Covariate-Adjusted Precision Matrix Estimation with an Application in Genetical Genomics.

Journal Article

Motivated by analysis of genetical genomics data, we introduce a sparse high dimensional multivariate regression model for studying conditional independence relationships among a set of genes adjusting for possible genetic effects. The precision matrix in the model specifies a covariate-adjusted Gaussian graph, which presents the conditional dependence structure of gene expression after the confounding genetic effects on gene expression are taken into account. We present a covariate-adjusted precision matrix estimation method using a constrained ℓ1 minimization, which can be easily implemented by linear programming. Asymptotic convergence rates in various matrix norms and sign consistency are established for the estimators of the regression coefficients and the precision matrix, allowing both the number of genes and the number of the genetic variants to diverge. Simulation shows that the proposed method results in significant improvements in both precision matrix estimation and graphical structure selection when compared to the standard Gaussian graphical model assuming constant means. The proposed method is also applied to analyze a yeast genetical genomics data for the identification of the gene network among a set of genes in the mitogen-activated protein kinase pathway.

Full Text

Duke Authors

Cited Authors

  • Cai, TT; Li, H; Liu, W; Xie, J

Published Date

  • March 2013

Published In

Volume / Issue

  • 100 / 1

Start / End Page

  • 139 - 156

PubMed ID

  • 28316337

Electronic International Standard Serial Number (EISSN)

  • 1464-3510

International Standard Serial Number (ISSN)

  • 0006-3444

Digital Object Identifier (DOI)

  • 10.1093/biomet/ass058

Language

  • eng