bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Enduring Legacy of the Dodd-Frank Act’s Derivatives Reforms
Authors: Tarbert Heath P 
Published: October 2020

ABSTRACT
Despite the shortcomings of the Dodd-Frank Act, this article argues that the two parts most relevant to derivatives—Titles VII and VIII—are likely to endure. Title VII, which covers the trading of derivatives, especially swaps, generally strikes the right balance between preserving the vibrancy of the US derivatives markets and mitigating risk to market participants and the US financial system. While Title VII’s consolidation of much of the credit risk management function in central counterparties (CCPs) itself poses a systemic risk, this article contends nonetheless that Title VII addresses this risk by giving the Commodity Futures Trading Commission (CFTC) the power to mitigate it through regulations that implement the ‘core principles’ applicable to CCPs. This oversight is complemented by Title VIII, which provides enhanced supervision of systemically important CCPs. The Dodd-Frank Act’s approach to derivatives will endure, it is argued, so long as policymakers understand the interrelationship between Titles VII and VIII. This article focuses on that relationship and closes with a brief discussion of some of the work the CFTC is undertaking to bring finality to the statutory framework created by Titles VII and VIII.
Ghosts of a Structured Past: Impacts of Ancestral Patterns of Isolation-by-Distance on Divergence-Time Estimation
Authors: Hancock Zachary B , Blackmon Heath 
Published: October 2020

AbstractIsolation-by-distance is a widespread pattern in nature that describes the reduction of genetic correlation between subpopulations with increased geographic distance. In the population ancestral to modern sister species, this pattern may hypothetically inflate population divergence time estimation due to allele frequency differences in subpopulations at the ends of the ancestral population. In this study, we analyze the relationship between the time to the most recent common ancestor and the population divergence time when the ancestral population model is a linear stepping-stone. Using coalescent simulations, we compare the coalescent time to the population divergence time for various ratios of the divergence time over the population size. Next, we simulate whole genomes to obtain single nucleotide polymorphisms (SNPs), and use the Bayesian coalescent program SNAPP to estimate divergence times. We find that as the rate of migration between neighboring demes decreases, the coalescent time becomes significantly greater than the population divergence time when sampled from end demes. Divergence-time overestimation in SNAPP becomes severe when the divergence-to-population size ratio &lt; 10 and migration is low. Finally, we demonstrate the impact of ancestral isolation-by-distance on divergence-time estimation using an empirical dataset of squamates (Tropidurus) endemic to Brazil. We conclude that studies estimating divergence times should be cognizant of the potential ancestral population structure in an explicitly spatial context or risk dramatically overestimating the timing of population splits.
News and Idiosyncratic Volatility: The Public Information Processing Hypothesis*
Authors: Engle Robert F , Hansen Martin Klint , Karagozoglu Ahmet K , Lunde Asger 
Published: October 2020

Abstract
Motivated by the recent availability of extensive electronic news databases and advent of new empirical methods, there has been renewed interest in investigating the impact of financial news on market outcomes for individual stocks. We develop the information processing hypothesis of return volatility to investigate the relation between firm-specific news and volatility. We propose a novel dynamic econometric specification and test it using time series regressions employing a machine learning model selection procedure. Our empirical results are based on a comprehensive dataset comprised of more than 3 million news items for a sample of 28 large U.S. companies. Our proposed econometric specification for firm-specific return volatility is a simple mixture model with two components: public information and private processing of public information. The public information processing component is defined by the contemporaneous relation with public information and volatility, while the private processing of public information component is specified as a general autoregressive process corresponding to the sequential price discovery mechanism of investors as additional information, previously not publicly available, is generated and incorporated into prices. Our results show that changes in return volatility are related to public information arrival and that including indicators of public information arrival explains on average 26% (9–65%) of changes in firm-specific return volatility.
Torsion of a mucocele of the veriform appendix: report of a case
Authors: Knol M E , de Leede E M , van Beurden A 
Published: October 2020

Abstract
Mucocele of the appendix refers to an appendix that is distended by mucus and transformed in a mucus-filled sac. Appendicular torsion is rare. Primary and secondary forms of appendicular torsion are known. Our patient presented to the emergency department with complaints mimicking acute appendicitis. Imaging with computed tomography and ultrasound showed a cystic lesion most likely originating from the right ovary. The veriform appendix was located close to this lesion and seemed to be distended. During diagnostic laparoscopy, a torsion of the veriform appendix due to a mucocele was found and an appendectomy was performed. Histopathological analysis confirmed the diagnosis. Torsion of the vermiform appendix is most often diagnosed intra-operatively. Pre-operative radiologic imaging is often not useful in the detection of appendicular abnormalities other than acute appendicitis. The treatment consists of detorsion and appendectomy.
Situation Aspect, (UN)Boundedness and The Participial Periphrastic Construction in Biblical Hebrew
Authors: Carver Daniel E , Cook Edward M 
Published: October 2020

Abstract
This paper provides a comprehensive and uniform description that accounts for the use of all the participial periphrastic constructions in Biblical Hebrew and calls into question the claim that a second (‘preterite’) function of the construction was developed in Late Biblical Hebrew. We define the syntagm and give criteria for distinguishing true participial periphrastic constructions from superficially similar constructions. We then show that close attention to situation aspect and (un)boundedess provides a unified and sound account of every occurrence of the syntagm in the Hebrew Bible. We conclude that, unless the situation is bounded by an adverbial phrase, every participial periphrastic construction is unbounded which semantically distinguishes the construction from wayyiqtol.
Detection of subtilisin 3 and 6 in skin biopsies of cattle with clinically manifested bovine ringworm
Authors: Lindenhahn Jakob , Bartosch Theresa , Baumbach Christina-Marie , Suchowski Marcel , Kacza Johannes , Schrödl Wieland , Michler Jule K 
Published: October 2020

Abstract

Trichophyton (T.) verrucosum is a highly pathogenic dermatophyte causing zoonotic bovine ringworm that is transmissible to humans. The virulence factors subtilisin (Sub)3 and Sub6 are discussed to contribute to disease manifestation but no protein expression study is available for T. verrucosum. We used customized antibodies (against Trichophyton-species, Sub3 and Sub6) to examine skin biopsies of infected cattle via immunofluorescence stainings. Both virulence factors Sub3 and 6 were solely expressed by conidia and not only found in epidermal but also in dermal and hair structures. The anti-T-antibody reliably detected the fungus and proved more sensitive compared to histological stains.

Lay Summary
We examined the zoonotic dermatophyte Trichophyton (T.) verrucosum in bovine skin and studied two important virulence factors called subtilisin (Sub)3 and Sub6 that T. verrucosum produces and secretes using immunolabeling.
High resolution parameter study of the vertical shear instability
Authors: Manger Natascha , Klahr Hubert , Kley Wilhelm , Flock Mario 
Published: October 2020

ABSTRACT
Theoretical models of protoplanetary discs have shown the vertical shear instability (VSI) to be a prime candidate to explain turbulence in the dead zone of the disc. However, simulations of the VSI have yet to show consistent levels of key disc turbulence parameters like the stress-to-pressure ratio α. We aim to reconcile these different values by performing a parameter study on the VSI with focus on the disc density gradient p and aspect ratio h = H/R. We use full 2π 3D simulations of the disc for chosen set of both parameters. All simulations are evolved for 1000 reference orbits, at a resolution of 18 cells per h. We find that the saturated stress-to-pressure ratio in our simulations is dependent on the disc aspect ratio with a strong scaling of α∝h2.6, in contrast to the traditional α model, where viscosity scales as ν∝αh2 with a constant α. We also observe consistent formation of large scale vortices across all investigated parameters. The vortices show uniformly aspect ratios of χ ≈ 10 and radial widths of approximately 1.5H. With our findings we can reconcile the different values reported for the stress-to-pressure ratio from both isothermal and full radiation hydrodynamics models, and show long-term evolution effects of the VSI that could aide in the formation of planetesimals.
Constraining models of the pulsar wind nebula in SNR G0.9+0.1 via simulation of its detection properties using the Cherenkov Telescope Array
Authors: Fiori M , Zampieri L , Burtovoi A , Caraveo P , Tibaldo L 
Published: October 2020

ABSTRACT
SNR G0.9+0.1 is a well-known source in the direction of the Galactic Centre composed by a Supernova Remnant (SNR) and a Pulsar Wind Nebula (PWN) in the core. We investigate the potential of the future Cherenkov Telescope Array (CTA), simulating observations of SNR G0.9 + 0.1. We studied the spatial and spectral properties of this source and estimated the systematic errors of these measurements. The source will be resolved if the very high-energy emission region is bigger than ∼0.65′. It will also be possible to distinguish between different spectral models and calculate the cutoff energy. The systematic errors are dominated by the Instrument Response Function instrumental uncertainties, especially at low energies. We computed the evolution of a young PWN inside an SNR using a one-zone time-dependent leptonic model. We applied the model to the simulated CTA data and found that it will be possible to accurately measure the cutoff energy of the γ-ray spectrum. Fitting of the multiwavelength spectrum will allow us to constrain also the magnetization of the PWN. Conversely, a pure power-law spectrum would rule out this model. Finally, we checked the impact of the spectral shape and the energy density of the Inter-Stellar Radiation Fields on the estimate of the parameters of the PWN, finding that they are not significantly affected.
Small-scale star formation as revealed by VVVX galactic cluster candidates
Authors: Borissova J , Kurtev R , Amarinho N , Alonso-García J , Ramírez Alegría S , Bernal S , Medina N , Chené A-N , Ivanov V D , Lucas P W , Minniti D 
Published: October 2020

ABSTRACT
We report a search and analysis of obscured cluster candidates in the ‘VISTA Variables in the Via Lactea eXtended (VVVX)’ ESO Public Survey area encompassing the region between 229${_{.}^{\circ}}$4 &lt; l &lt; 295${_{.}^{\circ}}$2 and −4${_{.}^{\circ}}$3 &lt; b &lt; 4${_{.}^{\circ}}$4 of the southern Galactic disc. We discover and propose 88 new clusters. We improve the completeness of the embedded cluster population in this region, adding small size (linear diameters of 0.2–1.4 pc) and relatively far objects (heliocentric distance between 2 and 4 kpc) to existing catalogues. Nine candidates are proposed to be older open cluster candidates. Three of them (VVVX CL 204,  CL 207, CL  208) have sufficient numbers of well-resolved stellar members to allow us to determine some basic cluster parameters. We confirm their nature as older, low-mass open clusters. Photometric analysis of 15 known clusters shows that they have ages above 20 Myr, and masses below 2000 M⊙: in general, their proper motions follow the motion of the disc. We outline some groups of clusters, most probably formed within the same dust complex. Broadly, our candidates follow the network of filamentary structure in the remaining dust. Thus, in this part of the southern disc of the Galaxy, we have found recent star formation, producing small size and young clusters, in addition to the well-known, massive young clusters, including NGC 3603, Westerlund 2, and the Carina Nebula Complex.
Discovery of Ongoing Selective Sweeps withinAnophelesMosquito Populations Using Deep Learning
Authors: Xue Alexander T , Schrider Daniel R , Kern Andrew D ,   Ag1000g Consortium, della Torre Alessandra , Kern Andrew , Caputo Beniamino , Kabula Bilali , White Bradley , Godfray Charles , Edi Constant , Wilding Craig , Neafsey Dan , Schrider Daniel , Conway David , Weetman David , Ayala Diego , Kwiatkowski Dominic , Sharakhov Igor , Midega Janet , Xu Jiannong (John) , Pinto João , Essandoh John , Matowo Johnson , Vernick Ken , Djogbenou Luc S , Coulibaly Mamadou , Lawniczak Mara , Donnelly Martin , Hahn Matthew , Fontaine Michaël , Riehle Michelle , Besansky Nora , Cornejo Omar , McCann Robert , O’Loughlin Sam , Robert Vincent , Xue Alexander , Miles Alistair , Clarkson Chris , Battey CJ , Champion Cody , Labbe Frederic , Bottà Giordano , Adrion Jeffrey , Nelson Joel , Harding Nick , Wang Richard , Small Scott T , Redmond Seth , Antão Tiago 
Published: October 2020

AbstractIdentification of partial sweeps, which include both hard and soft sweeps that have not currently reached fixation, provides crucial information about ongoing evolutionary responses. To this end, we introduce partialS/HIC, a deep learning method to discover selective sweeps from population genomic data. partialS/HIC uses a convolutional neural network for image processing, which is trained with a large suite of summary statistics derived from coalescent simulations incorporating population-specific history, to distinguish between completed versus partial sweeps, hard versus soft sweeps, and regions directly affected by selection versus those merely linked to nearby selective sweeps. We perform several simulation experiments under various demographic scenarios to demonstrate partialS/HIC’s performance, which exhibits excellent resolution for detecting partial sweeps. We also apply our classifier to whole genomes from eight mosquito populations sampled across sub-Saharan Africa by the Anopheles gambiae 1000 Genomes Consortium, elucidating both continent-wide patterns as well as sweeps unique to specific geographic regions. These populations have experienced intense insecticide exposure over the past two decades, and we observe a strong overrepresentation of sweeps at insecticide resistance loci. Our analysis thus provides a list of candidate adaptive loci that may be relevant to mosquito control efforts. More broadly, our supervised machine learning approach introduces a method to distinguish between completed and partial sweeps, as well as between hard and soft sweeps, under a variety of demographic scenarios. As whole-genome data rapidly accumulate for a greater diversity of organisms, partialS/HIC addresses an increasing demand for useful selection scan tools that can track in-progress evolutionary dynamics.
Comparative Toxicogenomics Database (CTD): update 2021
Authors: Davis Allan Peter , Grondin Cynthia J , Johnson Robin J , Sciaky Daniela , Wiegers Jolene , Wiegers Thomas C , Mattingly Carolyn J 
Published: October 2020

Abstract
The public Comparative Toxicogenomics Database (CTD; http://ctdbase.org/) is an innovative digital ecosystem that relates toxicological information for chemicals, genes, phenotypes, diseases, and exposures to advance understanding about human health. Literature-based, manually curated interactions are integrated to create a knowledgebase that harmonizes cross-species heterogeneous data for chemical exposures and their biological repercussions. In this biennial update, we report a 20% increase in CTD curated content and now provide 45 million toxicogenomic relationships for over 16 300 chemicals, 51 300 genes, 5500 phenotypes, 7200 diseases and 163 000 exposure events, from 600 comparative species. Furthermore, we increase the functionality of chemical–phenotype content with new data-tabs on CTD Disease pages (to help fill in knowledge gaps for environmental health) and new phenotype search parameters (for Batch Query and Venn analysis tools). As well, we introduce new CTD Anatomy pages that allow users to uniquely explore and analyze chemical–phenotype interactions from an anatomical perspective. Finally, we have enhanced CTD Chemical pages with new literature-based chemical synonyms (to improve querying) and added 1600 amino acid-based compounds (to increase chemical landscape). Together, these updates continue to augment CTD as a powerful resource for generating testable hypotheses about the etiologies and molecular mechanisms underlying environmentally influenced diseases.
BastionHub: a universal platform for integrating and analyzing substrates secreted by Gram-negative bacteria
Authors: Wang Jiawei , Li Jiahui , Hou Yi , Dai Wei , Xie Ruopeng , Marquez-Lago Tatiana T , Leier André , Zhou Tieli , Torres Von , Hay Iain , Stubenrauch Christopher , Zhang Yanju , Song Jiangning , Lithgow Trevor 
Published: October 2020

AbstractGram-negative bacteria utilize secretion systems to export substrates into their surrounding environment or directly into neighboring cells. These substrates are proteins that function to promote bacterial survival: by facilitating nutrient collection, disabling competitor species or, for pathogens, to disable host defenses. Following a rapid development of computational techniques, a growing number of substrates have been discovered and subsequently validated by wet lab experiments. To date, several online databases have been developed to catalogue these substrates but they have limited user options for in-depth analysis, and typically focus on a single type of secreted substrate. We therefore developed a universal platform, BastionHub, that incorporates extensive functional modules to facilitate substrate analysis and integrates the five major Gram-negative secreted substrate types (i.e. from types I–IV and VI secretion systems). To our knowledge, BastionHub is not only the most comprehensive online database available, it is also the first to incorporate substrates secreted by type I or type II secretion systems. By providing the most up-to-date details of secreted substrates and state-of-the-art prediction and visualized relationship analysis tools, BastionHub will be an important platform that can assist biologists in uncovering novel substrates and formulating new hypotheses. BastionHub is freely available at http://bastionhub.erc.monash.edu/.
Cross-Sectional Association Between Lifetime Use of Electronic Cigarettes With or Without Marijuana and Self-Reported Past 12-Month Respiratory Symptoms as well as Lifetime Respiratory Diseases in U.S. Adults
Authors: Xie Zidian , Li Dongmei 
Published: October 2020

Abstract

Introduction
The use of electronic cigarettes (vaping), especially with marijuana, has become increasingly popular among adults.

Aims and Methods
The Population Assessment of Tobacco and Health study Wave 4 data on 33 606 adult participants who indicated ever using electronic cigarettes were included in the study. By controlling for confounding variables (such as age and smoking history), multivariable weighted logistic regression models were used to examine the cross-sectional association between lifetime e-cigarette use with or without marijuana and self-reported past 12-month respiratory symptoms as well as lifetime respiratory diseases.

Results
Compared to adults who never vaped, adults who had ever vaped with marijuana had a significantly higher association with self-reported past 12-month respiratory symptoms but not lifetime respiratory diseases. Compared to adults who had ever vaped without marijuana, adults who had ever vaped at least sometimes with marijuana had a significantly greater risk of having wheezing/whistling in the chest (adjusted odds ratio [aOR] = 1.21, 95% confidence interval [CI]: 1.01, 1.44), chest sounded wheezy during or after exercise (aOR = 1.59, 95% CI: 1.31, 1.93), and had a dry cough at night (aOR = 1.35, 95% CI: 1.16, 1.57), while adults who had ever vaped rarely with marijuana had a significantly greater risk of having wheezing/whistling in the chest (aOR = 1.31, 95% CI: 1.06, 1.61), chest sounded wheezy during or after exercise (aOR = 1.24, 95% CI: 1.01, 1.52), and had a dry cough at night (aOR = 1.24, 95% CI: 1.04, 1.47).

Conclusions
Lifetime e-cigarette use with marijuana is associated with self-reported past 12-month respiratory symptoms in adults.

Implications
The use of e-cigarettes with marijuana has become prevalent in recent years. Our cross-sectional study suggests that there may be respiratory health symptoms associated with ever vaping with marijuana that is independent of nicotine vaping, which should raise public awareness of potential health risks associated with the use of e-cigarettes with marijuana. Further longitudinal studies on the respiratory health effects of e-cigarette use with marijuana are warranted.
Tofacitinib counteracts IL-6 overexpression induced by deficient autophagy: implications in Sjögren’s syndrome
Authors: Barrera María-José , Aguilera Sergio , Castro Isabel , Matus Soledad , Carvajal Patricia , Molina Claudio , González Sergio , Jara Daniela , Hermoso Marcela , González María-Julieta 
Published: October 2020

Abstract

Objective
Altered homeostasis of salivary gland (SG) epithelial cells in Sjögren’s syndrome (SS) could be the initiating factor that leads to inflammation, secretory dysfunction and autoimmunity. Autophagy is an important homeostatic mechanism, whose deficiency is associated with inflammation and accumulation of Janus kinase (JAK)–signal transducer and activator of transcription (STAT) components. We aimed to evaluate whether autophagy is altered in labial SG (LSG) epithelial cells from primary SS (pSS) patients and whether this contributes to inflammation through the JAK–STAT pathway. Furthermore, we investigated the anti-inflammatory effect of the JAK inhibitor tofacitinib in autophagy-deficient (ATG5 knockdown) three-dimensional (3D)-acini.

Methods
We analysed LSG biopsies from 12 pSS patients with low focus score and 10 controls. ATG5-deficient 3D-acini were generated and incubated with IL-6 in the presence or absence of tofacitinib. Autophagy markers, pro-inflammatory cytokine expression, and JAK–STAT pathway activation were evaluated by PCR or western blot, along with correlation analyses between the evaluated markers and clinical parameters.

Results
LSG from pSS patients showed increased p62 and decreased ATG5 expression, correlating negatively with increased activation of JAK–STAT pathway components (pSTAT1 and pSTAT3). Increased expression of STAT1 and IL-6 correlated with EULAR Sjögren's syndrome disease activity index and the presence of anti-Ro antibodies. ATG5-deficient 3D-acini reproduced the findings observed in LSG from pSS patients, showing increased expression of pro-inflammatory markers such as IL-6, which was reversed by tofacitinib.

Conclusion
Decreased expression of ATG5 in LSG epithelial cells from pSS patients possibly contributes to increased inflammation associated with JAK–STAT pathway activation, as evidenced in ATG5-deficient 3D-acini. Interestingly, these results suggest that tofacitinib could be used as an anti-inflammatory agent in pSS patients.