bluuebunny/crossref_metadata_2025_split huggingface dataset:
Normal values of aortic dimensions assessed by multidetector computed tomography in the Copenhagen General Population Study
Authors: Pham Michael H C , Ballegaard Christian , de Knegt Martina C , Sigvardsen Per E , Sørgaard Mathias H , Fuchs Andreas , Kühl Jørgen T , Taudorf Mikkel , Nordestgaard Børge G , Køber Lars V , Kofoed Klaus F 
Published: January 2019

AbstractAimsAccurate assessment of aortic dimensions can be achieved using contrast-enhanced computed tomography. The aim of this study was to define normal values and determinants of aortic dimensions throughout multiple key anatomical landmarks of the aorta in healthy individuals from the Copenhagen General Population Study.Methods and resultsThe study group consisted of 902 healthy subjects selected from 3000 adults undergoing cardiovascular thoracic and abdominal computed tomography-angiography (CTA), where systematic measurements of aortic dimensions were performed retrospectively. Individuals included were without any of the following predefined cardiovascular risk factors: (i) self-reported angina pectoris; (ii) hypertension; (iii) hypercholesterolaemia; (iv) taking cardiovascular prescribed medication including diuretics, statins, or aspirin; (v) overweight (defined as body mass index ≥30 kg/m2); (vi) diabetes mellitus (self-reported or blood glucose >8 mmol/L); and (vii) chronic obstructive pulmonary disease. Maximal aortic diameters were measured at seven aortic regions: sinuses of Valsalva, sinotubular junction, ascending aorta, mid-descending aorta, abdominal aorta at the diaphragm, abdominal aorta at the coeliac trunk, and infrarenal abdominal aorta. Median age was 52 years, and 396 (40%) were men. Men had significantly larger aortic diameters at all levels compared with women (P < 0.001). Multivariable analysis revealed that sex, age, and body surface area were associated with increasing aortic dimensions.ConclusionNormal values of maximal aortic dimensions at key aortic anatomical locations by contrast-enhanced CTA have been defined. Age, sex, and body surface area were significantly associated with these measures at all levels of aorta. Aortic dimensions follow an almost identical pattern throughout the vessel regardless of sex.
Communication’s role in overcoming challenges for obesity prevention partnerships
Authors: Werder Olaf , Holland Kate , Munro Jay 
Published: January 2019

AbstractWith obesity rates growing worldwide calls have increased to coordinate efforts in nationwide partnership models. Yet, the necessity for professional partnerships has brought into sharper focus a problem in jointly communicating obesity and its prevention. Following a social representation framework and using episodic interviewing of members from different professions directly or indirectly involved in obesity prevention, this report critically analysed concepts and communicative approaches held by those professional areas. Key findings included different perspectives about communication orientations, namely distribution of responsibility, control and communication goals. This suggests that the profession-specific world-views prevented respondents from communicating with members from other professions. We conclude that health communication experts bring unique skills to bring together professional teams to not only develop a common language and conceptual framework but also facilitate a sense of inclusion and personal accomplishment.
TXS 0506+056, the first cosmic neutrino source, is not a BL Lac
Authors: Padovani P , Oikonomou F , Petropoulou M , Giommi P , Resconi E 
Published: January 2019

ABSTRACT
We present evidence that TXS 0506+056, the first plausible non-stellar neutrino source, despite appearances, is not a blazar of the BL Lac type but is instead a masquerading BL Lac, i.e. intrinsically a flat-spectrum radio quasar with hidden broad lines and a standard accretion disc. This reclassification is based on: (1) its radio and $\rm {O \,{\small {II}}}$ luminosities; (2) its emission line ratios; (3) its Eddington ratio. We also point out that the synchrotron peak frequency of TXS 0506+056 is more than two orders of magnitude larger than expected by the so-called ‘blazar sequence’, a scenario which has been assumed by some theoretical models predicting neutrino (and cosmic ray) emission from blazars. Finally, we comment on the theoretical implications this reclassification has on the location of the γ-ray emitting region and our understanding of neutrino emission in blazars.
The Role of Homology and Orthology in the Phylogenomic Analysis of Metazoan Gene Content
Authors: Pett Walker , Adamski Marcin , Adamska Maja , Francis Warren R , Eitel Michael , Pisani Davide , Wörheide Gert 
Published: January 2019

Abstract
Resolving the relationships of animals (Metazoa) is crucial to our understanding of the origin of key traits such as muscles, guts, and nerves. However, a broadly accepted metazoan consensus phylogeny has yet to emerge. In part, this is because the genomes of deeply diverging and fast-evolving lineages may undergo significant gene turnover, reducing the number of orthologs shared with related phyla. This can limit the usefulness of traditional phylogenetic methods that rely on alignments of orthologous sequences. Phylogenetic analysis of gene content has the potential to circumvent this orthology requirement, with binary presence/absence of homologous gene families representing a source of phylogenetically informative characters. Applying binary substitution models to the gene content of 26 complete animal genomes, we demonstrate that patterns of gene conservation differ markedly depending on whether gene families are defined by orthology or homology, that is, whether paralogs are excluded or included. We conclude that the placement of some deeply diverging lineages may exceed the limit of resolution afforded by the current methods based on comparisons of orthologous protein sequences, and novel approaches are required to fully capture the evolutionary signal from genes within genomes.
What Triggers an LBP Flare? A Content Analysis of Individuals’ Perspectives
Authors: Costa Nathalia , Hodges Paul W , Ferreira Manuela L , Makovey Joanna , Setchell Jenny 
Published: January 2019

Abstract

Objective
For many, low back pain (LBP) is a lifelong condition with symptoms varying over time. Previous studies have investigated long-term risk factors and triggers for onset of LBP. No study has examined causes for less distinct fluctuations of symptoms, such as “flares,” which individuals with LBP identify as a significant and worrisome part of LBP. As little is known about what triggers this type of fluctuation, we aimed to investigate individuals’ perspectives on LBP flare triggers.

Methods
We conducted an online survey of 130 people with LBP, asking what they think triggers their flares. Data were qualitatively examined using content analysis.

Results
Most participants identified biomedical (84.8%) triggers, endorsing physical/biological factors to explain the flare occurrence. Themes included active movements (35% of participants), static postures (28.1%), overdoing a task (5.3%), biomechanical dysfunction (4.4%), comorbidities (4%), lack of exercise (3.3%), work (1.8%), and medications (1.5%). Nonbiomedical triggers were reported by 15.2% and included psychosocial and contextual factors, including psychological state (6%), weather (5%), sleep (2%), diet (1.2%), and fatigue (1%). These results indicate that individuals consider biomedical factors to be the main triggers of LBP flares, but some acknowledge nonbiomedical triggers.

Conclusions
Study findings contrast with current pain theories, which suggest that there is a need for a reduced emphasis on biomedical causes of LBP pain, especially when persistent. Recognition of patients’ views on causes of LBP flares is crucial to better guide clinical practice and inform further research. The validity of triggers identified by LBP patients requires further investigation.
Ecological specificity of the metagenome in a set of lower termite species supports contribution of the microbiome to adaptation of the host
Authors: Waidele Lena , Korb Judith , Voolstra Christian R , Dedeine Franck , Staubach Fabian 
Published: January 2019

AbstractBackgroundElucidating the interplay between hosts and their microbiomes in ecological adaptation has become a central theme in evolutionary biology. A textbook example of microbiome-mediated adaptation is the adaptation of lower termites to a wood-based diet, as they depend on their gut microbiome to digest wood. Lower termites have further adapted to different life types. Termites of the wood-dwelling life type never leave their nests and feed on a uniform diet. Termites of the foraging life type forage for food outside the nest and have access to other nutrients. Here we sought to investigate whether the microbiome that is involved in food substrate breakdown and nutrient acquisition might contribute to adaptation to these ecological differences. We reasoned that this should leave ecological imprints on the microbiome.ResultsWe investigated the protist and bacterial microbiomes of a total of 29 replicate colonies from five termite species, covering both life types, using metagenomic shotgun sequencing. The microbiome of wood-dwelling species with a uniform wood diet was enriched for genes involved in lignocellulose degradation. Furthermore, metagenomic patterns suggest that the microbiome of wood-dwelling species relied primarily on direct fixation of atmospheric nitrogen, while the microbiome of foraging species entailed the necessary pathways to utilize nitrogen in the form of nitrate for example from soil.ConclusionOur findings are consistent with the notion that the microbiome of wood-dwelling species bears an imprint of its specialization on degrading a uniform wood diet, while the microbiome of the foraging species might reflect its adaption to access growth limiting nutrients from more diverse sources. This supports the idea that specific subsets of functions encoded by the microbiome can contribute to host adaptation.
Platelet-neutrophil aggregates promote skin pathology in psoriasis
Authors: Herster Franziska , Bittner Zsofia , Cordrea Marius Cosmin , Archer Nate , Heister Martin , Löffler Markus W. , Heumos Simon , Wegner Joanna , Businger Ramona , Schindler Michael , Stegner David , Schäkel Knut , Grabbe Stephan , Ghoreschi Kamran , Miller Lloyd , Weber Alexander N.R. 
Published: January 2019

AbstractPsoriasis is a frequent systemic inflammatory autoimmune disease characterized primarily by skin lesions with massive infiltration of leukocytes but frequently also presents with cardiovascular comorbidities. Especially polymorphonuclear neutrophils (PMNs) abundantly infiltrate psoriatic skin but the cues that prompt PMNs to home to the skin are not well defined. To identify PMN surface receptors that may explain PMN skin homing in psoriasis patients, we screened 332 surface antigens on primary human blood PMNs from healthy donors and psoriasis patients. We identified platelet surface antigens as a defining feature of psoriasis PMNs, due to a significantly increased aggregation of neutrophils and platelets in the blood of psoriasis patients. Similarly, in the imiquimod-induced experimental in vivo model of psoriasis, disease induction promoted PMN-platelet aggregate formation. In psoriasis patients, disease directly correlated with blood platelet counts and platelets were detected in direct contact with PMNs in psoriatic but not healthy skin. Importantly, depletion of circulating platelets in vivo ameliorated disease severity significantly, indicating that the intimate relationship of PMNs and platelets may be relevant for psoriasis pathology and disease severity, and potentially for psoriasis-associated cardiovascular comorbidities.Key pointsHuman neutrophils in psoriasis patient blood show a distinct ‘platelet signature’ of surface antigensPlatelets congregate with neutrophils in psoriatic skin lesionsCirculating platelets contribute to psoriasis skin pathology
Handling Noise in Protein Interaction Networks
Authors: Correia Fernanda B. , Coelho Edgar D. , Oliveira José L. , Arrais Joel P. 
Published: January 2019

AbstractProtein-protein interactions (PPI) can be conveniently represented as networks, allowing the use of graph theory in their study. Network topology studies may reveal patterns associated to specific organisms. Here we propose a new methodology to denoise PPI networks and predict missing links solely based on the network topology, the Organization Measurement (OM) method. The OM methodology was applied in the denoising of the PPI networks of two Saccharomyces Cerevisiae datasets (Yeast and CS2007) and one Homo Sapiens dataset (Human). To evaluate the denoising capabilities of OM methodology, two strategies were applied. The first compared its application in random networks and in the reference set networks, while the second perturbed the networks with the gradual random addition and removal of edges. The application of OM methodology to the Yeast and Human reference sets achieved an AUC of 0.95 and 0.87, in Yeast and Human networks, respectively. The random removal of 80% of the Yeast and Human reference sets interactions resulted in an AUC of 0.71 and 0.62, whereas the random addition of 80% interactions resulted in an AUC of 0.75 and 0.72, respectively. Applying the OM methodology to the CS2007 dataset yields an AUC of 0.99. We also perturbed the network of the CS2007 dataset by randomly inserting and removing edges in the same proportions previously described. The false positives identified and removed from the network varied from 97%, when inserting 20% more edges, to 89% when 80% more edges were inserted. The true positives identified and inserted in the network varied from 95% when removing 20% of the edges, to 40% after the random deletion 80% edges. The OM methodology is sensitive to the topological structure of the biological networks. The obtained results suggest that the present approach can efficiently be used to denoise PPI networks.
Unsupervised Machine Learning for Analysis of Coexisting Lipid Phases and Domain Growth in Biological Membranes
Authors: López Cesar A. , Vesselinov Velimir V. , Gnanakaran Sandrasegaram , Alexandrov Boian S. 
Published: January 2019

ABSTRACTPhase separation in mixed lipid systems has been extensively studied both experimentally and theoretically because of its biological importance. A detailed description of such complex systems undoubtedly requires novel mathematical frameworks that are capable to decompose and categorize the evolution of thousands if not millions of lipids involved in the phenomenon. The interpretation and analysis of Molecular Dynamics (MD) simulations representing temporal and spatial changes in such systems is still a challenging task. Here, we present a new unsupervised machine learning approach based on Nonnegative Matrix Factorization, called NMFk, that successfully extracts physically meaningful features from neighborhood profiles derived from coarse-grained MD simulations of ternary lipid mixture. Our results demonstrate that leveraging NMFk can (a) determine the role of different lipid molecules in phase separation, (b) characterize the formation of nano-domains of lipids, (c) determine the timescales of interest and (d) extract physically meaningful features that uniquely describe the phase separation with broad implications.
Glial response to hypoxia in trachealess mutants induces synapse remodeling
Authors: Chen Pei-Yi , Tsai Yi-Wei , Giangrande Angela , Chien Cheng-Ting 
Published: January 2019

AbstractSynaptic structure and activity are sensitive to environmental alterations. Modulation of synaptic morphology and function is often induced by signals from glia. However, the process by which glia mediate synaptic responses to environmental perturbations such as hypoxia remains unknown. Here, we report that, in the Drosophila trachealess (trh) mutant, smaller synaptic boutons form clusters named bunch boutons appear at larval neuromuscular junctions (NMJs), which is induced by the reduction of internal oxygen levels due to defective tracheal branches. Thus, the bunch bouton phenotype in the trh mutant is suppressed by hyperoxia, and recapitulated in wild-type larvae raised under hypoxia. We further show that hypoxia-inducible factor (HIF)-1α/Similar (Sima) is critical in mediating hypoxia-induced bunch bouton formation. Sima upregulates the level of the Wnt/Wingless (Wg) signal in glia, leading to reorganized microtubule structures within presynaptic sites. Finally, hypoxia-induced bunch boutons maintain normal synaptic transmission at the NMJs, which is crucial for coordinated larval locomotion.Author summaryOxygen is essential for animals to maintain their life such as growth, metabolism, responsiveness, and movement. It is therefore important to understand how animal cells trigger hypoxia response and adapt to hypoxia thereafter. Both mammalian vascular and insect tracheal branches are induced to enhance the oxygen delivery. However, the study of hypoxia response in the nervous system remains limited. In this study, we assess the morphology of Drosophila neuromuscular junctions (NMJs), a model system to study development and function of synapses, in two hypoxia conditions, one with raising wild-type larvae in hypoxia, and the other in the trachealess (trh) mutant in which the trachea is defective, causing insufficient oxygen supply. Interestingly, glia, normally wrapping the axons of NMJs, invade into synapse and trigger Wg signals to reconstitute the synaptic structure under hypoxia. This synaptic remodeling maintains the synaptic transmission of synapse, which associate the locomotor behavior of larvae.
The distribution strategy selection for an e-tailer using a hybrid DANP VIKOR MCDM model
Authors: Titiyal Rohit , Bhattacharya Sujoy , Thakkar Jitesh J. 
Published: January 2019

Purpose
The purpose of this paper is to apply a multi-criteria decision-making (MCDM) framework to evaluate distribution strategies for an e-tailer. An application of MCDM method, the hybrid DANP–VIseKriterijumska Optimizacija I Kompromisno Resenje (VIKOR) model, is used for e-tailers’ distribution strategy evaluation. The choice of distribution strategies under various dimensions is evaluated.

Design/methodology/approach
The authors used a hybrid MCDM model to solve the decision-making framework, which combines Decision-Making Trial and Evaluation Laboratory (DEMATEL), DEMATEL-based analytic network process and VIKOR method. Data were collected from the experts (e-tail manager, logistics manager, operations manager and distribution center (DC) manager) using two questionnaires, first for the influential relationship among the criteria and dimensions and second for a performance rating of each alternative (distribution strategies) against each criterion.

Findings
DANP with VIKOR method prioritizes the distribution strategies in the following order: DC shipment, drop shipment, click and collect, store shipment and click and reserve. Performance gap was calculated based on the VIKOR method to provide distribution strategies to an e-tailer under different situations. The authors infer that in developing country, product characteristics and transportation have a major influence on deciding the distribution strategy.

Practical implications
Decision-making framework will provide e-tail mangers a knowledge-based understanding to select the distribution strategy under the different situations related to the performance, product, e-tailer and external characteristics for smooth order fulfillment process. The insights developed by this research provide a framework for rational decision making in distribution strategy selection in e-business.

Originality/value
This is the first kind of a study which offers a decision framework for e-tail managers on how to choose distribution strategies under different situations which are related to the performance, product, e-tailer and external characteristics.
A sustainability assessment framework for cement industry – a case study
Authors: Sangwan Kuldip Singh , Bhakar Vikrant , Digalwar Abhijeet K. 
Published: January 2019

Purpose
The purpose of this paper is to develop a framework and key performance indicators (KPIs) to assess the sustainability of the manufacturing organizations along the integrated supply chain.

Design/methodology/approach
A systematic literature review of existing peer-reviewed articles has been carried out to understand the strengths and weaknesses of current frameworks. A sustainability assessment framework has been proposed for the manufacturing sector. KPIs to assess sustainability performance of manufacturing organizations are identified. An empirical study is carried out for the cement industry to test the proposed framework and KPIs.

Findings
The existing frameworks on sustainability assessment lacks an integrated assessment consisting product life cycle, resources, critical factors (product, process and policy), KPIs and their interrelationship with sustainability dimensions. In total, 121 KPIs are identified for sustainability assessment of manufacturing organizations. The empirical study of the Indian cement industry identifies 52 KPIs (17 social, 15 economic and 20 environmental), which are classified into 13 factors using exploratory factor analysis.

Research limitations/implications
The proposed framework is tested for the cement sector. More studies are required to validate and refine the framework to make it generalized for the manufacturing sector.

Originality/value
This study has developed for the first time a close interrelation among life cycle engineering, resources, critical factors, KPIs and sustainability dimensions.