after last vaccination (P < 0.05). These results indicate that periodic vaccination against measles is required for young and older adults to prevent even sporadic measles infection.