bluuebunny/crossref_metadata_2025_split huggingface dataset:
Adjunctive Host-Directed Therapy With Statins Improves Tuberculosis-Related Outcomes in Mice
Authors: Dutta Noton K , Bruiners Natalie , Zimmerman Matthew D , Tan Shumin , Dartois Véronique , Gennaro Maria L , Karakousis Petros C 
Published: October 2019

Abstract

Background
Tuberculosis (TB) treatment is lengthy and complicated and patients often develop chronic lung disease. Recent attention has focused on host-directed therapies aimed at optimizing immune responses to Mycobacterium tuberculosis (Mtb), as adjunctive treatment given with antitubercular drugs. In addition to their cholesterol-lowering properties, 3-hydroxy-3-methylglutaryl coenzyme A reductase inhibitors (statins) have broad anti-inflammatory and immunomodulatory activities.

Methods
In the current study, we screened 8 commercially available statins for cytotoxic effect, anti-TB activity, synergy with first-line drugs in macrophages, pharmacokinetics and adjunctive bactericidal activity, and, in 2 different mouse models, as adjunctive therapy to first-line TB drugs.

Results
Pravastatin showed the least toxicity in THP-1 and Vero cells. At nontoxic doses, atorvastatin and mevastatin were unable to inhibit Mtb growth in THP-1 cells. Simvastatin, fluvastatin, and pravastatin showed the most favorable therapeutic index and enhanced the antitubercular activity of the first-line drugs isoniazid, rifampin, and pyrazinamide in THP-1 cells. Pravastatin modulated phagosomal maturation characteristics in macrophages, phenocopying macrophage activation, and exhibited potent adjunctive activity in the standard mouse model of TB chemotherapy and in a mouse model of human-like necrotic TB lung granulomas.

Conclusions
These data provide compelling evidence for clinical evaluation of pravastatin as adjunctive, host-directed therapy for TB.
Bringing North Korea to the negotiating table: unstable foundations of Kim Jong-un’s North Korean regime
Authors: Daekwon Son 
Published: October 2019

Abstract
This article investigates the linkage between Kim Jong-un’s power consolidation and Pyongyang’s abrupt return to the denuclearization negotiation table in 2018. It argues that behind Pyongyang’s turnabout lie the three unstable pillars of the Kim family’s rule: a faithful winning coalition, the juche ideology, and Chinese patronage. Upon taking office in 2011, Kim had to debilitate his father’s winning coalition to consolidate his power. With the winning coalition enervated, Kim could not expect its willingness to suppress the masses were they to develop into an ejectorate, and therefore introduced market reforms to secure the people’s support. The reforms, in return, inevitably eroded the ideological appeal of the Kim family, thereby rendering his hold on power more vulnerable to economic pressure. Under such circumstances, Chinese patronage increasingly faltered. It is due to the instability of these three pillars that Kim Jong-un returned to the negotiating table.
Explicating Cues: A Typology for Understanding Emerging Media Technologies
Authors: Xu Kun , Liao Tony 
Published: October 2019

AbstractCues have long been an important concept in computer-mediated communication (CMC), as several core theories have utilized cues to explain how they get filtered and interpreted through technologies. As computing technologies evolved, other related fields have also adopted cues as a concept for understanding technological interaction. Given the pervasive nature of cues, this article first explicates the concept and creates a typology of cues based on how different fields have studied them. It then examines key differences in how existing theories approach cues and their assumptions behind cues, and further pulls apart the relationship between different cue categories and their potential effects on social presence. Lastly, we explain how researchers could draw on this typology to understand the increasingly multifaceted ways that emerging media technologies present cues and evoke social presence. A clear typology of cues is necessary both to clarify the term and help guide future evolutions of CMC.
Authenticity Model of (Mass-Oriented) Computer-Mediated Communication: Conceptual Explorations and Testable Propositions
Authors: Lee Eun-Ju 
Published: October 2019

AbstractWhile several major theories and models have emerged and guided research on computer-mediated communication (CMC) in the interpersonal context, equivalent theoretical development seems to be lacking in the study of mass-oriented CMC, despite a large volume of amassed research. This article aims to propose an integrative conceptual framework for the study of mass-oriented, including mass-personal CMC, with (perceived) authenticity as its core unifying construct. A range of theoretical constructs independently developed in various subdisciplines and pertinent research findings are reviewed in light of the authenticity of source, message, and interaction. Several testable propositions are derived concerning antecedents to and consequences of authenticity judgments, with a view to stimulating programmatic empirical investigations on the role of authenticity in CMC.
Representingn-ary relations in the Semantic Web
Authors: Giunti Marco , Sergioli Giuseppe , Vivanet Giuliano , Pinna Simone 
Published: October 2019

AbstractKnowledge representation is a central issue for Artificial Intelligence and the Semantic Web. In particular, the problem of representing n-ary relations in RDF-based languages such as RDFS or OWL by no means is an obvious one. With respect to previous attempts, we show why the solutions proposed by the well known W3C Working Group Note on n-ary relations are not satisfactory on several scores. We then present our abstract model for representing n-ary relations as directed labeled graphs, and we show how this model gives rise to a new ontological pattern (parametric pattern) for the representation of such relations in the Semantic Web. To this end, we define PROL (Parametric Relational Ontology Language). PROL is an ontological language designed to express any n-ary fact as a parametric pattern, which turns out to be a special RDF graph. The vocabulary of PROL is defined by a simple RDFS ontology. We argue that the parametric pattern may be particularly beneficial in the context of the Semantic Web, in virtue of its high expressive power, technical simplicity, and faithful meaning rendition. Examples are also provided.
Copyright in ‘contest-created’ works: Ugandan Court of Appeal weighs private interests and public benefit vis-à-vis Uganda’s national anthem
Authors: Okorie Chijioke 
Published: October 2019

Abstract
Court of Appeal of Uganda, Theresa Kokoma v Attorney General Civil, Appeal No 50 of 2011, 15 July 2019
The Ugandan Court of Appeal recently found that copyright in the song incorporated in the Ugandan nation anthem belonged to the Government of Uganda and the composer was not entitled to any royalties: the circumstance that the Government had organized the contest which resulted in the musical work meant that the musical work was made under its own direction and control.
Imaging-based definition of lower uterine segment carcinoma to improve the detection sensitivity of probable Lynch syndrome
Authors: Yamazaki Hiroyuki , Takeshita Sho , Todo Yukiharu , Matsumiya Hiroko , Shimada Chisa , Minobe Shinichiro , Tsuruta Tomohiko , Kato Hidenori 
Published: October 2019

Abstract

Objective
The aim of this study was to investigate a magnetic resonance imaging-based definition of lower uterine segment carcinoma.

Methods
We retrospectively reviewed 587 consecutive patients with endometrial cancer who underwent hysterectomy. Lower uterine segment carcinoma was determined through pathological examination and magnetic resonance imaging assessment. For imaging assessment, the location of the inner lining of the uterus was classified into four equal parts on a sagittal section image. A tumor was defined as lower uterine segment carcinoma when its thickest part was located in the second or the third part from the uterine fundus. Lower uterine segment carcinoma was further divided into lower uterine segment in a narrow sense, upon which diagnosis was exclusively based on pathological findings, and lower uterine segment in a broad sense that were the remaining lower uterine segment carcinomas except lower uterine segment carcinomas in a narrow sense. The relationship between lower uterine segment carcinoma and probable Lynch syndrome was investigated. Patients with loss of MSH2, MSH6, and PMS2 expression or those with tumors with loss of MLH1 and absence of MLH1 promoter methylation were diagnosed as probable Lynch syndrome.

Results
Lower uterine segment carcinoma was identified in 59 (10.2%) patients. Twenty-eight (47.5%) patients were categorized as lower uterine segment in a narrow sense and 31 (52.5%) as lower uterine segment in a broad sense. Among them, probable Lynch syndrome was identified in 12 (20.3%) cases. There was no difference in clinical profiles, including the prevalence of probable Lynch syndrome between the two categories.

Conclusions
A magnetic resonance imaging-based expanded definition of lower uterine segment carcinoma is likely to secure characteristics equivalent to a conventional pathology-based definition of lower uterine segment carcinoma. The novel definition of lower uterine segment carcinoma might improve the detection of probable Lynch syndrome.
Bayesian Nonparametric Estimation ofEx PostVariance
Authors: Griffin Jim , Liu Jia , Maheu John M. 
Published: October 2019

AbstractVariance estimation is central to many questions in finance and economics. Until now ex post variance estimation has been based on infill asymptotic assumptions that exploit high-frequency data. This article offers a new exact finite sample approach to estimating ex post variance using Bayesian nonparametric methods. In contrast to the classical counterpart, the proposed method exploits pooling over high-frequency observations with similar variances. Bayesian nonparametric variance estimators under no noise, heteroskedastic and serially correlated microstructure noise are introduced and discussed. Monte Carlo simulation results show that the proposed approach can increase the accuracy of variance estimation. Applications to equity data and comparison with realized variance and realized kernel estimators are included.
Regimen-Specific Rates of Chemotherapy-Related Amenorrhea in Breast Cancer Survivors
Authors: Gast Kelly C , Cathcart-Rake Elizabeth J , Norman Aaron D , Eshraghi Leah , Obidegwu Nwamaka , Nichols Hazel B , Rosenberg Shoshana , Su H Irene , Stewart Elizabeth A , Couch Fergus J , Vachon Celine M , Ruddy Kathryn J 
Published: October 2019

Abstract
Young women who have not begun or completed their desired childbearing at the time of diagnosis with breast cancer often wish to understand and minimize their risk of chemotherapy-related amenorrhea (CRA). However, the incidence of CRA after regimens that do not include either an anthracycline or a cyclophosphamide is poorly studied. For patients with human epidermal growth factor receptor 2–positive disease, anthracycline- and cyclophosphamide-sparing regimens (eg, carboplatin/taxane) are common (in combination with human epidermal growth factor receptor 2–directed therapy). In this study, accrued in collaboration with Army of Women, menstrual data were analyzed for 151 breast cancer survivors (median age = 41 years at diagnosis, and median time between last chemotherapy and survey = 62.5 months). Last menstrual period was before the last chemotherapy dose in 51% of the 86 participants who received anthracycline/cyclophosphamide/taxane, in 42% of the 43 who received only taxane/cyclophosphamide, and in 13% of the 15 who received carboplatin/taxane. This study suggests that carboplatin/taxane causes less CRA than cyclophosphamide-based regimens.
Successful lung transplantation from a donor with lung and ovarian masses
Authors: Asif Abuzar A , Narula Tathagat , Erasmus David B , Alvarez Francisco , Nichols Todd , Jacob Samuel , Pham Si M , Cortese Cherise , Makey Ian A 
Published: October 2019

Abstract
Declining a donor when there is a reasonable possibility that the abnormality on chest imaging could be benign carries the risk of losing out on potentially usable lungs in an already parched landscape of donor organ availability. Cautiously aggressive attitudes to acceptance of borderline donors can help bridge the significant discrepancy that exists between the demand and availability of donor organs. Herein, we present a case highlighting successful bilateral lung transplantation from a relatively imperfect donor.
Ischemic mitral regurgitation in a patient with dextrocardia and situs inversus totalis
Authors: Esmaeil Husain , Al-Fadhli Jamal , Dashti Abdullah , Al-Sarraf Nael 
Published: October 2019

Abstract
Dextrocardia with situs inversus is a rare condition. Few previously published cases have addressed the observation of isolated coronary artery disease or isolated mitral valve disease in these patients. However, the occurrence of ischemic mitral regurgitation in such cases has never been previously reported. Here, we report such a case with emphasis on both surgical and echocardiographic features.
Interpreting Evidence of Torture
Authors: Robertson Bernard W N , Berger Charles E H 
Published: October 2019

Abstract
The Istanbul Protocol provides a scheme for giving evidence of signs of torture. This scheme does not conform with the principles of logical inference, revolving as it does round the concept of ‘consistency’. The shortcomings of the Protocol are explained using the evidence given in the recent case of KV(Sri Lanka) and the logical approach to such evidence explained.
Reckoning with the Past: Strategies of Musical Authorship in Liszt’s Thematic Catalogue (1855/1877)
Authors: Calella Michele 
Published: October 2019

Abstract
The thematic catalogue of Franz Liszt’s works, published by Breitkopf & Härtel in 1855 (and in a revised and enlarged edition in 1877), sheds light on Liszt’s artistic development after 1848, when he gave up his career as a virtuoso and settled in Weimar. Drawing on a number of previously unpublished or unexamined letters and documents, the article illustrates how this project—probably started on Liszt’s own initiative—offered the composer a means to select, order, and authorize the corpus of his works in print. At the same time it provided him with the opportunity to modify his authorial image and strengthen his profile as a ‘serious’ composer. The correspondence between Liszt and the publisher as well as other manuscript sources reveal the different strategies which allowed him to reposition himself in the music world and—as best illustrated by the later edition—to expand his profile as a composer even further.
Polarization of radio relics in galaxy clusters
Authors: Wittor D , Hoeft M , Vazza F , Brüggen M , Domínguez-Fernández P 
Published: October 2019

ABSTRACTRadio emission in the form of giant radio relics is observed at the periphery of galaxy clusters. This non-thermal emission is an important tracer for cosmic ray electrons and intracluster magnetic fields. One striking observational feature of these objects is their high degree of polarization, which provides information on the magnetic fields at the relics’ positions. In this contribution, we test if state-of-the-art high resolution cosmological simulations are able to reproduce the polarization features of radio relics. Therefore, we present a new analysis of high-resolution cosmological simulations to study the polarization properties of radio relics in detail. In order to compare our results with current and future radio observations, we create mock radio observations of the diffuse polarized emission from a massive galaxy cluster using six different projections, for different observing frequencies and for different telescopes. Our simulations suggest that, due to the effect of Faraday rotation, it is extremely difficult to relate the morphology of the polarized emission for observing frequencies below 1.4 GHz to the real magnetic field structure in relics. We can reproduce the observed degree of polarization and also several small-scale structures observed in real radio relics, but further work would be needed to reproduce some large-scale spectacular features as observed in real radio relics, such as the ‘Sausage’ and ‘Toothbrush’ relics.
Using torque to understand barred galaxy models
Authors: Petersen Michael S , Weinberg Martin D , Katz Neal 
Published: October 2019

ABSTRACTWe track the angular momentum transfer in N-body simulations of barred galaxies by measuring torques to understand the dynamical mechanisms responsible for the evolution of the bar–disc–dark matter halo system. We find evidence for three distinct phases of barred galaxy evolution: assembly, secular growth, and steady-state equilibrium. Using a decomposition of the disc into orbital families, we track bar mass and angular momentum through time and correlate the quantities with the phases of evolution. We follow the angular momentum transfer between particles and identify the dominant torque channels. We find that the halo model mediates the assembly and growth of the bar for a high central density halo, and the outer disc mediates the assembly and growth of the bar in a low central density halo model. Both galaxies exhibit a steady-state equilibrium phase where the bar is neither lengthening nor slowing. The steady-state equilibrium results from the balance of torque between particles that are gaining and losing angular momentum. We propose observational metrics for barred galaxies that can be used to help determine the evolutionary phase of a barred galaxy, and discuss the implications of the phases for galaxy evolution as a whole.
Silicon and iron dust in gamma-ray burst host galaxy absorbers
Authors: Zafar T , Heintz K E , Karakas A , Lattanzio J , Ahmad A 
Published: October 2019

ABSTRACT
Depletion studies provide a way to understand the chemical composition of interstellar dust grains. We here examine 23 gamma-ray bursts (GRBs) optical afterglow spectra (spanning 0.6 ≤ z ≤ 5.0) and compare their silicon and iron dust-phase column densities with different extinction curve parameters to study the composition of the interstellar dust grains in these high-redshift GRB host galaxies. The majority of our sample (87 per cent) show featureless extinction curves and only vary in shape. We observe strong correlations (with $\gt 96{{\ \rm per\ cent}}$ significance) between the total-to-selective extinction, RV, and the dust-phase column densities of Si and Fe. Since a large fraction of interstellar iron is locked in silicate grains, this indicates that high Si and Fe depletion leads to an increase in the fraction of large silicate grains and vice versa. This suggests that silicates play a vital role to induce the entire extinction at any wavelength. On the other hand, the far-ultraviolet (UV) extinction is usually attributed to the presence of small silicates. However, we find no trend between the far-UV parameter of the extinction curve, c4, and the abundance of Si and Fe in the dust phase. We, therefore, propose that the far-UV extinction could be a combined effect of small (probably nanoparticles) dust grains from various species.
ChlamDB: a comparative genomics database of the phylum Chlamydiae and other members of the Planctomycetes-Verrucomicrobiae-Chlamydiae superphylum
Authors: Pillonel Trestan , Tagini Florian , Bertelli Claire , Greub Gilbert 
Published: October 2019

AbstractChlamDB is a comparative genomics database containing 277 genomes covering the entire Chlamydiae phylum as well as their closest relatives belonging to the Planctomycetes-Verrucomicrobiae-Chlamydiae (PVC) superphylum. Genomes can be compared, analyzed and retrieved using accessions numbers of the most widely used databases including COG, KEGG ortholog, KEGG pathway, KEGG module, Pfam and InterPro. Gene annotations from multiple databases including UniProt (curated and automated protein annotations), KEGG (annotation of pathways), COG (orthology), TCDB (transporters), STRING (protein–protein interactions) and InterPro (domains and signatures) can be accessed in a comprehensive overview page. Candidate effectors of the Type III secretion system (T3SS) were identified using four in silico methods. The identification of orthologs among all PVC genomes allows users to perform large-scale comparative analyses and to identify orthologs of any protein in all genomes integrated in the database. Phylogenetic relationships of PVC proteins and their closest homologs in RefSeq, comparison of transmembrane domains and Pfam domains, conservation of gene neighborhood and taxonomic profiles can be visualized using dynamically generated graphs, available for download. As a central resource for researchers working on chlamydia, chlamydia-related bacteria, verrucomicrobia and planctomyces, ChlamDB facilitates the access to comprehensive annotations, integrates multiple tools for comparative genomic analyses and is freely available at https://chlamdb.ch/. Database URL: https://chlamdb.ch/
SpatialDB: a database for spatially resolved transcriptomes
Authors: Fan Zhen , Chen Runsheng , Chen Xiaowei 
Published: October 2019

Abstract
Spatially resolved transcriptomic techniques allow the characterization of spatial organization of cells in tissues, which revolutionize the studies of tissue function and disease pathology. New strategies for detecting spatial gene expression patterns are emerging, and spatially resolved transcriptomic data are accumulating rapidly. However, it is not convenient for biologists to exploit these data due to the diversity of strategies and complexity in data analysis. Here, we present SpatialDB, the first manually curated database for spatially resolved transcriptomic techniques and datasets. The current version of SpatialDB contains 24 datasets (305 sub-datasets) from 5 species generated by 8 spatially resolved transcriptomic techniques. SpatialDB provides a user-friendly web interface for visualization and comparison of spatially resolved transcriptomic data. To further explore these data, SpatialDB also provides spatially variable genes and their functional enrichment annotation. SpatialDB offers a repository for research community to investigate the spatial cellular structure of tissues, and may bring new insights into understanding the cellular microenvironment in disease. SpatialDB is freely available at https://www.spatialomics.org/SpatialDB.
A dynamic i-motif with a duplex stem-loop in the long terminal repeat promoter of the HIV-1 proviral genome modulates viral transcription
Authors: Ruggiero Emanuela , Lago Sara , Šket Primož , Nadai Matteo , Frasson Ilaria , Plavec Janez , Richter Sara N 
Published: October 2019

AbstractI-motifs are non-canonical nucleic acids structures characterized by intercalated H-bonds between hemi-protonated cytosines. Evidence on the involvement of i-motif structures in the regulation of cellular processes in human cells has been consistently growing in the recent years. However, i-motifs within non-human genomes have never been investigated. Here, we report the characterization of i-motifs within the long terminal repeat (LTR) promoter of the HIV-1 proviral genome. Biophysical and biochemical analysis revealed formation of a predominant i-motif with an unprecedented loop composition. One-dimensional nuclear magnetic resonance investigation demonstrated formation of three G-C H-bonds in the long loop, which likely improve the structure overall stability. Pull-down experiments combined with mass spectrometry and protein crosslinking analysis showed that the LTR i-motif is recognized by the cellular protein hnRNP K, which induced folding at physiological conditions. In addition, hnRNP K silencing resulted in an increased LTR promoter activity, confirming the ability of the protein to stabilize the i-motif-forming sequence, which in turn regulates the LTR-mediated HIV-1 transcription. These findings provide new insights into the complexity of the HIV-1 virus and lay the basis for innovative antiviral drug design, based on the possibility to selectively recognize and target the HIV-1 LTR i-motif.