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Browsing by Subject "Bayes Theorem"
Now showing items 1-20 of 35
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A Bayesian Approach to Inferring Rates of Selfing and Locus-Specific Mutation.
(Genetics, 2015-11)We present a Bayesian method for characterizing the mating system of populations reproducing through a mixture of self-fertilization and random outcrossing. Our method uses patterns of genetic variation across the genome ... -
A framework for integrating the songbird brain.
(J Comp Physiol A Neuroethol Sens Neural Behav Physiol, 2002-12)Biological systems by default involve complex components with complex relationships. To decipher how biological systems work, we assume that one needs to integrate information over multiple levels of complexity. The songbird ... -
A new trial design to accelerate tuberculosis drug development: the Phase IIC Selection Trial with Extended Post-treatment follow-up (STEP).
(BMC Med, 2016-03-23)BACKGROUND: The standard 6-month four-drug regimen for the treatment of drug-sensitive tuberculosis has remained unchanged for decades and is inadequate to control the epidemic. Shorter, simpler regimens are urgently needed ... -
A tutorial on Bayesian multi-model linear regression with BAS and JASP.
(Behavior research methods, 2021-12)Linear regression analyses commonly involve two consecutive stages of statistical inquiry. In the first stage, a single 'best' model is defined by a specific selection of relevant predictors; in the second stage, the regression ... -
Abrupt deceleration of molecular evolution linked to the origin of arborescence in ferns.
(Evolution; international journal of organic evolution, 2010-09)Molecular rate heterogeneity, whereby rates of molecular evolution vary among groups of organisms, is a well-documented phenomenon. Nonetheless, its causes are poorly understood. For animals, generation time is frequently ... -
Advances to Bayesian network inference for generating causal networks from observational biological data.
(Bioinformatics, 2004-12-12)MOTIVATION: Network inference algorithms are powerful computational tools for identifying putative causal interactions among variables from observational data. Bayesian network inference algorithms hold particular promise ... -
Assessing Bayesian Phylogenetic Information Content of Morphological Data Using Knowledge From Anatomy Ontologies.
(Systematic biology, 2022-10)Morphology remains a primary source of phylogenetic information for many groups of organisms, and the only one for most fossil taxa. Organismal anatomy is not a collection of randomly assembled and independent "parts", but ... -
Association between DNA damage response and repair genes and risk of invasive serous ovarian cancer.
(PLoS One, 2010-04-08)BACKGROUND: We analyzed the association between 53 genes related to DNA repair and p53-mediated damage response and serous ovarian cancer risk using case-control data from the North Carolina Ovarian Cancer Study (NCOCS), ... -
Associations of Alcohol and Tobacco Retail Outlet Rates with Neighborhood Disadvantage.
(International journal of environmental research and public health, 2022-01-20)Tobacco causes 29% of cancer-related deaths while alcohol causes 5.5% of cancer-related deaths. Reducing the consumption of these cancer-causing products is a special priority area for the National Cancer Institute. While ... -
Automatic annotation of spatial expression patterns via sparse Bayesian factor models.
(PLoS Comput Biol, 2011-07)Advances in reporters for gene expression have made it possible to document and quantify expression patterns in 2D-4D. In contrast to microarrays, which provide data for many genes but averaged and/or at low resolution, ... -
Bayesian inference for genomic data integration reduces misclassification rate in predicting protein-protein interactions.
(PLoS Comput Biol, 2011-07)Protein-protein interactions (PPIs) are essential to most fundamental cellular processes. There has been increasing interest in reconstructing PPIs networks. However, several critical difficulties exist in obtaining reliable ... -
Delimiting species without nuclear monophyly in Madagascar's mouse lemurs.
(PLoS One, 2010-03-31)BACKGROUND: Speciation begins when populations become genetically separated through a substantial reduction in gene flow, and it is at this point that a genetically cohesive set of populations attain the sole property of ... -
Detecting local haplotype sharing and haplotype association.
(Genetics, 2014-07)A novel haplotype association method is presented, and its power is demonstrated. Relying on a statistical model for linkage disequilibrium (LD), the method first infers ancestral haplotypes and their loadings at each marker ... -
Dissecting the Domains of Parkinson's Disease: Insights from Longitudinal Item Response Theory Modeling.
(Movement disorders : official journal of the Movement Disorder Society, 2022-09)<h4>Background</h4>Longitudinal item response theory (IRT) models previously suggested that the Movement Disorder Society Unified Parkinson's Disease Rating Scale (MDS-UPDRS) motor examination has two salient domains, tremor ... -
Do asexual polyploid lineages lead short evolutionary lives? A case study from the fern genus Astrolepis.
(Evolution; international journal of organic evolution, 2011-11)A life-history transition to asexuality is typically viewed as leading to a heightened extinction risk, and a number of studies have evaluated this claim by examining the relative ages of asexual versus closely related sexual ... -
Estimation and validation of a multiattribute model of Alzheimer disease progression.
(Med Decis Making, 2010-11)OBJECTIVES: To estimate and validate a multiattribute model of the clinical course of Alzheimer disease (AD) from mild AD to death in a high-quality prospective cohort study, and to estimate the impact of hypothetical ... -
Evolution of the sex ratio and effective number under gynodioecy and androdioecy.
(Theoretical population biology, 2017-12)We address the evolution of effective number of individuals under androdioecy and gynodioecy. We analyze dynamic models of autosomal modifiers of weak effect on sex expression. In our zygote control models, the sex expressed ... -
Facility-based disease surveillance and Bayesian hierarchical modeling to estimate endemic typhoid fever incidence, Kilimanjaro Region, Tanzania, 2007-2018.
(PLoS neglected tropical diseases, 2022-07-05)Growing evidence suggests considerable variation in endemic typhoid fever incidence at some locations over time, yet few settings have multi-year incidence estimates to inform typhoid control measures. We sought to describe ... -
Ignoring correlated activity causes a failure of retinal population codes.
(Nature communications, 2020-09-14)From starlight to sunlight, adaptation alters retinal output, changing both the signal and noise among populations of retinal ganglion cells (RGCs). Here we determine how these light level-dependent changes impact decoding ... -
Inference for nonlinear epidemiological models using genealogies and time series.
(PLoS Comput Biol, 2011-08)Phylodynamics - the field aiming to quantitatively integrate the ecological and evolutionary dynamics of rapidly evolving populations like those of RNA viruses - increasingly relies upon coalescent approaches to infer past ...
