bluuebunny/crossref_metadata_2025_split huggingface dataset:
Community Transmission of Severe Acute Respiratory Syndrome Coronavirus 2 Disproportionately Affects the Latinx Population During Shelter-in-Place in San Francisco
Authors: Chamie Gabriel , Marquez Carina , Crawford Emily , Peng James , Petersen Maya , Schwab Daniel , Schwab Joshua , Martinez Jackie , Jones Diane , Black Douglas , Gandhi Monica , Kerkhoff Andrew D , Jain Vivek , Sergi Francesco , Jacobo Jon , Rojas Susana , Tulier-Laiwa Valerie , Gallardo-Brown Tracy , Appa Ayesha , Chiu Charles , Rodgers Mary , Hackett John ,   CLIAhub Consortium, Kistler Amy , Hao Samantha , Kamm Jack , Dynerman David , Batson Joshua , Greenhouse Bryan , DeRisi Joe , Havlir Diane V 
Published: August 2020

Abstract

Background
There is an urgent need to understand the dynamics and risk factors driving ongoing severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) transmission during shelter-in-place mandates.

Methods
We offered SARS-CoV-2 reverse-transcription polymerase chain reaction (PCR) and antibody (Abbott ARCHITECT IgG) testing, regardless of symptoms, to all residents (aged ≥4 years) and workers in a San Francisco census tract (population: 5174) at outdoor, community-mobilized events over 4 days. We estimated SARS-CoV-2 point prevalence (PCR positive) and cumulative incidence (antibody or PCR positive) in the census tract and evaluated risk factors for recent (PCR positive/antibody negative) vs prior infection (antibody positive/PCR negative). SARS-CoV-2 genome recovery and phylogenetics were used to measure viral strain diversity, establish viral lineages present, and estimate number of introductions.

Results
We tested 3953 persons (40% Latinx; 41% White; 9% Asian/Pacific Islander; and 2% Black). Overall, 2.1% (83/3871) tested PCR positive: 95% were Latinx and 52% were asymptomatic when tested; 1.7% of census tract residents and 6.0% of workers (non–census tract residents) were PCR positive. Among 2598 tract residents, estimated point prevalence of PCR positives was 2.3% (95% confidence interval [CI], 1.2%–3.8%): 3.9% (95% CI, 2.0%–6.4%) among Latinx persons vs 0.2% (95% CI, .0–.4%) among non-Latinx persons. Estimated cumulative incidence among residents was 6.1% (95% CI, 4.0%–8.6%). Prior infections were 67% Latinx, 16% White, and 17% other ethnicities. Among recent infections, 96% were Latinx. Risk factors for recent infection were Latinx ethnicity, inability to shelter in place and maintain income, frontline service work, unemployment, and household income &lt;$50 000/year. Five SARS-CoV-2 phylogenetic lineages were detected.

Conclusions
SARS-CoV-2 infections from diverse lineages continued circulating among low-income, Latinx persons unable to work from home and maintain income during San Francisco’s shelter-in-place ordinance.
Parameter interdependence of dynamic self-similar crack with distance-weakening friction
Authors: Hirano Shiro , Itou Hiromichi 
Published: August 2020

SUMMARY
In several analytical and numerical studies, the slip rate function and energy release rate for dynamic self-similar crack growth have been investigated, and the results obtained have contributed to a theoretical understanding and estimation of on-fault energetics. However, the relationships among physical parameters, including stress state, process zone size, rupture velocity, peak slip rate and energy release rate, are still unclear. Therefore, the aim of this study is to derive an analytical solution of the slip rate distribution of antiplane self-similar crack growth under distance-weakening friction that mimics slip-weakening friction. To satisfy the condition that the slip rate starts from zero at the rupture front, a trade-off relationship among rupture velocity, process zone size and breakdown stress-to-stress drop ratio is proposed. The peak slip rate, slip-weakening distance and fracture energy obtained using the proposed model provide a possible mechanism for the determination of the rupture velocity and the estimation of the fracture energy of the self-similar crack growth, based on the seismic observables.
Genetics and geography of leukocyte telomere length in sub-Saharan Africans
Authors: Hunt Steven C , Hansen Matthew E B , Verhulst Simon , McQuillan Michael A , Beggs William , Lai Tsung-Po , Mokone Gaonyadiwe G , Mpoloka Sununguko Wata , Meskel Dawit Wolde , Belay Gurja , Nyambo Thomas B , Abnet Christian C , Yeager Meredith , Chanock Stephen J , Province Michael A , Williams Scott M , Aviv Abraham , Tishkoff Sarah A 
Published: August 2020

Abstract
Leukocyte telomere length (LTL) might be causal in cardiovascular disease and major cancers. To elucidate the roles of genetics and geography in LTL variability across humans, we compared LTL measured in 1295 sub-Saharan Africans (SSAs) with 559 African–Americans (AAms) and 2464 European–Americans (EAms). LTL differed significantly across SSAs (P = 0.003), with the San from Botswana (with the oldest genomic ancestry) having the longest LTL and populations from Ethiopia having the shortest LTL. SSAs had significantly longer LTL than AAms [P = 6.5(e-16)] whose LTL was significantly longer than EAms [P = 2.5(e-7)]. Genetic variation in SSAs explained 52% of LTL variance versus 27% in AAms and 34% in EAms. Adjustment for genetic variation removed the LTL differences among SSAs. LTL genetic variation among SSAs, with the longest LTL in the San, supports the hypothesis that longer LTL was ancestral in humans. Identifying factors driving LTL variation in Africa may have important ramifications for LTL-associated diseases.
A sharp error estimate of piecewise polynomial collocation for nonlocal problems with weakly singular kernels
Authors: Chen Minghua , Qi Wenya , Shi Jiankang , Wu Jiming 
Published: August 2020

Abstract
As is well known, piecewise linear polynomial collocation (PLC) and piecewise quadratic polynomial collocation (PQC) are used to approximate the weakly singular integrals $$\begin{equation*}I(a,b,x) =\int^b_a \frac{u(y)}{|x-y|^\gamma}\textrm{d}y, \quad x \in (a,b),\quad 0&lt; \gamma &lt;1,\end{equation*}$$which have local truncation errors $\mathcal{O} (h^2 )$ and $\mathcal{O} (h^{4-\gamma } )$, respectively. Moreover, for Fredholm weakly singular integral equations of the second kind, i.e., $\lambda u(x)- I(a,b,x) =f(x)$, $\lambda \neq 0$, the global convergence rates are also $\mathcal{O} (h^2 )$ and $\mathcal{O} (h^{4-\gamma } )$ by PLC and PQC in Atkinson (2009, The Numerical Solution of Integral Equations of the Second Kind, Cambridge University Press). In this work we study the following nonlocal problems, which are similar to the above Fredholm integral equations: $$\begin{equation*}\int^b_a \frac{u(x)-u(y)}{|x-y|^\gamma}\textrm{d}y =f(x), \quad x \in (a,b),\quad 0&lt; \gamma &lt;1. \end{equation*}$$In the first part of this paper we prove that the weakly singular integrals $I(a,b,x)$ have optimal local truncation error $\mathcal{O}(h^4\eta _i^{-\gamma } )$ by PQC, where $\eta _i=\min \left \{x_i-a,b-x_i\right \}$ and $x_i$ coincides with an element junction point. Then the sharp global convergence orders $\mathcal{O}\left (h\right )$ and $\mathcal{O} (h^3)$ by PLC and PQC, respectively, are established for nonlocal problems. Finally, numerical experiments are shown to illustrate the effectiveness of the presented methods.
Selective Decay of Intact HIV-1 Proviral DNA on Antiretroviral Therapy
Authors: Gandhi Rajesh T , Cyktor Joshua C , Bosch Ronald J , Mar Hanna , Laird Gregory M , Martin Albine , Collier Ann C , Riddler Sharon A , Macatangay Bernard J , Rinaldo Charles R , Eron Joseph J , Siliciano Janet D , McMahon Deborah K , Mellors John W ,   AIDS Clinical Trials Group A5321 Team, Hogg Evelyn , LeBlanc Rebecca , Scello Christine , Palm David , Gandhi Monica , Fletcher Courtney , Podany Anthony , Aweeka Fran , Halvas Lou , Dragavon Joan , Joseph Jeymohan , Lagattuta Rose , Lin Leyi , Pederson Susan , Robertson Kevin , Rubin Leah , Smith Davey , Spudich Serena , Tsibris Athe 
Published: August 2020

Abstract

Background
HIV-1 proviruses persist in people on antiretroviral therapy (ART) but most are defective and do not constitute a replication-competent reservoir. The decay of infected cells carrying intact compared with defective HIV-1 proviruses has not been well defined in people on ART.

Methods
We separately quantified intact and defective proviruses, residual plasma viremia, and markers of inflammation and activation in people on long-term ART.

Results
Among 40 participants tested longitudinally from a median of 7.1 years to 12 years after ART initiation, intact provirus levels declined significantly over time (median half-life, 7.1 years; 95% confidence interval [CI], 3.9–18), whereas defective provirus levels did not decrease. The median half-life of total HIV-1 DNA was 41.6 years (95% CI, 13.6–75). The proportion of all proviruses that were intact diminished over time on ART, from about 10% at the first on-ART time point to about 5% at the last. Intact provirus levels on ART correlated with total HIV-1 DNA and residual plasma viremia, but there was no evidence for associations between intact provirus levels and inflammation or immune activation.

Conclusions
Cells containing intact, replication-competent proviruses are selectively lost during suppressive ART. Defining the mechanisms involved should inform strategies to accelerate HIV-1 reservoir depletion.
Supporting global antimicrobial stewardship: antibiotic prophylaxis for the prevention of surgical site infection in low- and middle-income countries (LMICs): a scoping review and meta-analysis
Authors: Cooper Lesley , Sneddon Jacqueline , Afriyie Daniel Kwame , Sefah Israel A , Kurdi Amanj , Godman Brian , Seaton R Andrew 
Published: August 2020

AbstractBackgroundThe Scottish Antimicrobial Prescribing Group is supporting two hospitals in Ghana to develop antimicrobial stewardship. Early intelligence gathering suggested that surgical prophylaxis was suboptimal. We reviewed the evidence for use of surgical prophylaxis to prevent surgical site infections (SSIs) in low- and middle-income countries (LMICs) to inform this work.MethodsMEDLINE, Embase, Cochrane, CINAHL and Google Scholar were searched from inception to 17 February 2020 for trials, audits, guidelines and systematic reviews in English. Grey literature, websites and reference lists of included studies were searched. Randomized clinical trials reporting incidence of SSI following Caesarean section were included in two meta-analyses. Narrative analysis of studies that explored behaviours and attitudes was conducted.ResultsThis review included 51 studies related to SSI and timing of antibiotic prophylaxis in LMICs. Incidence of SSI is higher in LMICs, infection surveillance data are poor and there is a lack of local guidelines for antibiotic prophylaxis. Education to improve appropriate antibiotic prophylaxis is associated with reduction of SSI in LMICs. The random-effects pooled mean risk ratio of SSI in Caesarean section was 0.77 (95% CI: 0.51–1.17) for pre-incision versus post-incision prophylaxis and 0.89 (95% CI: 0.55–1.14) for short versus long duration. Reduction in cost and nurse time was reported in shorter-duration surgical antibiotic prophylaxis.ConclusionsThere is scope for improvement, but interventions must include local context and address strongly held beliefs. Establishment of local multidisciplinary teams will promote ownership and sustainability of change.
Liver resection for metastatic thyroid carcinoma. Case report and literature review
Authors: Sánchez-Garavito Jesús Emiliano , Sanchez-Garcia Jorge , Olsen Daniel , Shorti Rami M , Lopez-Verdugo Fidel , Rodriguez-Davalos Manuel I 
Published: August 2020

Abstract
Liver resection for metastatic cancer has become the standard of care for specific groups of patients, including noncolorectal non-neuroendocrine liver metastases (NCNNELM). Liver metastasis from differentiated thyroid carcinoma is considered rare, with an approximated frequency of 0.5%. We present a case of metastatic papillary thyroid carcinoma (PTC) to the liver and literature review. Herein, we report a 72-year-old male that underwent formal left hepatectomy for 4.4 cm metastatic PTC generating left bile duct obstruction. Two months after, presented with multiple small lesions within the hepatic parenchyma and diffuse ductal dilatation of the right biliary system. Therefore, treated with a percutaneous biliary drain placement without complications. In a patient diagnosed with initial Stage II PTC, undergoing total thyroidectomy 10 years before presenting to the clinic. Bearing over a decade of treatments for local and distal recurrences. We believe approaching strategies for this specific disease should be developed to establish standard management.
Orthopedic Surgery and Flight Surgery: Income Differences Between the Navy Health Professions Scholarship Program and Civilian Orthopedic Surgery
Authors: Goodrich Eric , Goodrich Richard P 
Published: August 2020

Abstract

Introduction
The purpose of this study to analyze the financial impact of choosing a civilian or military orthopedic surgery career. It will examine the most common scenarios to become an orthopedic surgeon in the Navy Health Professions Scholarship Program to include becoming a flight surgeon. To the authors’ knowledge, there is no peer-reviewed literature that financially analyzes the most common scenarios for a Navy Health Professions Scholarship Program scholarship recipient to become an orthopedic surgeon.

Materials and Methods
Salaries for Navy orthopedic surgeons, residents, and flight surgeons were recorded using the 2020 Defense Finance and Accounting Service pay tables and Navy Fiscal Year 2019 Medical Corps Special Pay Guidance. The median income of civilian orthopedic surgeons was recorded using Salary.com. The present value (PV) and future value (FV) were calculated using the Consumer Price Index-U and average Department of Defense pay increases over the past 20 years. Six common scenarios were utilized to calculate the PV and FV of civilian compared to Navy orthopedic surgeons.

Results
The two highest earning net FVs among all Navy scenarios were those surgeons who kept their Navy tour to 5 years or less (flight surgeon tour/separate or civilian deferment/separate). The civilian throughout scenario had the highest net FV of $19,974,673 after retiring at the age of 65. Flight surgeon tour/separate and civilian deferment/separate scenarios only made $843,751 and $1,401,630 less respectively than a pure civilian career due to the tax shelter afforded by the military pay. All Navy retirement scenarios to include Navy throughout, civilian deferment/Navy throughout, flight surgeon tour/Navy throughout resulted in a net FV less than $17,700,000. Civilian residency/deferment and retiring in the Navy had the worst net FV among all scenarios.

Conclusions
It was found that the shorter tours in the Navy had a higher net FV than those who made the Navy a career in orthopedic surgery. Flight surgery is a rewarding operational experience with among the highest net FV among Navy scenarios and is only slightly less than the net FV of a pure civilian career. However, it can be more difficult to apply for civilian orthopedic surgery after serving a flight surgeon tour. Lastly, the net FV was very similar between a civilian orthopedic surgeon career and the shorter tours served in the Navy. Factors such as higher civilian income with associated loan repayment/signing bonuses makes the civilian orthopedic surgery route the best financial option. This study will help those medical students considering a military versus a civilian career in orthopedic surgery and aid in Department of Defense recruitment/retention.
Insights into the planetary dynamics of HD 206893 with ALMA
Authors: Marino S , Zurlo A , Faramaz V , Milli J , Henning Th , Kennedy G M , Matrà L , Pérez S , Delorme P , Cieza L A , Hughes A M 
Published: August 2020

ABSTRACT
Radial substructure in the form of rings and gaps has been shown to be ubiquitous among protoplanetary discs. This could be the case in exo-Kuiper belts as well, and evidence for this is emerging. In this paper, we present ALMA observations of the debris/planetesimal disc surrounding HD 206893, a system that also hosts two massive companions at 2 and 11 au. Our observations reveal a disc extending from 30 to 180 au, split by a 27 au wide gap centred at 74 au, and no dust surrounding the reddened brown dwarf (BD) at 11 au. The gap width suggests the presence of a 0.9MJup planet at 74 au, which would be the third companion in this system. Using previous astrometry of the BD, combined with our derived disc orientation as a prior, we were able to better constrain its orbit finding it is likely eccentric ($0.14^{+0.05}_{-0.04}$). For the innermost companion, we used radial velocity, proper motion anomaly, and stability considerations to show its mass and semimajor axis are likely in the ranges 4–100MJup and 1.4–4.5 au. These three companions will interact on secular time-scales and perturb the orbits of planetesimals, stirring the disc and potentially truncating it to its current extent via secular resonances. Finally, the presence of a gap in this system adds to the growing evidence that gaps could be common in wide exo-Kuiper belts. Out of six wide debris discs observed with ALMA with enough resolution, four to five show radial substructure in the form of gaps.
The Blanco DECam bulge survey. I. The survey description and early results
Authors: Rich R Michael , Johnson Christian I , Young Michael , Simion Iulia T , Clarkson William I , Pilachowski Catherine , Michael Scott , Kunder Andrea , Katherina Vivas A , Koch Andreas , Marchetti Tommaso , Ibata Rodrigo , Martin Nicolas , Robin Annie C , Lagarde Nadége , Collins Michelle , Ivezić Željko , de Propris Roberto , Shen Juntai , Gerhard Ortwin , Soto Mario 
Published: August 2020

ABSTRACT
The Blanco Dark Energy Camera (DECam) Bulge survey is a Vera Rubin Observatory (LSST) pathfinder imaging survey, spanning ∼200 deg2 of the Southern Galactic bulge, −2° &lt; b &lt; −13° and −11° &lt; l &lt; +11°. We have employed the CTIO-4 m telescope and the DECam to image a contiguous ∼200 deg2 region of the relatively less reddened Southern Galactic bulge, in SDSS u + Pan-STARRSgrizy. Optical photometry with its large colour baseline will be used to investigate the age and metallicity distributions of the major structures of the bulge. Included in the survey footprint are 26 globular clusters imaged in all passbands. Over much of the bulge, we have Gaia DR2 matching astrometry to i ∼ 18, deep enough to reach the faint end of the red clump. This paper provides the background, scientific case, and description of the survey. We present an array of new reddening-corrected colour–magnitude diagrams that span the extent of Southern Galactic bulge. We argue that a population of massive stars in the blue loop evolutionary phase, proposed to lie in the bulge, are instead at ∼2 kpc from the Sun and likely red clump giants in the old disc. A bright red clump near (l, b) = (+ 8°, −4°) may be a feature in the foreground disc, or related to the long bar reported in earlier work. We also report the first map of the blue horizontal branch population spanning the Blanco DECam Bulge Survey field of regard, and our data do not confirm the reality of a number of proposed globular clusters in the bulge.
Understanding biases in measurements of molecular cloud kinematics using line emission
Authors: Yuan (原) Yuxuan (宇轩) , Krumholz Mark R , Burkhart Blakesley 
Published: August 2020

ABSTRACT
Molecular line observations using a variety of tracers are often used to investigate the kinematic structure of molecular clouds. However, measurements of cloud velocity dispersions with different lines, even in the same region, often yield inconsistent results. The reasons for this disagreement are not entirely clear, since molecular line observations are subject to a number of biases. In this paper, we untangle and investigate various factors that drive linewidth measurement biases by constructing synthetic position–position–velocity cubes for a variety of tracers from a suite of self-gravitating magnetohydrodynamic simulations of molecular clouds. We compare linewidths derived from synthetic observations of these data cubes to the true values in the simulations. We find that differences in linewidth as measured by different tracers are driven by a combination of density-dependent excitation, whereby tracers that are sensitive to higher densities sample smaller regions with smaller velocity dispersions, opacity broadening, especially for highly optically thick tracers such as CO, and finite resolution and sensitivity, which suppress the wings of emission lines. We find that, at fixed signal-to-noise ratio, three commonly used tracers, the J = 4 → 3 line of CO, the J = 1 → 0 line of C18O, and the (1,1) inversion transition of NH3, generally offer the best compromise between these competing biases, and produce estimates of the velocity dispersion that reflect the true kinematics of a molecular cloud to an accuracy of $\approx 10{{\ \rm per\ cent}}$ regardless of the cloud magnetic field strengths, evolutionary state, or orientations of the line of sight relative to the magnetic field. Tracers excited primarily in gas denser than that traced by NH3 tend to underestimate the true velocity dispersion by $\approx 20{{\ \rm per\ cent}}$ on average, while low-density tracers that are highly optically thick tend to have biases of comparable size in the opposite direction.
A Neurosurgeon's Guide to Cognitive Dysfunction in Adult Glioma
Authors: Morshed Ramin A , Young Jacob S , Kroliczek Arlena A , Berger Mitchel S , Brang David , Hervey-Jumper Shawn L 
Published: August 2020

Abstract
Cognitive decline is common among patients with low- and high-grade glioma and can significantly impact quality of life. Although cognitive outcomes have been studied after therapeutic interventions such as surgery and radiation, it is important to understand the impact of the disease process itself prior to any interventions. Neurocognitive domains of interest in this disease context include intellectual function and premorbid ability, executive function, learning and memory, attention, language function, processing speed, visuospatial function, motor function, and emotional function. Here, we review oncologic factors associated with more neurocognitive impairment, key neurocognitive tasks relevant to glioma patient assessment, as well as the relevance of the human neural connectome in understanding cognitive dysfunction in glioma patients. A contextual understanding of glioma-functional network disruption and its impact on cognition is critical in the surgical management of eloquent area tumors.