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

model-based clusteringhierarchical modelPitman-Yor processcluster-specific gene networksDirichlet-multinomial allocationmultiplatform genomic datathresholding prior

Mathematics Subject Classification ID

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

Recommendations

• Reciprocal graphical models for integrative gene regulatory network analysis
• Bayesian graphical regression
• Bayesian graphical models for differential pathways
• Joint estimation of multiple related biological networks
• Node-based learning of multiple Gaussian graphical models

Cited in

(18)

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

This page was built for publication: Heterogeneous reciprocal graphical models

Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q3119882)