Joint estimation of multiple dependent Gaussian graphical models with applications to mouse genomics

DOI10.1093/BIOMET/ASW035zbMATH Open1506.62323arXiv1608.08659OpenAlexW2962898193WikidataQ42377359 ScholiaQ42377359MaRDI QIDQ5384408FDOQ5384408

Authors: Yuying Xie, Yufeng Liu, William Valdar 

Publication date: 24 June 2019

Published in: Biometrika (Search for Journal in Brave)

Abstract: Gaussian graphical models are widely used to represent conditional dependence among random variables. In this paper, we propose a novel estimator for data arising from a group of Gaussian graphical models that are themselves dependent. A motivating example is that of modeling gene expression collected on multiple tissues from the same individual: here the multivariate outcome is affected by dependencies acting not only at the level of the specific tissues, but also at the level of the whole body; existing methods that assume independence among graphs are not applicable in this case. To estimate multiple dependent graphs, we decompose the problem into two graphical layers: the systemic layer, which affects all outcomes and thereby induces cross- graph dependence, and the category-specific layer, which represents graph-specific variation. We propose a graphical EM technique that estimates both layers jointly, establish estimation consistency and selection sparsistency of the proposed estimator, and confirm by simulation that the EM method is superior to a simple one-step method. We apply our technique to mouse genomics data and obtain biologically plausible results.

Full work available at URL: https://arxiv.org/abs/1608.08659

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zbMATH Keywords

variable selectionEM algorithmGaussian graphical modelshrinkagesparsitymouse genomics

Mathematics Subject Classification ID

Asymptotic properties of parametric estimators (62F12) Applications of statistics to biology and medical sciences; meta analysis (62P10) Estimation in multivariate analysis (62H12) Probabilistic graphical models (62H22) Ridge regression; shrinkage estimators (Lasso) (62J07) Protein sequences, DNA sequences (92D20)

Cited In (10)

• On Joint Estimation of Gaussian Graphical Models for Spatial and Temporal Data
• Joint structural estimation of multiple graphical models
• Prioritizing Autism Risk Genes Using Personalized Graphical Models Estimated From Single-Cell RNA-seq Data
• Estimation of graphical models: an overview of selected topics
• Joint estimation of multiple graphical models
• Bayesian causal inference in probit graphical models
• Inferring multiple graphical structures
• A sparse conditional Gaussian graphical model for analysis of genetical genomics data
• On the application of Gaussian graphical models to paired data problems
• Comparing dependent undirected Gaussian networks

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