Bayesian Modeling of Differential Gene Expression

DOI10.1111/j.1541-0420.2005.00394.xzbMath1099.62131OpenAlexW1969242318WikidataQ38518803 ScholiaQ38518803MaRDI QIDQ5473199

Alex Lewin, Clare Marshall, Anne Glazier, Sylvia Richardson, Tim Aitman

Publication date: 20 June 2006

Published in: Biometrics (Search for Journal in Brave)

Full work available at URL: https://researchonline.lshtm.ac.uk/id/eprint/4649135/1/Bayesian-Modelling-of-Differential-Gene-Expression.pdf

zbMATH Keywords

Bayesian analysisdifferential expressionmodel checksnormalizationhierarchical modelMCMCmicroarrayWinBUGA

Mathematics Subject Classification ID

Applications of statistics to biology and medical sciences; meta analysis (62P10) Bayesian inference (62F15) Genetics and epigenetics (92D10)

Related Items (12)

Hierarchical Bayes variable selection and microarray experiments ⋮ Coherent Frequentism: A Decision Theory Based on Confidence Sets ⋮ BOPA: A Bayesian hierarchical model for outlier expression detection ⋮ A Flexible and Powerful Bayesian Hierarchical Model for ChIP-Chip Experiments ⋮ Microarrays, empirical Bayes and the two-groups model ⋮ A Bayesian measurement error model for two-channel cell-based RNAi data with replicates ⋮ A structural mixed model to shrink covariance matrices for time-course differential gene expression studies ⋮ Bayesian model checking for multivariate outcome data ⋮ Estimating the False Discovery Rate Using Nonparametric Deconvolution ⋮ Tail Posterior Probability for Inference in Pairwise and Multiclass Gene Expression Data ⋮ Time-course data prediction for repeatedly measured gene expression ⋮ Exploiting blank spots for model-based background correction in discovering genes with DNA array data

Uses Software

• WinBUGS
• vsn
• BGX
• FatiGO

Cites Work

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• Significance analysis of microarrays applied to the ionizing radiation response
• DNA Microarray Experiments: Biological and Technological Aspects
• Empirical Bayes Analysis of a Microarray Experiment
• Detecting Differentially Expressed Genes in Microarrays Using Bayesian Model Selection
• P Values for Composite Null Models
• A Direct Approach to False Discovery Rates
• Bayesian Measures of Model Complexity and Fit
• BGX: a fully Bayesian integrated approach to the analysis of Affymetrix GeneChip data
• Detecting differential gene expression with a semiparametric hierarchical mixture method

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