bluuebunny/crossref_metadata_2025_split huggingface dataset:
Swab-Yourself Trial With Economic Monitoring and Testing for Infections Collectively (SYSTEMATIC): Part 2. A Diagnostic Accuracy and Cost-effectiveness Study Comparing Rectal, Pharyngeal, and Urogenital Samples Analyzed Individually, Versus as a Pooled Specimen, for the Diagnosis of Gonorrhea and Chlamydia
Authors: Wilson Janet D , Wallace Harriet E , Loftus-Keeling Michelle , Ward Helen , Davies Bethan , Vargas-Palacios Armando , Hulme Claire , Wilcox Mark H 
Published: October 2020

Abstract

Background
Sexual history does not accurately identify those with extragenital Neisseria gonorrhoeae (NG) and Chlamydia trachomatis (CT), so universal extragenital sampling is recommended. Nucleic acid amplification tests (NAATs) are expensive. If urogenital, plus rectal and pharyngeal, samples are analyzed, the diagnostic cost is trebled. Pooling samples into 1 NAAT container would cost the same as urogenital samples alone. We compared clinician triple samples analyzed individually with self-taken pooled samples for diagnostic accuracy, and cost, in men who have sex with men (MSM) and females.

Methods
This was a prospective, convenience sample in United Kingdom sexual health clinic. Randomized order of clinician and self-samples from pharynx, rectum, plus first-catch urine (FCU) in MSM and vulvovaginal swabs (VVS) in females, for NG and CT detection.

Results
Of 1793 participants (1284 females, 509 MSM), 116 had NG detected (75 urogenital, 83 rectum, 72 pharynx); 276 had CT detected (217 urogenital, 249 rectum, 63 pharynx). There was no difference in sensitivities between clinician triple samples and self-pooled specimens for NG (99.1% and 98.3%), but clinician samples analyzed individually identified 3% more chlamydia infections than pooled (99.3% and 96.0%; P = .027). However, pooled specimens identified more infections than VVS/FCU alone. Pooled specimens missed 2 NG and 11 CT infections, whereas VVS/FCU missed 41 NG and 58 CT infections. Self-taken pooled specimens were the most cost-effective.

Conclusions
FCU/VVS testing alone missed many infections. Self-taken pooled samples were as sensitive as clinician triple samples for identifying NG, but clinician samples analyzed individually identified 3% more CT infections than pooled. The extragenital sampling was achievable at no additional diagnostic cost to the FCU/VVS.

Clinical Trials Registration
NCT02371109.
Electronic Dose Monitoring Identifies a High-Risk Subpopulation in the Treatment of Drug-resistant Tuberculosis and Human Immunodeficiency Virus
Authors: Zelnick Jennifer R , Daftary Amrita , Hwang Christina , Labar Amy S , Boodhram Resha , Maharaj Bhavna , Wolf Allison K , Mondal Shinjini , Amico K Rivet , Orrell Catherine , Seepamore Boitumelo , Friedland Gerald , Padayatchi Nesri , O’Donnell Max R 
Published: October 2020

Abstract

Background
In generalized drug-resistant tuberculosis (DR-TB) human immunodeficiency virus (HIV) epidemics, identifying subpopulations at high risk for treatment failure and loss to care is critically important to improve treatment outcomes and prevent amplification of drug resistance. We hypothesized that an electronic dose-monitoring (EDM) device could empirically identify adherence-challenged patients and that a mixed-methods approach would characterize treatment challenges.

Methods
A prospective study of patients with DR-TB HIV on antiretroviral therapy (ART) initiating bedaquiline-containing regimens in KwaZulu-Natal, South Africa. Separate EDM devices measured adherence for bedaquiline and ART. Patients with low adherence (&lt;85%) to both bedaquiline and ART were identified as high risk for poor outcomes. Baseline survey, study visit notes, and focus group discussions characterized treatment challenges.

Results
From December 2016–February 2018, 32 of 198 (16%) enrolled patients with DR-TB HIV were identified as dual-adherence challenged. In a multivariate model including baseline characteristics, only receiving a disability grant was significantly associated with dual nonadherence at 6 months. Mixed-methods identified treatment barriers including alcohol abuse, family conflicts, and mental health issues. Compared with adherent patients, dual-adherence–challenged patients struggled to prioritize treatment and lacked support, and dual-adherence–challenged patients experienced higher rates of detectable HIV viral load and mortality than more adherent patients.

Conclusions
EDM empirically identified a subpopulation of patients with DR-TB HIV with dual-adherence challenges early in treatment. Mixed-methods revealed intense psychosocial, behavioral, and structural barriers to care in this subpopulation. Our data support developing differential, patient-centered, adherence support interventions focused on psychosocial and structural challenges for subpopulations of at-risk DR-TB HIV patients.
High-sensitivity troponins in dialysis patients: variation and prognostic value
Authors: Snaedal Sunna , Bárány Peter , Lund Sigrún H , Qureshi Abdul R , Heimbürger Olof , Stenvinkel Peter , Löwbeer Christian , Szummer Karolina 
Published: October 2020

Abstract

Background
Dialysis patients have a high prevalence of cardiovascular mortality but also elevated cardiac troponins (cTns) even without signs of cardiac ischaemia. The study aims to assess variation and prognostic value of high-sensitivity cTnI and cTnT in prevalent dialysis patients.

Methods
In 198 prevalent haemodialysis (HD) and 78 peritoneal dialysis (PD) patients, 4-monthly serum troponin I and T measurements were obtained. Reference change values (RCVs) were used for variability assessment and competing-risk regression models for survival analyses; maximal follow-up was 50 months.

Results
HD and PD patients had similar troponin levels [median (interquartile range) troponin I: 25 ng/L (14–43) versus 21 ng/L (11–37), troponin T: 70 ng/L (44–129) versus 67 ng/L (43–123)]. Of troponin I and T levels, 42% versus 98% were above the decision level of myocardial infarction. RCVs were +68/−41% (troponin I) and +29/−23% (troponin T). Increased variability of troponins related to higher age, male sex, protein-energy wasting and congestive heart failure, but not ischaemic heart disease or dialysis form. Elevated troponin T, but not troponin I, predicted death after adjusting for confounders.

Conclusions
A large proportion of prevalent dialysis patients without current established or ongoing cardiac events have elevated levels of high-sensitivity cTns. Mortality risk was doubled in patients with persistently high troponin T levels. The large intraindividual variation of cTns suggests that serial measurements and reference change levels may be used to improve diagnostic utility. However, evidence-based recommendations require more data from large studies of dialysis patients with cardiac events.
Cardiac Troponin Testing in Patients with COVID-19: A Strategy for Testing and Reporting Results
Authors: Kavsak Peter A , Hammarsten Ola , Worster Andrew , Smith Stephen W , Apple Fred S 
Published: October 2020

Abstract

Background
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) that emerged late in 2019 causing COVID-19 (coronavirus disease-2019) may adversely affect the cardiovascular system. Publications from Asia, Europe, and North America have identified cardiac troponin as an important prognostic indicator for patients hospitalized with COVID-19. We recognized from publications within the first 6 months of the pandemic that there has been much uncertainty on the reporting, interpretation, and pathophysiology of an increased cardiac troponin concentration in this setting.

Content
The purpose of this mini-review is: a) to review the pathophysiology of SARS-CoV-2 and the cardiovascular system, b) to overview the strengths and weaknesses of selected studies evaluating cardiac troponin in patients with COVID-19, and c) to recommend testing strategies in the acute period, in the convalescence period and in long-term care for patients who have become ill with COVID-19.

Summary
This review provides important educational information and identifies gaps in understanding the role of cardiac troponin and COVID-19. Future, properly designed studies will hopefully provide the much-needed evidence on the path forward in testing cardiac troponin in patients with COVID-19.
Real-World Networks Are Not Always Fast Mixing
Authors: Qi Yi , Xu Wanyue , Zhu Liwang , Zhang Zhongzhi 
Published: October 2020

Abstract
The mixing time of random walks on a graph has found broad applications across both theoretical and practical aspects of computer science, with the application effects depending on the behavior of mixing time. It is extensively believed that real-world networks, especially social networks, are fast mixing with their mixing time at most $O(\log N)$ where $N$ is the number of vertices. However, the behavior of mixing time in the real-life networks has not been examined carefully, and exactly analytical research for mixing time in models mimicking real networks is still lacking. In this paper, we first experimentally evaluate the mixing time of various real-world networks with scale-free small-world properties and show that their mixing time is much higher than anticipated. To better understand the behavior of the mixing time for real-world networks, we then analytically study the mixing time of the Apollonian network, which is simultaneously scale-free and small-world. To this end, we derive the recursive relations for all eigenvalues, especially the second largest eigenvalue modulus of the transition matrix, based on which we deduce a lower bound for the mixing time of the Apollonian network, which approximately scales sublinearly with $N$. Our results indicate that real-world networks are not always fast mixing, which has potential implications in the design of algorithms related to mixing time.
Influence of Pharmaceutical Direct-to-Consumer Advertisement on Medical Treatment of Inflammatory Bowel Disease—An Outpatient Survey-Based Study
Authors: Schuster Isaiah P , Mutz Hugo , Perera Sapphire , Perera Royce , Taub Erin , Rajapakse Ramona 
Published: October 2020

Abstract

Background
The management of inflammatory bowel disease (IBD) has become much more complex as our understanding of the disease pathology has improved and as new novel therapeutic options come into play. A factor that has not been studied in the management of this disease is the role that Direct-To-Consumer Advertisement (DTCA) plays in patients’ decisions regarding their treatment options. Here we investigate the very role this mode of television advertisement has on influencing our patients.

Methods
Following formal institutional review board approval, we devised a prospective, single institution, survey-based study in our university-based outpatient gastroenterology clinic. Surveys included major demographic features along with questions pertaining to patients’ interactions with various advertisements. Surveys were collected over a 3-month period.

Results
Overall, 103 surveys were collected. The data were not normally distributed. Fifty-three patients were female, and 40 patients were male. Eighty-one percent of patients with IBD were not affected in any way by advertisements with regard to influencing their decision to start new therapies. A subgroup analysis revealed that various parameters including age, sex, and marital status played a role in how DTCA influences patients with regard to their IBD treatments.

Discussion
This study demonstrates that overall patients are not significantly influenced by DTCAs; however, some cohorts are influenced in more ways than others. This study highlights the importance of understanding the role DTCA plays in influencing our patients with IBD and sets the foundation for further inquiry into this very interesting relationship.
How evolutionary behavioural sciences can help us understand behaviour in a pandemic
Authors: Arnot Megan , Brandl Eva , Campbell O L K , Chen Yuan , Du Juan , Dyble Mark , Emmott Emily H , Ge Erhao , Kretschmer Luke D W , Mace Ruth , Micheletti Alberto J C , Nila Sarah , Peacey Sarah , Salali Gul Deniz , Zhang Hanzhi 
Published: October 2020

AbstractThe COVID-19 pandemic has brought science into the public eye and to the attention of governments more than ever before. Much of this attention is on work in epidemiology, virology and public health, with most behavioural advice in public health focusing squarely on ‘proximate’ determinants of behaviour. While epidemiological models are powerful tools to predict the spread of disease when human behaviour is stable, most do not incorporate behavioural change. The evolutionary basis of our preferences and the cultural evolutionary dynamics of our beliefs drive behavioural change, so understanding these evolutionary processes can help inform individual and government decision-making in the face of a pandemic.Lay summary: The COVID-19 pandemic has brought behavioural sciences into the public eye: Without vaccinations, stopping the spread of the virus must rely on behaviour change by limiting contact between people. On the face of it, “stop seeing people” sounds simple. In practice, this is hard. Here we outline how an evolutionary perspective on behaviour change can provide additional insights. Evolutionary theory postulates that our psychology and behaviour did not evolve to maximize our health or that of others. Instead, individuals are expected to act to maximise their inclusive fitness (i.e, spreading our genes) – which can lead to a conflict between behaviours that are in the best interests for the individual, and behaviours that stop the spread of the virus. By examining the ultimate explanations of behaviour related to pandemic-management (such as behavioural compliance and social distancing), we conclude that “good of the group” arguments and “one size fits all” policies are unlikely to encourage behaviour change over the long-term. Sustained behaviour change to keep pandemics at bay is much more likely to emerge from environmental change, so governments and policy makers may need to facilitate significant social change – such as improving life experiences for disadvantaged groups.
Proteome analysis of virulentAeromonas hydrophilareveals the upregulation of iron acquisition systems in the presence of a xenosiderophore
Authors: Lange Miles D , Abernathy Jason , Shoemaker Craig A , Zhang Dunhua , Kirby Augustus , Peatman Eric , Beck Benjamin H 
Published: October 2020

ABSTRACTThe Gram-negative bacterium, Aeromonas hydrophila, has been responsible for extensive losses in the catfish industry for over a decade. Due to this impact, there are ongoing efforts to understand the basic mechanisms that contribute to virulent A. hydrophila (vAh) outbreaks. Recent challenge models demonstrated that vAh cultured in the presence of the iron chelating agent deferoxamine mesylate (DFO) were more virulent to channel catfish (Ictalurus punctatus). Interestingly, differential gene expression of select iron acquisition genes was unremarkable between DFO and non-DFO cultures, posing the question: why the increased virulence? The current work sought to evaluate growth characteristics and protein expression of vAh after the addition of DFO. A comparative proteome analysis revealed differentially expressed proteins among tryptic soy broth (TSB) and TSB + DFO treatments. Upregulated proteins identified among the TSB + DFO treatment were enriched for gene ontology groups including iron ion transport, siderophore transport and siderophore uptake transport, all iron acquisition pathways. Protein-protein interactions were also evaluated among the differentially expressed proteins and predicted that many of the upregulated iron acquisition proteins likely form functional physiological networks. The proteome analysis of the vAh reveals valuable information about the basic biological processes likely leading to increased virulence during iron restriction in this organism.
On the wobbles of phase-velocity dispersion curves
Authors: Kolínský Petr , Bokelmann Götz ,   the AlpArray Working Group
Published: October 2020

SUMMARYTo calculate phase-velocity dispersion curves, we introduce a method which reflects both structural and dynamic effects of wave propagation and interference. Rayleigh-wave fundamental-mode surface waves from the South Atlantic Ocean earthquake of 19 August 2016, M = 7.4, observed at the AlpArray network in Europe are strongly influenced by the upper-mantle low-velocity zone under the Cameroon Volcanic Line in Central Africa. Predicting phase-delay times affected by diffraction from this heterogeneity for each station gives phase velocities as they would be determined using the classical two-station method as well as the advanced array-beamforming method. Synthetics from these two methods are thus compared with measurements. We show how the dynamic phase velocity differs from the structural phase velocity, how these differences evolve in space and how two-station and array measurements are affected. In principle, arrays are affected with the same uncertainty as the two-station measurements. The dynamic effects can be several times larger than the error caused by the unknown arrival angle in case of the two-station method. The non-planarity of the waves and its relation to the arrival angle and dynamic phase-velocity deviations is discussed. Our study is complemented by extensive review of literature related to the surface wave phase-velocity measurement of the last 120 years.
Time to seismic failure induced by repeating SSEs in a single-degree-of-freedom spring-slider model
Authors: Ohtani Makiko , Nakatani Masao , Kame Nobuki 
Published: October 2020

SUMMARYSome large earthquakes may have been triggered by large slow slip events (SSEs). This paper studies the time it takes from the most recent SSE to seismic failure in a situation where earthquakes are influenced by periodic SSEs, unlike in earlier studies that investigated the impact of a single SSE imposed at an arbitrary timing during a seismic cycle. A single-degree-of-freedom (SDOF) spring-slider model obeying a rate- and state-dependent friction (RSF) law is used to study the time to failure. The results are compared with those in Ohtani et al., which simulates megathrust earthquakes triggered by large, spontaneous SSEs along the deeper extension of a seismogenic zone in a 2-D elastic medium. Suppose a model fault under steady-rate tectonic loading is also impacted by stress steps induced by periodic SSEs. In the absence of SSEs, there is only a unique value of the characteristic slip distance L of RSF for a given seismic return period T. In the presence of SSEs, by contrast, synchronization occurs, and there exists a finite range of L values that corresponds to the same T. The timing (phase difference) of earthquakes relative to the SSEs varies continuously with L within that range. This study focuses on the case where T is triple the SSE return period, TSSE, (T = 3TSSE) to allow comparison with Ohtani et al. For each value of L in that range, disturbance tests that assign random values to T0, the timing of the third SSE within the seismic cycle, are conducted to obtain a probability distribution for tf, the time from that SSE to seismic failure. The distribution is converted into P(t; L), the cumulative probability that seismic failure occurs within time t of the SSE. The P(t; L) is averaged over the different L values to produce $\bar{P}$(t), which takes account of variability in the strength excess on the seismic fault at the time of the SSE, a parameter that is generally unknown. These numerical disturbance tests are conducted for three different values of an SSE size parameter. It is found that the larger the SSEs, the more intensely seismic failure is concentrated within short time intervals following an SSE. For the largest SSE, whereby a single SSE accounts for 3/10 of the total stress accumulated during a seismic cycle, there is a 50 per cent probability that seismic failure occurs within 132 d. These results contrast with those of Ohtani et al., in which tf was found to be concentrated more intensely within even shorter time intervals following an SSE (80 per cent probability that seismic failure occurs within 2.78 d of the SSE). It is suggested the timing of SSE-triggered seismic failure is concentrated more strongly on a fault embedded in a continuum because of a factor that cannot be taken into account by an SDOF model—a spatial structure of stress concentration that is already there on the fault even before the triggering event, the SSE.
Long-wavelength lithospheric magnetic field of China
Authors: Jiang Yi , Holme Richard , Xiong Sheng-Qing , Jiang Yong , Feng Yan , Yang Hai 
Published: October 2020

SUMMARY
We present new regional models, denoted CLAS, of the Chinese lithospheric field, combining the long-wavelength information provided by satellite-derived models: CHAOS-6, MF7, LCS-1 and NGDC720, and an extremely high-quality compilation of 97 994 aeromagnetic survey data with 10 km × 10 km resolution for shorter wavelength. The models are estimated using a depleted basis of global spherical harmonic functions centred on China. CLAS models are determined include harmonic degrees up to 400. Although some accuracy of aeromagnetic data is lost in order to balance the consistent of two data sets, the results show that CLAS models have a high correlation with the satellite models at low-degree terms (degree correlation &gt; 0.9) but with more power at high-degree terms, reflecting more features of the lithospheric field in continental China. Examples of improvement include Changbai mountains, Sichuan Basin and Qinghai–Tibet Plateau. CLAS models have good agreement (coherence &gt; 0.9) with Chinese aeromagnetic data at wavelength down to about 100 km (corresponding to spherical harmonic degree n = 400), filling the usual gap between satellite models and aeromagnetic data. Comparison with aeromagnetic data filtered at 100 km gives good agreement (correlation &gt; 0.95). The residuals between CLAS models and aeromagnetic data are still large (rms &gt; 70 nT), but with most of misfits arising from shorter wavelength fields that the model cannot fit at degree up to 400; such misfit could be reduced by increasing the model degree. We provide a geological example of how the inclusion of satellite data can change the geological conclusions that can be drawn from the magnetic information. However, the two data sets are not completely consistent, future models should start from a reanalysis of the aeromagnetic data and its line levelling to ensure consistency with the satellite model.