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https://www.readbyqxmd.com/read/28434023/developing-a-statistically-powerful-measure-for-quartet-tree-inference-using-phylogenetic-identities-and-markov-invariants
#1
Jeremy G Sumner, Amelia Taylor, Barbara R Holland, Peter D Jarvis
Recently there has been renewed interest in phylogenetic inference methods based on phylogenetic invariants, alongside the related Markov invariants. Broadly speaking, both these approaches give rise to polynomial functions of sequence site patterns that, in expectation value, either vanish for particular evolutionary trees (in the case of phylogenetic invariants) or have well understood transformation properties (in the case of Markov invariants). While both approaches have been valued for their intrinsic mathematical interest, it is not clear how they relate to each other, and to what extent they can be used as practical tools for inference of phylogenetic trees...
April 22, 2017: Journal of Mathematical Biology
https://www.readbyqxmd.com/read/28433892/longitudinal-associations-between-the-use-of-sexually-explicit-material-and-adolescents-attitudes-and-behaviors-a-narrative-review-of-studies
#2
Goran Koletić
This review analyzed longitudinal studies examining the effects of sexually explicit material on adolescents' attitudes, beliefs and behaviors. The review also aimed to provide an analysis of the limitations of the existing studies, as well as recommendations for future research. To be included, publications had to employ repeated measurements, include a measure of sexually explicit material use and participants aged 18 years or under. A total of 20 papers from nine different research projects were reviewed...
April 20, 2017: Journal of Adolescence
https://www.readbyqxmd.com/read/28433677/montreal-accord-on-patient-reported-outcomes-use-series-paper-9-anonymization-and-ethics-considerations-for-capturing-and-sharing-patient-reported-outcomes-pro
#3
L Arbuckle, E Moher, S J Bartlett, S Ahmed, K El Emam
BACKGROUND: Patient reported outcomes (PRO) are collected with consent for care, however using the data for any other purpose requires consent for that additional purpose, or the anonymization of the data. Collecting explicit consent to use this data for secondary purposes, before the patient completes a PRO, can also bias the responses. OBJECTIVE: We consider the ethical and security issues related to the collection of data at the point of care or in the population, and the aggregation and integration of PRO data with administrative databases to facilitate decision-making and comparative effectiveness research...
April 19, 2017: Journal of Clinical Epidemiology
https://www.readbyqxmd.com/read/28433028/incorporating-nuclear-vibrational-energies-into-the-atom-in-molecules-analysis-an-analytical-study
#4
Masumeh Gharabaghi, Shant Shahbazian
The quantum theory of atoms in molecules (QTAIM) is based on the clamped nucleus paradigm and solely working with the electronic wavefunctions, so does not include nuclear vibrations in the AIM analysis. On the other hand, the recently extended version of the QTAIM, called the multi-component QTAIM (MC-QTAIM), incorporates both electrons and quantum nuclei, i.e., those nuclei treated as quantum waves instead of clamped point charges, into the AIM analysis using non-adiabatic wavefunctions. Thus, the MC-QTAIM is the natural framework to incorporate the role of nuclear vibrations into the AIM analysis...
April 21, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28433020/introducing-the-mean-field-approximation-to-cdft-mmpol-method-statistically-converged-equilibrium-and-nonequilibrium-free-energy-calculation-for-electron-transfer-reactions-in-condensed-phases
#5
Hiroshi Nakano, Hirofumi Sato
A new theoretical method to study electron transfer reactions in condensed phases is proposed by introducing the mean-field approximation into the constrained density functional theory/molecular mechanical method with a polarizable force field (CDFT/MMpol). The method enables us to efficiently calculate the statistically converged equilibrium and nonequilibrium free energies for diabatic states in an electron transfer reaction by virtue of the mean field approximation that drastically reduces the number of CDFT calculations...
April 21, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28432446/biasing-spatial-attention-with-semantic-information-an-event-coding-approach
#6
Tarek Amer, Davood G Gozli, Jay Pratt
We investigated the influence of conceptual processing on visual attention from the standpoint of Theory of Event Coding (TEC). The theory makes two predictions: first, an important factor in determining the influence of event 1 on processing event 2 is whether features of event 1 are bound into a unified representation (i.e., selection or retrieval of event 1). Second, whether processing the two events facilitates or interferes with each other should depend on the extent to which their constituent features overlap...
April 21, 2017: Psychological Research
https://www.readbyqxmd.com/read/28432423/note-on-the-coefficient-of-variations-of-neuronal-spike-trains
#7
Johannes Lengler, Angelika Steger
It is known that many neurons in the brain show spike trains with a coefficient of variation (CV) of the interspike times of approximately 1, thus resembling the properties of Poisson spike trains. Computational studies have been able to reproduce this phenomenon. However, the underlying models were too complex to be examined analytically. In this paper, we offer a simple model that shows the same effect but is accessible to an analytic treatment. The model is a random walk model with a reflecting barrier; we give explicit formulas for the CV in the regime of excess inhibition...
April 21, 2017: Biological Cybernetics
https://www.readbyqxmd.com/read/28430468/yangian-symmetry-and-integrability-of-planar-n-4-supersymmetric-yang-mills-theory
#8
Niklas Beisert, Aleksander Garus, Matteo Rosso
In this Letter, we establish Yangian symmetry of planar N=4 supersymmetric Yang-Mills theory. We prove that the classical equations of motion of the model close onto themselves under the action of Yangian generators. Moreover, we propose an off-shell extension of our statement, which is equivalent to the invariance of the action and prove that it is exactly satisfied. We assert that our relationship serves as a criterion for integrability in planar gauge theories by explicitly checking that it applies to the integrable Aharony-Bergman-Jafferis-Maldacena theory but not to the nonintegrable N=1 supersymmetric Yang-Mills theory...
April 7, 2017: Physical Review Letters
https://www.readbyqxmd.com/read/28430270/atomistic-non-adiabatic-dynamics-of-the-lh2-complex-with-a-gpu-accelerated-ab-initio-exciton-model
#9
Aaron Sisto, Clem Stross, Marc W van der Kamp, Michael O'Connor, Simon McIntosh-Smith, Graham T Johnson, Edward G Hohenstein, Fred R Manby, David R Glowacki, Todd J Martinez
We recently outlined an efficient multi-tiered parallel ab initio excitonic framework that utilizes time dependent density functional theory (TDDFT) to calculate ground and excited state energies and gradients of large supramolecular complexes in atomistic detail - enabling us to undertake non-adiabatic simulations which explicitly account for the coupled anharmonic vibrational motion of all the constituent atoms in a supramolecular system. Here we apply that framework to the 27 coupled bacterio-chlorophyll-a chromophores which make up the LH2 complex, using it to compute an on-the-fly nonadiabatic surface-hopping (SH) trajectory of electronically excited LH2...
April 21, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28429978/the-cost-quality-relationship-in-european-hospitals-a-systematic-review
#10
Rikke Søgaard, Ulrika Enemark
Objective To determine the relationship between cost and quality in European hospitals. Methods Juran's cost-quality curve served as a theoretical framework, linked to basic efficiency concepts. Based on systematic database searches, citation searches and cross-referencing, we identify 1093 empirical studies. After exclusion of studies from outside Europe (699), non-hospital settings (10 studies), lack of a cost parameter (194) or a quality parameter (27 studies), 22 studies (28 analyses) were assessed for direction of association and methodological heterogeneity...
April 2017: Journal of Health Services Research & Policy
https://www.readbyqxmd.com/read/28429977/are-some-areas-more-equal-than-others-socioeconomic-inequality-in-potentially-avoidable-emergency-hospital-admissions-within-english-local-authority-areas
#11
Jessica Sheringham, Miqdad Asaria, Helen Barratt, Rosalind Raine, Richard Cookson
Objectives Reducing health inequalities is an explicit goal of England's health system. Our aim was to compare the performance of English local administrative areas in reducing socioeconomic inequality in emergency hospital admissions for ambulatory care sensitive chronic conditions. Methods We used local authority area as a stable proxy for health and long-term care administrative geography between 2004/5 and 2011/12. We linked inpatient hospital activity, deprivation, primary care, and population data to small area neighbourhoods (typical population 1500) within administrative areas (typical population 250,000)...
April 2017: Journal of Health Services Research & Policy
https://www.readbyqxmd.com/read/28429940/density-functional-theory-and-car-parrinello-molecular-dynamics-study-of-the-hydrogen-producing-mechanism-of-the-co-dmgbf2-2-and-co-dmgh-2-cobaloxime-complexes-in-the-acetonitrile-water-solvent
#12
Jinfan Chen, Patrick H-L Sit
The catalytic hydrogen-producing processes of two prototypical cobaloxime catalysts Co(dmgBF2)2 (dmgBF2=difluoroboryl-dimethylglyoxime) and Co(dmgH)2 (dmgH=dimethylglyoxime), were studied by Density Functional Theory (DFT) and Car-Parrinello molecular dynamics (CPMD) simulations in the explicit acetonitrile-water solvent. Our study demonstrates the key role of water molecules as shuttles to deliver protons to the cobalt active centers of these catalysts. However, the transfer of protons to the cobalt centers also competes with the diffusion of the proton away from the complex via the hydrogen bond network of water...
April 21, 2017: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/28429710/life-cycle-assessment-needs-predictive-spatial-modelling-for-biodiversity-and-ecosystem-services
#13
Rebecca Chaplin-Kramer, Sarah Sim, Perrine Hamel, Benjamin Bryant, Ryan Noe, Carina Mueller, Giles Rigarlsford, Michal Kulak, Virginia Kowal, Richard Sharp, Julie Clavreul, Edward Price, Stephen Polasky, Mary Ruckelshaus, Gretchen Daily
International corporations in an increasingly globalized economy exert a major influence on the planet's land use and resources through their product design and material sourcing decisions. Many companies use life cycle assessment (LCA) to evaluate their sustainability, yet commonly-used LCA methodologies lack the spatial resolution and predictive ecological information to reveal key impacts on climate, water and biodiversity. We present advances for LCA that integrate spatially explicit modelling of land change and ecosystem services in a Land-Use Change Improved (LUCI)-LCA...
April 21, 2017: Nature Communications
https://www.readbyqxmd.com/read/28429160/neural-mechanisms-of-risky-decision-making-in-adolescents-reporting-frequent-alcohol-and-or-marijuana-use
#14
Eric D Claus, Sarah W Feldstein Ewing, Renee E Magnan, Erika Montanaro, Kent E Hutchison, Angela D Bryan
Because adolescence is a period of heightened exploration of new behaviors, there is a natural increase in risk taking including initial use of alcohol and marijuana. In order to better understand potential differences in neurocognitive functioning among adolescents who use drugs, the current study aimed to identify the neural substrates of risky decision making that differ among adolescents who are primary users of alcohol or marijuana, primary users of both alcohol and marijuana, and controls who report primary use of neither drug...
April 20, 2017: Brain Imaging and Behavior
https://www.readbyqxmd.com/read/28428775/genomics-reveals-a-unique-clone-of-burkholderia-cenocepacia-harboring-an-actively-excising-novel-genomic-island
#15
Prashant P Patil, Swapna Mali, Samriti Midha, Vikas Gautam, Lona Dash, Sunil Kumar, Jayanthi Shastri, Lipika Singhal, Prabhu B Patil
Burkholderia cenocepacia is a clinically dominant form among the other virulent species of Burkholderia cepacia complex (Bcc). In the present study, we sequenced and analyzed the genomes of seven nosocomial Bcc isolates, five of which were isolated from the bloodstream infections and two isolates were recovered from the hospital setting during the surveillance. Genome-based species identification of the Bcc isolates using a type strain explicitly identified the species as B. cenocepacia. Moreover, single nucleotide polymorphism analysis revealed that the six isolates were clonal and phylogenetically distinct from the other B...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28428738/improved-localization-of-seizure-onset-zones-using-spatiotemporal-constraints-and-time-varying-source-connectivity
#16
Juan D Martinez-Vargas, Gregor Strobbe, Kristl Vonck, Pieter van Mierlo, German Castellanos-Dominguez
Presurgical evaluation of brain neural activity is commonly carried out in refractory epilepsy patients to delineate as accurately as possible the seizure onset zone (SOZ) before epilepsy surgery. In practice, any subjective interpretation of electroencephalographic (EEG) recordings is hindered mainly because of the highly stochastic behavior of the epileptic activity. We propose a new method for dynamic source connectivity analysis that aims to accurately localize the seizure onset zones by explicitly including temporal, spectral, and spatial information of the brain neural activity extracted from EEG recordings...
2017: Frontiers in Neuroscience
https://www.readbyqxmd.com/read/28428737/reducing-sexual-risk-behaviors-secondary-analyses-from-a-randomized-controlled-trial-of-a-brief-web-based-alcohol-intervention-for-underage-heavy-episodic-drinking-college-women
#17
Kaitlin E Bountress, Isha W Metzger, Jessica L Maples-Keller, Amanda K Gilmore
BACKGROUND: Alcohol use and sexual risk behaviors (SRBs) are significant problems on college campuses. College women are at particularly high risk for negative consequences associated with sexually transmitted infections (STIs) and unwanted pregnancy. METHODS: The current study (n = 160) examined the effect of a brief, web-based alcohol intervention (n = 53) for college women on reducing SRBs compared to an assessment only control (n = 107) with a randomized controlled trial...
2017: Addiction Research & Theory
https://www.readbyqxmd.com/read/28428245/thematic-analysis-of-us-stakeholder-views-on-the-influence-of-labour-nurses-care-on-birth-outcomes
#18
Audrey Lyndon, Kathleen Rice Simpson, Joanne Spetz
BACKGROUND: Childbirth is a leading reason for hospital admission in the USA, and most labour care is provided by registered nurses under physician or midwife supervision in a nurse-managed care model. Yet, there are no validated nurse-sensitive quality measures for maternity care. We aimed to engage primary stakeholders of maternity care in identifying the aspects of nursing care during labour and birth they believe influence birth outcomes, and how these aspects of care might be measured...
April 20, 2017: BMJ Quality & Safety
https://www.readbyqxmd.com/read/28427819/size-dependent-axial-instability-of-microtubules-surrounded-by-cytoplasm-of-a-living-cell-based-sdient-elasticity-theory
#19
S Sahmani, M M Aghdam
Microtubules including tubulin heterodimers arranging in a parallel shape of cylindrical hollow plays an important role in the mechanical stiffness of a living cell. In the present study, the nonlocal strain gradient theory of elasticity including simultaneously the both nonlocality and strain gradient size dependency is put to use within the framework of a refined orthotropic shell theory with hyperbolic distribution of shear deformation to analyze the size-dependent buckling and postbuckling characteristics of microtubules embedded in cytoplasm under axial compressive load...
April 17, 2017: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/28427338/-working-is-out-of-the-question-a-qualitative-text-analysis-of-medical-certificates-of-disability
#20
Guri Aarseth, Bård Natvig, Eivind Engebretsen, Anne Kveim Lie
BACKGROUND: Medical certificates influence the distribution of economic benefits in welfare states; however, the qualitative aspects of these texts remain largely unexplored. The present study is the first systematic investigation done of these texts. Our aim was to investigate how GPs select and mediate information about their patients' health and how they support their conclusions about illness, functioning and fitness for work in medical certificates. METHODS: We performed a textual analysis of thirty-three medical certificates produced by general practitioners (GP) in Norway at the request of the Norwegian Labour and Welfare Administration (NAV)...
April 20, 2017: BMC Family Practice
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