bluuebunny/crossref_metadata_2025_split huggingface dataset:
Blood Culture–Negative Cardiovascular Infection in a Patient With Multiple Sclerosis
Authors: Melenotte Cléa , Loukil Ahmed , Rico Audrey , Lepidi Hubert , Raoult Didier 
Published: October 2019

Abstract
A patient with multiple sclerosis presented with seronegative C. burnetii endocarditis diagnosed using C. burnetii–specific polymerase chain reaction and fluorescence in situ hybridization on cardiovascular biopsy. This case supports the necessity of a systematic polymerase chain reaction testing of removed cardiac valves because blood culture–negative endocarditis can be pauci-symptomatic, and serological tests can be negative in cases of immunosuppression.
Development of a Comprehensive, Nonsurgical Joint Health Program for People With Osteoarthritis: A Case Report
Authors: Malay Morven R , Lentz Trevor A , O’Donnell Jonathan , Coles Theresa , Mather III Richard Chad , Jiranek William A 
Published: October 2019

Abstract

Background and Purpose
Existing osteoarthritis (OA) care models often fall short in addressing the many biological, psychological, social, and behavioral characteristics that contribute to disability. As US health care shifts towards value-based payment, there is an increasing need to develop and test scalable, cost-effective, and multi-modal OA care models. This administrative case report will describe the development and pilot of a new, value-based comprehensive care model for OA.

Case Description
The Joint Health Program (JHP) is a physical therapist-led conservative care model for individuals with hip and knee OA. In the JHP, physical therapists with specialized training in cognitive behavioral-theory based strategy function as the central care provider (ie, the primary osteoarthritis provider) who delivers evidence-based, psychologically informed interventions and coordinates care within a multi-disciplinary network of dietitians, behavioral health specialists, and orthopedic providers. The JHP is focused on enhancing patient engagement, shared decision making, self-management and multi-modal patient interaction, and long-term follow-up.

Outcomes
A value-based, comprehensive care program for OA led by physical therapists demonstrated feasibility and acceptability within a large, academic health care system, which has led to its early growth. Barriers to development and integration of the program were addressed through effective collaboration among health care providers, program and health system administrators, and executive leadership.

Discussion
The JHP serves as a model for future physical therapist-led, value-based care models that could be developed in other health care systems for OA and other chronic conditions. Future work will identify characteristics that predict program response and compare the effectiveness of this program to existing models of care.
A double-blind, placebo-controlled, phase II, randomized study of lovastatin therapy in the treatment of mildly active rheumatoid arthritis
Authors: Aranow Cynthia , Cush John , Bolster Marcy B , Striebich Christopher C , Dall’era Maria , Mackay Meggan , Olech Ewa , Frech Tracy , Box Jane , Keating Richard , Wasko Mary Chester , St Clair William , Kivitz Alan , Huang Weiquang , Ricketts PetaGay , Welch Beverly , Callahan Sherrie , Spychala Meagan , Boyle Karen , York Kate , Keyes-Elstein Lynette , Goldmuntz Ellen , Diamond Betty , Davidson Anne 
Published: October 2019

AbstractObjectives3-hydroxy-3-methylglutaryl coenzyme-A (HMG Co-A) reductase inhibitors (statins) are standard treatment for hyperlipidaemia. In addition to lipid-lowering abilities, statins exhibit multiple anti-inflammatory effects. The objectives of this study were to determine whether treatment of patients with RA with lovastatin decreased CRP or reduced disease activity.MethodsWe conducted a randomized double-blind placebo-controlled 12 week trial of lovastatin vs placebo in 64 RA patients with mild clinical disease activity but an elevated CRP. The primary efficacy end point was the reduction in mean log CRP. Secondary end points included disease activity, RF and anti–CCP antibody titres. Mechanistic end points included levels of serum cytokines. Safety was assessed; hepatic and muscle toxicities were of particular interest.ResultsBaseline features were similar between groups. No significant difference in mean log CRP reduction between the two groups was observed, and disease activity did not change from baseline in either treatment group. Mechanistic analyses did not reveal significant changes in any biomarkers. A post hoc analysis of subjects not using biologic therapy demonstrated a significantly greater proportion achieving ⩾20% reduction in CRP from baseline in the lovastatin group compared with placebo (P-value = 0.007). No difference was observed in subjects receiving biologics. Lovastatin was well tolerated with no serious safety concerns.ConclusionThis study showed no anti-inflammatory or clinical effects on RA disease activity after 12 weeks of treatment with lovastatin. Lovastatin had a modest effect on CRP in subjects not using biologics, suggesting statins may be anti-inflammatory in selected patients.Trial registrationClinicalTrials.gov, http://clinicaltrials.gov, NCT00302952.
Comorbid fibromyalgia impairs the effectiveness of biologic drugs in patients with psoriatic arthritis
Authors: Iannone Florenzo , Nivuori Mariangela , Fornaro Marco , Venerito Vincenzo , Cacciapaglia Fabio , Lopalco Giuseppe 
Published: October 2019

Abstract

Objectives
To evaluate the impact of FM on the clinical outcomes of biologics in patients with PsA in real life.

Methods
FM was diagnosed according to current criteria among PsA patients starting a first biologic drug from 2010 through 2017. At each visit, disease activity of PsA (DAPSA), minimal disease activity (MDA), HAQ, rate of patients achieving DAPSA-based low disease activity (LDA) or remission, and MDA were evaluated. Lost patients or those not achieving the target were imputed as non-responders. The drug survival was evaluated by Kaplan–Meyer analysis. Estimated hazard ratios (HRs) of discontinuing therapy or achieving MDA were assessed by multivariate regression models.

Results
A total of 238 patients, of whom 58 had also FM, started a first biologic drug. Compared with no-FM PsA, FM PsA patients were more frequently female (P = 0.0001) with polyarticular subset (P = 0.0001), and with higher mean BMI (P = 0.006). Drug survival was significantly lower in FM PsA (50%, mean 32 months) than in no-FM PsA (74%, mean 42 months, P = 0.0001). Rates of remission/LDA and MDA were significantly lower in FM PsA at 3, 6, 12 and 24 months (P &lt; 0.001). Remission in FM PsA was negligible (3.4% and 0% at 3 and 6 months, respectively). Negative predictors of drug discontinuation were no FM (HR 0.51) and normal weight (HR 0.29), while no FM (HR 2.54) and male sex (HR 1.58) were positive predictors of long-standing MDA.

Conclusions
Comorbid FM, along with female gender and obesity seem to be the worst combination of negative prognostic factors in PsA.
IMPROVEMENT OF GAMMA-RAY SUBTRACTION PROCEDURE FOR A CURRENT-MODE NEUTRON DETECTOR WITH A PAIR OF 6Li- AND 7Li-GLASS SCINTILLATORS
Authors: Matsumoto Tetsuro , Masuda Akihiko , Harano Hideki , Hori Jun-ichi , Sano Tadafumi 
Published: October 2019

Abstract
A current-mode neutron detector with a pair of 6Li- and 7Li-glass scintillators has been developed to measure high-flux neutrons in a boron neutron capture therapy field. Neutrons are basically measured by subtracting gamma-ray component using current outputs from the 7Li-glass scintillator. In the present study, the difference in the gamma-ray sensitivity between the 6Li- and 7Li-glass scintillators and the neutron sensitivity for the 7Li-glass scintillator due to the 6Li contamination were also considered to improve the gamma-ray subtraction precision. The gamma-ray subtraction procedure was experimentally investigated in thermal neutron fields with 252Cf and 241Am-Be neutron sources, which have different gamma-ray intensities per unit neutron fluence. A linear relation between neutron fluence and current output was obtained for the neutron detector in the two types of thermal neutron fields with different gamma-ray intensities. It was found that the gamma-ray subtraction procedure is useful for current-mode neutron detectors.
Mitigating Poverty through the Formation of Extended Family Households: Race and Ethnic Differences
Authors: Reyes Adriana M 
Published: October 2019

AbstractIn times of hardship, moving in with family is one strategy for alleviating economic deprivation and uncertainty. The ability of the family to buffer against poverty may vary by the resources available to and the economic needs of individuals. I assess how the formation of extended-family households is associated with a move into or out of poverty and how this association varies by race and ethnicity, since economic resources and norms around extended-family households differ. Using longitudinal data that span four years, I estimate linear fixed effects regression models to assess how changes in living arrangements are related to changes in poverty. I find that moving into an extended-family household reduces poverty, especially for the joining family unit. Most of this poverty reduction occurs through a family safety net, with a non-poor family taking in poor family units.
Negative Media Frames and Female Politicians: A Case Study of Jamaica’s First Female Prime Minister, Portia Simpson-Miller
Authors: Johnson-Myers Tracy-Ann 
Published: October 2019

AbstractThis study raises questions about how Jamaica’s first female prime minister, Portia Simpson-Miller, was portrayed in the media. This will be done through content analysis of editorial cartoons, covering the period in which Mrs Simpson-Miller occupied the highest public office in the country. An interesting finding from the study is that, unlike many female political leaders, media coverage of Simpson-Miller focused primarily on her performance as prime minister of Jamaica and less on her physical appearance and gender. The findings from this study will add to the wider discourse on the media’s portrayal of women in politics.
Functional and expressional analyses of appleFLC-like in relation to dormancy progress and flower bud development
Authors: Nishiyama Soichiro , Matsushita Miwako Cecile , Yamane Hisayo , Honda Chikako , Okada Kazuma , Tamada Yosuke , Moriya Shigeki , Tao Ryutaro 
Published: October 2019

AbstractWe previously identified the FLOWERING LOCUS C (FLC)-like gene, a MADS-box transcription factor gene that belongs to Arabidopsis thaliana L. FLC clade, in apple (Malus $\times$ domestica Borkh.), and its expression in dormant flower buds is positively correlated with cumulative cold exposure. To elucidate the role of the MdFLC-like in the dormancy process and flower development, we first characterized the phenotypes of MdFLC-like overexpressing lines with the Arabidopsis Columbia-0 background. The overexpression of MdFLC-like significantly delayed the bolting date and reduced the plant size, but it did not significantly affect the number of rosette leaves or flower organ formation. Thus, MdFLC-like may affect vegetative growth and development rather than flowering when expressed in Arabidopsis, which is not like Arabidopsis FLC that affects development of flowering. We compared seasonal expression patterns of MdFLC-like in low-chill ‘Anna’ and high-chill ‘Fuji’ and ‘Tsugaru’ apples collected from trees grown in a cold winter region in temperate zone and found an earlier upregulation in ‘Anna’ compared with ‘Fuji’ and ‘Tsugaru’. Expression patterns were also compared in relation to developmental changes in the flower primordia during the chilling accumulation period. Overall, MdFLC-like was progressively upregulated during flower primordia differentiation and development in autumn to early winter and reached a maximum expression level at around the same time as the genotype-dependent chilling requirements were fulfilled in high-chill cultivars. Thus, we hypothesize MdFLC-like may be upregulated in response to cold exposure and flower primordia development during the progress of endodormancy. Our study also suggests MdFLC-like may have a growth-inhibiting function during the end of endodormancy and ecodormancy when the temperature is low and unfavorable for rapid bud outgrowth.
Impact of the Sampling Site in the Result of Wet Mount Microscopy
Authors: Azevedo Sofia , Lima-Silva Joana , Vieira-Baptista Pedro 
Published: October 2019

Objectives
Wet mount microscopy (WMM) is an ancillary test in the diagnosis of vulvovaginitis. However, there are little data about the impact of the sampling site. Our main objective was to determine the agreement between samples collected from different vaginal sites.

Materials and Methods
Five vaginal samples (one from each of the fornices and one from the lower third) were collected from 50 consecutive women and evaluated using phase-contrast WMM, including the following: lactobacillary grade, presence of other bacteria, clue cells, inflammation, and atrophy. Global percentage of agreement, κ index [poor (<0), slight (0.01–0.20), fair (0.21–0.40), moderate (0.41–0.60), substantial (0.61–0.80), and almost perfect (0.81–1)], sensitivity and negative predictive value were calculated.

Results
Global percentage of agreement was high for all individual parameters (>75%), but low for the final diagnosis (57%). Agreement rate was substantial or almost perfect for the evaluation of normal versus abnormal flora, substantial for the presence of absence of bacteria other than lactobacilli and for the presence of clue cells, and moderate to almost perfect for the presence of dysbiosis and cytolysis. Agreement rates were worse for inflammation, atrophy, and the presence of Candida. The lower third of the vagina had the highest sensitivity for Candida (0.6, 95% CI = 0.41–0.86) and bacterial vaginosis (0.92, 95% CI = 0.73–1.00), whereas the anterior fornix performed better for cytolytic vaginosis (0.75, 95% CI = 0.43–0.93).

Conclusions
There is some variation in the results according to the sampling site, which may be overcome by collecting 2 samples (anterior fornix and lower third of the vagina).
Cervical, Vaginal, and Vulvar Cancer Costs Incurred by the Medicaid Program in Publicly Insured Patients in Texas
Authors: Fu Shuangshuang , Fokom Domgue Joel , Chan Wenyaw , Zhao Bo , Ramondetta Lois M. , Lairson David R. 
Published: October 2019

Objectives
To determine from the perspective of the State of Texas, the direct medical care costs associated with cervical, vaginal, and vulvar cancers in Texas Medicaid enrollees.

Materials and Methods
We conducted a case-control study and searched Texas Medicaid databases between 2008 and 2012 for eligible cancer patients. A comparison group was selected for each cancer site using a 2-step 1:1 propensity score matching method. Patients were followed for 2 years after cancer diagnosis to estimate monthly and yearly direct medical costs. For each cancer site, the differential cost between patients and the matched comparison individuals was the estimated cost associated with cancer.

Results
The study included 583 cervical, 62 vaginal, and 137 vulvar cancer patients and equal numbers of cancer-free comparison individuals. Among the cases, 322 cervical cancer patients, 46 vaginal cancer patients, and 102 vulvar cancer patients were Medicaid-Medicare dual eligible enrollees. For Medicaid-only enrollees, the adjusted first- and second-year mean total differential costs were US $19,859 and $3,110 for cervical cancer, US $19,627 and $4,582 for vaginal cancer, and US $7,631 and $777 for vulvar cancer patients, respectively. For Medicaid-Medicare dual eligible enrollees, adjusted first- and second-year mean total differential costs incurred by Medicaid were US $2,565 and $792 for cervical cancer, US $1,293 and $181 for vaginal cancer, and US $1,774 and $1,049 for vulvar cancer patients, respectively.

Conclusions
The direct medical costs associated with cervical, vaginal, and vulvar cancers in Texas Medicaid were substantial in the first 2 years after cancer diagnosis, but dual eligibility for Medicare coverage attenuated Medicaid costs.
aer2vec: Distributed Representations of Adverse Event Reporting System Data as a Means to Identify Drug/Side-Effect Associations
Authors: Portanova Jake , Murray Nathan , Mower Justin , Subramanian Devika , Cohen Trevor 
Published: October 2019

AbstractAdverse event report (AER) data are a key source of signal for post marketing drug surveillance. The standard methodology to analyze AER data applies disproportionality metrics, which estimate the strength of drug/side-effect associations from discrete counts of their occurrence at report level. However, in other domains, improvements in predictive modeling accuracy have been obtained through representation learning, where discrete features are replaced by distributed representations learned from unlabeled data. This paper describes aer2vec, a novel representational approach for AER data in which concept embeddings emerge from neural networks trained to predict drug/side-effect co-occurrence. Trained models are evaluated for their utility in identifying drug/side-effect relationships, with improvements over disproportionality metrics in most cases. In addition, we evaluate the utility of an otherwise-untapped resource in the Food and Drug Administration (FDA) AER system – reporter designations of suspected causality – and find that incorporating this information enhances performance of all models evaluated.
When will I get my paper back? A replication study of publication timelines for health professions education research
Authors: Maggio Lauren A. , Bynum William E. , Schreiber-Gregory Deanna N. , Durning Steven J. , Artino Anthony R. 
Published: October 2019

AbstractBiomedical researchers have lamented the lengthy timelines from manuscript submission to publication and highlighted potential detrimental effects on scientific progress and scientists’ careers. In 2015, Himmelstein identified the mean time from manuscript submission to acceptance in biomedicine as approximately 100 days. The length of publication timelines in health professions education (HPE) is currently unknown.This study replicates Himmelstein’s work with a sample of 14 HPE journals published between 2008-2018. Using PubMed, 19,182 article citations were retrieved. Open metadata for each was downloaded, including the date the article was received by the journal, the date the authors resubmitted revisions, the date the journal accepted the article, and date of entry into PubMed. Journals without publication history metadata were excluded.Publication history data was available for 55% (n=8) of the journals sampled. The publication histories of 4,735 (25%) articles were analyzed. Mean time from: (1) author submission to journal acceptance was 180.93 days (SD=103.89), (2) author submission to posting on PubMed was 263.55 days (SD=157.61), and (3) journal acceptance to posting on PubMed was 83.15 days (SD=135.72).This study presents publication metadata for journals that openly provide it—a first step towards understanding publication timelines in HPE. Findings confirm the replicability of the original study, and the limited data suggest that, in comparison to biomedical scientists broadly, medical educators may experience longer wait times for article acceptance and publication. Reasons for these delays are currently unknown and deserve further study; such work would be facilitated by increased public access to journal metadata.What this article addsPublication delays can negatively impact science and researchers’ careers. A previous study, in biomedicine, leveraged publicly available data to identify a 100-day waiting period between manuscript submission and acceptance. However, this study provides limited information on timelines for health professions education (HPE) articles. Thus, the current study replicates the original investigation with publication timeline data for eight HPE journals, which make their data publicly accessible, finding the mean time from submission to acceptance to be 181 days. Reasons for these delays are currently unknown and deserve further study; such work would be facilitated by increased public access to journal metadata.
A parametrized computational framework for description and design of genetic circuits of morphogenesis based on contact-dependent signaling and changes in cell-cell adhesion
Authors: Lam Calvin , Saluja Sajeev , Courcoubetis George , Courte Josquin , Yu Dottie , Chung Christian , Morsut Leonardo 
Published: October 2019

AbstractSynthetic development is a nascent field of research that uses the tools of synthetic biology to design genetic programs directing cellular patterning and morphogenesis in higher eukaryotic cells, such as mammalian cells. One specific example of such synthetic genetic programs was based on cell-cell contact-dependent signaling using synthetic Notch pathways, and was shown to drive formation of multilayered spheroids by modulating cell-cell adhesion via differential expression of cadherin-family proteins. The design method for these genetic programs relied on trial and error, which limited the number of possible circuits and parameter ranges that could be explored. Here we build a parametrized computational framework that, given a cellcell communication network driving changes in cell adhesion and initial conditions as inputs, predicts developmental trajectories. We first built a general computational framework where contact-dependent cell-cell signaling networks and changes in cell-cell adhesion could be designed in a modular fashion. We then use a set of available in vitro results (that we call the “training set” in analogy to similar pipelines in the machine learning field) to parametrize the computational model with values for adhesion and signaling. We then show that this parametrized model can qualitatively predict experimental results from a “testing set” of available in vitro data that varied the genetic network in terms of adhesion combinations, initial number of cells and even changes to the network architecture. Finally, this parametrized model is used to recommend novel network implementation for the formation of a 4-layered structure that has not been reported previously. The framework that we develop here could function as a testing ground to identify the reachable space of morphologies that can be obtained by controlling contact-dependent cell-cell communications and adhesion. Additionally, we discuss how the model could be expanded to include other forms of communication or effectors for the computational design of the next generation of synthetic developmental trajectories.
An RNA-based system to study hepatitis B virus replication and select drug-resistance mutations
Authors: Yu Y. , Schneider W.M. , Michailidis E. , Acevedo A. , Ni Y. , Ambrose P. , Zou C. , Kabbani M. , Quirk C. , Jahan C. , Wu X. , Urban S. , Shlomai A. , de Jong Y.P. , Rice C.M. 
Published: October 2019

AbstractHepatitis B virus (HBV) chronically infects over 250 million people worldwide, increasing their risk of liver cirrhosis and hepatocellular carcinoma. There is a vaccine to prevent new infections, but no efficient cure for chronic infection. New insights into HBV biology are needed to improve cure rates for this widespread devastating disease. We describe a method to initiate replication of HBV, a DNA virus, using synthetic RNA. This approach has several advantages over existing systems: it eliminates contaminating background signal from input virus or plasmid DNA and can be easily adapted to multiple genotypes and mutants. Further, it can be applied to identify anti-HBV compounds, measure anti-HBV drug efficiency, study virus evolution, and, as we demonstrate, it can be uniquely applied to predict antiviral drug resistance.