A Bayesian Graphical Model for ChIP-Seq Data on Histone Modifications

DOI10.1080/01621459.2012.746058zbMath1379.62079MaRDI QIDQ4916928

Shoudan Liang, Lu Yue, Riten Mitra, Yuan Ji, Peter Mueller

Publication date: 26 April 2013

Published in: Journal of the American Statistical Association (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1080/01621459.2012.746058

zbMATH Keywords

Markov chain Monte Carlo; network model; Markov random fields; autologistic regression; epigenetics; pathway dependence

Mathematics Subject Classification ID

62P10: Applications of statistics to biology and medical sciences; meta analysis

Related Items

Bayesian state space models for dynamic genetic network construction across multiple tissues, Bayesian graphical models for differential pathways, Nonparametric Bayesian learning of heterogeneous dynamic transcription factor networks, Reciprocal graphical models for integrative gene regulatory network analysis, Propriety conditions for the Bayesian autologistic model-inference for histone modifications, Bayesian nonparametric clustering for large data sets

Uses Software

• R
• pcalg

Cites Work

• Unnamed Item
• Reversible jump Markov chain Monte Carlo computation and Bayesian model determination
• Sparse inverse covariance estimation with the graphical lasso
• Autologistic models with interpretable parameters
• On Monte Carlo methods for estimating ratios of normalizing constants
• Monte Carlo methods in Bayesian computation
• Experiments in stochastic computation for high-dimensional graphical models
• A Statistical Framework for the Analysis of ChIP-Seq Data
• Learning Causal Bayesian Network Structures From Experimental Data
• A Statistical Framework for Expression-Based Molecular Classification in Cancer
• Modeling Protein Expression and Protein Signaling Pathways