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https://www.readbyqxmd.com/read/28811883/effect-of-habitat-degradation-on-competition-carrying-capacity-and-species-assemblage-stability
#1
Edoardo Calizza, Maria Letizia Costantini, Giulio Careddu, Loreto Rossi
Changes in species' trophic niches due to habitat degradation can affect intra- and interspecific competition, with implications for biodiversity persistence. Difficulties of measuring species' interactions in the field limit our comprehension of competition outcomes along disturbance gradients. Thus, information on how habitat degradation can destabilize food webs is scarce, hindering predictions regarding responses of multispecies systems to environmental changes. Seagrass ecosystems are undergoing degradation...
August 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28811671/microsatellite-evidence-of-dispersal-mechanism-of-red-swamp-crayfish-procambarus-clarkii-in-the-pearl-river-basin-and-implications-for-its-management
#2
Jinlong Huang, Shaoqing Tang, Fengjin Cai, Yanfang Lin, Zhengjun Wu
Discerning the dispersal patterns of invasive species is critically important for the design of effective management strategies and the development of appropriate theoretical models predicting the spatial expansion of introduced populations. Post-introduction dispersal may occur naturally or via human transport, but for many organisms, assessing the relative contribution of each of these factors is difficult using traditional methods. Here, we explored the genetic patterns associated with the spread of red swamp crayfish (Procambarus clarkii) among 21 populations in the Pearl River basin and 2 peripheral populations in the Yangtze River basin...
August 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28811031/bayesian-approach-to-peak-deconvolution-and-library-search-for-high-resolution-gas-chromatography-mass-spectrometry
#3
A Barcaru, H G J Mol, M Tienstra, G Vivó-Truyols
A novel probabilistic Bayesian strategy is proposed to resolve highly coeluting peaks in high-resolution GC-MS (Orbitrap) data. Opposed to a deterministic approach, we propose to solve the problem probabilistically, using a complete pipeline. First, the retention time(s) for a (probabilistic) number of compounds for each mass channel are estimated. The statistical dependency between m/z channels was implied by including penalties in the model objective function. Second, Bayesian Information Criterion (BIC) is used as Occam's razor for the probabilistic assessment of the number of components...
August 29, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28810908/relative-risk-estimation-of-dengue-disease-at-small-spatial-scale
#4
Daniel Adyro Martínez-Bello, Antonio López-Quílez, Alexander Torres Prieto
BACKGROUND: Dengue is a high incidence arboviral disease in tropical countries around the world. Colombia is an endemic country due to the favourable environmental conditions for vector survival and spread. Dengue surveillance in Colombia is based in passive notification of cases, supporting monitoring, prediction, risk factor identification and intervention measures. Even though the surveillance network works adequately, disease mapping techniques currently developed and employed for many health problems are not widely applied...
August 15, 2017: International Journal of Health Geographics
https://www.readbyqxmd.com/read/28810831/application-of-a-bayesian-non-linear-model-hybrid-scheme-to-sequence-data-for-genomic-prediction-and-qtl-mapping
#5
Tingting Wang, Yi-Ping Phoebe Chen, Iona M MacLeod, Jennie E Pryce, Michael E Goddard, Ben J Hayes
BACKGROUND: Using whole genome sequence data might improve genomic prediction accuracy, when compared with high-density SNP arrays, and could lead to identification of casual mutations affecting complex traits. For some traits, the most accurate genomic predictions are achieved with non-linear Bayesian methods. However, as the number of variants and the size of the reference population increase, the computational time required to implement these Bayesian methods (typically with Monte Carlo Markov Chain sampling) becomes unfeasibly long...
August 15, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28810680/a-bayesian-approach-for-summarizing-and-modeling-time-series-exposure-data-with-left-censoring
#6
E Andres Houseman, M Abbas Virji
Objective: Direct reading instruments are valuable tools for measuring exposure as they provide real-time measurements for rapid decision making. However, their use is limited to general survey applications in part due to issues related to their performance. Moreover, statistical analysis of real-time data is complicated by autocorrelation among successive measurements, non-stationary time series, and the presence of left-censoring due to limit-of-detection (LOD). A Bayesian framework is proposed that accounts for non-stationary autocorrelation and LOD issues in exposure time-series data in order to model workplace factors that affect exposure and estimate summary statistics for tasks or other covariates of interest...
August 1, 2017: Annals of Work Exposures and Health
https://www.readbyqxmd.com/read/28810488/the-effect-of-socioeconomic-status-and-social-inclusion-on-the-mental-health-of-chinese-migrants-a-comparison-between-interprovincial-and-intra-provincial-migrants
#7
Yingying Yi, Ying Liang
This article sought to explore the impacts of socioeconomic status and social inclusion on intra-provincial and interprovincial migrants' mental health by constructing the Bayesian structural equation model. A total of 14,584 migrants aged 15-59 years living in eight cities of China were selected. It was found that the impacts of socioeconomic status and social inclusion on mental health were converse for these two groups. And the manifest variables coefficients of socioeconomic status and social inclusion were also converse...
July 1, 2017: Journal of Health Psychology
https://www.readbyqxmd.com/read/28809668/tractography-based-score-for-learning-effective-connectivity-from-multimodal-imaging-data-using-dynamic-bayesian-networks
#8
Shilpa Dang, Santanu Chaudhury, Brejesh Lall, Prasun K Roy
OBJECTIVE: Effective connectivity (EC) is the methodology for determining functional-integration among the functionally-active segregated regions of the brain. By definition [1] EC is "the causal influence exerted by one neuronal group on another" which is constrained by anatomical connectivity (AC) (axonal connections). AC is necessary for EC but does not fully determine it, because synaptic communication occurs dynamically in a context-dependent fashion. Although there is a vast emerging evidence of structure-function relationship using multimodal imaging studies, till date only a few studies have done joint modelling of the two modalities: functional MRI (fMRI) and Diffusion Tensor Imaging (DTI)...
August 10, 2017: IEEE Transactions on Bio-medical Engineering
https://www.readbyqxmd.com/read/28807656/opportunities-for-model-based-precision-dosing-in-the-treatment-of-sickle-cell-anemia
#9
Min Dong, Tomoyuki Mizuno, Alexander A Vinks
Hydroxyurea is the primary pharmacotherapy to prevent complications of sickle cell anemia (SCA). Accumulated clinical experience across multiple age ranges has suggested that the use of an individualized maximum tolerated dose (MTD) will achieve optimal benefit of hydroxyurea treatment. However, the current empirical and trial-and-error approach for dose escalation often results in a lengthy titration process and is not strictly implemented in many clinics. Opportunities exist for pharmacokinetics model-based precision dosing of hydroxyurea to quickly achieve individual MTD...
August 9, 2017: Blood Cells, Molecules & Diseases
https://www.readbyqxmd.com/read/28807582/comparative-efficacy-of-angiotensin-ii-antagonists-in-essential-hypertension-systematic-review-and-network-meta-analysis-of-randomised-controlled-trials
#10
Bernice Tsoi, Leo E Akioyamen, Ashley Bonner, Claudia Frankfurter, Mitchell Levine, Eleanor Pullenayegum, Ron Goeree, Daria O'Reilly
BACKGROUND: Evidence on the long-term clinical benefits of individual members of angiotensin II receptor blockers is limited given the lack of head-to-head studies. We conducted a network meta-analysis to determine the comparative efficacy of different members within this drug class with respect to outcomes of (i) blood pressure reduction (at 24 and 52 weeks) and (ii) prevention of cardiovascular disease (>104 weeks). METHODS: A systematic literature review was conducted - Protocol registration: (PROSPERO - CRD42014007067) - to identify relevant literature from the following databases: Cochrane Library, PubMed, MEDLINE and Embase; searched from inception to July 2016...
July 14, 2017: Heart, Lung & Circulation
https://www.readbyqxmd.com/read/28805914/genomic-prediction-for-growth-and-reproduction-traits-in-pig-using-an-admixed-reference-population
#11
H Song, J Zhang, Y Jiang, H Gao, S Tang, S Mi, F Yu, Q Meng, W Xiao, Q Zhang, X Ding
This study investigated the efficiency of genomic prediction using an admixed reference population comprising 3 Yorkshire populations with different genetic backgrounds. In total, 2,084 and 1,388 individuals with growth and reproduction records, respectively, were genotyped with a PorcineSNP80 marker panel. The corrected phenotypic values derived from conventional EBV of each population were taken as response variables. Three approaches, that is, a linear genomic BLUP (GBLUP) model, a Bayesian mixture model (BayesR), and single-step GBLUP (ssGBLUP), were implemented to predict genomic breeding values...
August 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28804989/improving-predictions-of-tropical-forest-response-to-climate-change-through-integration-of-field-studies-and-ecosystem-modeling
#12
Xiaohui Feng, María Uriarte, Grizelle González, Sasha Reed, J Thompson, Jess K Zimmerman, Lora Murphy
Tropical forests play a critical role in carbon and water cycles at a global scale. Rapid climate change is anticipated in tropical regions over the coming decades and, under a warmer and drier climate, tropical forests are likely to be net sources of carbon rather than sinks. However, our understanding of tropical forest response and feedback to climate change is very limited. Efforts to model climate change impacts on carbon fluxes in tropical forests have not reached a consensus. Here we use the Ecosystem Demography model (ED2) to predict carbon fluxes of a Puerto Rican tropical forest under realistic climate change scenarios...
August 14, 2017: Global Change Biology
https://www.readbyqxmd.com/read/28803069/estimating-the-reproductive-number-total-outbreak-size-and-reporting-rates-for-zika-epidemics-in-south-and-central-america
#13
Deborah P Shutt, Carrie A Manore, Stephen Pankavich, Aaron T Porter, Sara Y Del Valle
As South and Central American countries prepare for increased birth defects from Zika virus outbreaks and plan for mitigation strategies to minimize ongoing and future outbreaks, understanding important characteristics of Zika outbreaks and how they vary across regions is a challenging and important problem. We developed a mathematical model for the 2015/2016 Zika virus outbreak dynamics in Colombia, El Salvador, and Suriname. We fit the model to publicly available data provided by the Pan American Health Organization, using Approximate Bayesian Computation to estimate parameter distributions and provide uncertainty quantification...
July 13, 2017: Epidemics
https://www.readbyqxmd.com/read/28802674/the-yusuf-peto-method-was-not-a-robust-method-for-meta-analyses-of-rare-events-data-from-antidepressant-trials
#14
Tarang Sharma, Peter C Gøtzsche, Oliver Kuss
OBJECTIVE: To identify the validity of effect estimates for serious rare adverse events in clinical study reports of antidepressants trials, across different meta-analysis methods. STUDY DESIGN AND SETTING: Four serious rare adverse events (all-cause mortality, suicidality, aggressive behaviour and akathisia) were meta-analysed using different methods. The Yusuf-Peto odds ignores studies with no events, was compared with the alternative approaches of generalised linear mixed models (GLMM), conditional logistic regression, a Bayesian approach using Markov Chain Monte Carlo (MCMC) and a beta-binomial regression model...
August 9, 2017: Journal of Clinical Epidemiology
https://www.readbyqxmd.com/read/28802092/utility-of-capture-recapture-methodology-to-estimate-prevalence-of-congenital-heart-defects-among-adolescents-in-11-new-york-state-counties-2008-to-2010
#15
Tugba Akkaya-Hocagil, Wan-Hsiang Hsu, Kristin Sommerhalter, Claire McGarry, Alissa Van Zutphen
BACKGROUND: Congenital heart defects (CHDs) are the most common birth defects in the United States, and the population of individuals living with CHDs is growing. Though CHD prevalence in infancy has been well characterized, better prevalence estimates among children and adolescents in the United States are still needed. METHODS: We used capture-recapture methods to estimate CHD prevalence among adolescents residing in 11 New York counties. The three data sources used for analysis included Statewide Planning and Research Cooperative System (SPARCS) hospital inpatient records, SPARCS outpatient records, and medical records provided by seven pediatric congenital cardiac clinics from 2008 to 2010...
August 12, 2017: Birth defects research
https://www.readbyqxmd.com/read/28801251/modeling-correlated-noise-is-necessary-to-decode-uncertainty
#16
REVIEW
R S van Bergen, J F M Jehee
Brain decoding algorithms form an important part of the arsenal of analysis tools available to neuroscientists, allowing for a more detailed study of the kind of information represented in patterns of cortical activity. While most current decoding algorithms focus on estimating a single, most likely stimulus from the pattern of noisy fMRI responses, the presence of noise causes this estimate to be uncertain. This uncertainty in stimulus estimates is a potentially highly relevant aspect of cortical stimulus processing, and features prominently in Bayesian or probabilistic models of neural coding...
August 8, 2017: NeuroImage
https://www.readbyqxmd.com/read/28801196/prenatal-fine-particulate-exposure-and-early-childhood-asthma-effect-of-maternal-stress-and-fetal-gender
#17
Alison Lee, Hsiao-Hsien Leon Hsu, Yueh-Hsiu Mathilda Chiu, Sonali Bose, Maria José Rosa, Itai Kloog, Ander Wilson, Joel Schwartz, Sheldon Cohen, Brent A Coull, Robert O Wright, Rosalind J Wright
BACKGROUND: The impact of prenatal ambient air pollution on child asthma may be modified by maternal stress, child sex and exposure dose and timing. OBJECTIVE: We prospectively examined associations between co-exposure to prenatal particulate matter with an aerodynamic diameter of less than 2.5 microns (PM2.5) and maternal stress on childhood asthma (n=736). METHODS: Daily PM2.5 exposure during pregnancy was estimated using a validated satellite-based spatio-temporally resolved prediction model...
August 8, 2017: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/28800759/quantitative-reproducibility-analysis-for-identifying-reproducible-targets-from-high-throughput-experiments
#18
Wenfei Zhang, Ying Liu, Mindy Zhang, Cheng Zhu, Yuefeng Lu
BACKGROUND: High-throughput assays are widely used in biological research to select potential targets. One single high-throughput experiment can efficiently study a large number of candidates simultaneously, but is subject to substantial variability. Therefore it is scientifically important to performance quantitative reproducibility analysis to identify reproducible targets with consistent and significant signals across replicate experiments. A few methods exist, but all have limitations...
August 11, 2017: BMC Systems Biology
https://www.readbyqxmd.com/read/28800724/a-comparison-of-machine-learning-and-bayesian-modelling-for-molecular-serotyping
#19
Richard Newton, Lorenz Wernisch
BACKGROUND: Streptococcus pneumoniae is a human pathogen that is a major cause of infant mortality. Identifying the pneumococcal serotype is an important step in monitoring the impact of vaccines used to protect against disease. Genomic microarrays provide an effective method for molecular serotyping. Previously we developed an empirical Bayesian model for the classification of serotypes from a molecular serotyping array. With only few samples available, a model driven approach was the only option...
August 11, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28799274/bayesian-joint-modeling-of-bivariate-longitudinal-and-competing-risks-data-an-application-to-study-patient-ventilator-asynchronies-in-critical-care-patients
#20
Montserrat Rué, Eleni-Rosalina Andrinopoulou, Danilo Alvares, Carmen Armero, Anabel Forte, Lluis Blanch
Mechanical ventilation is a common procedure of life support in intensive care. Patient-ventilator asynchronies (PVAs) occur when the timing of the ventilator cycle is not simultaneous with the timing of the patient respiratory cycle. The association between severity markers and the events death or alive discharge has been acknowledged before, however, little is known about the addition of PVAs data to the analyses. We used an index of asynchronies (AI) to measure PVAs and the SOFA (sequential organ failure assessment) score to assess overall severity...
August 11, 2017: Biometrical Journal. Biometrische Zeitschrift
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