Heterogeneous reciprocal graphical models

DOI10.1111/BIOM.12791MaRDI QIDQ3119882zbMATH OpenOpenAlexWikidataFDO

Authors Yang Ni, P. Müller, Yitan Zhu, Yuan Ji

Publication date 13 March 2019

Published in Biometrics (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1612.06045

zbMATH Keywords

cluster-specific gene networksDirichlet-multinomial allocationhierarchical modelmodel-based clusteringmultiplatform genomic dataPitman-Yor processthresholding prior

Mathematics Subject Classification ID

Applications of graph theory (05C90) Classification and discrimination; cluster analysis (statistical aspects) (62H30) Applications of statistics to biology and medical sciences; meta analysis (62P10) Genetics and epigenetics (92D10)

Abstract: We develop novel hierarchical reciprocal graphical models to infer gene networks from heterogeneous data. In the case of data that can be naturally divided into known groups, we propose to connect graphs by introducing a hierarchical prior across group-specific graphs, including a correlation on edge strengths across graphs. Thresholding priors are applied to induce sparsity of the estimated networks. In the case of unknown groups, we cluster subjects into subpopulations and jointly estimate cluster-specific gene networks, again using similar hierarchical priors across clusters. We illustrate the proposed approach by simulation studies and two applications with multiplatform genomic data for multiple cancers.

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Cited in

(19)

• Updating of the Gaussian graphical model through targeted penalized estimation
• Tuning-free heterogeneous inference in massive networks
• Reciprocal graphical models for integrative gene regulatory network analysis
• Heterogeneity adjustment with applications to graphical model inference
• Theory of optimal Bayesian feature filtering
• Bayesian multistudy factor analysis for high-throughput biological data
• Bayesian joint inference for multiple directed acyclic graphs
• Bayesian graphical models for modern biological applications
• A simple proof of Pitman-Yor's Chinese restaurant process from its stick-breaking representation
• Stochastic approximations to the Pitman-Yor process
• Graphical models for zero-inflated single cell gene expression
• Scalable Bayesian Nonparametric Clustering and Classification
• Identifying modularity structure of a genetic network in gene expression profile data
• Bayesian graphical regression
• Modeling Network Populations via Graph Distances
• A random covariance model for bi‐level graphical modeling with application to resting‐state fMRI data
• Truncated two-parameter Poisson-Dirichlet approximation for Pitman-Yor process hierarchical models
• Bayesian graphical modeling for heterogeneous causal effects
• SELF-Tree: an interpretable model for multivariate causal direction heterogeneity analysis

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