Genomics

Bayesian Graphical Models for Modern Biological Applications

A review of Bayesian graphical models for biological applications.

Bayesian Causal Structural Learning with Zero-Inflated Poisson Bayesian Networks

Zero-inflated Poisson Bayesian networks.

Heterogeneous Reciprocal Graphical Models

A hierarchical reciprocal graphical models to infer gene networks from heterogeneous data with or without known groups.

Reciprocal Graphical Models for Integrative Gene Regulatory Network Analysis

A Gaussian reciprocal graphical model for inference about gene regulatory relationships by integrating mRNA gene expression and DNA level information including copy number and methylation.

Sparse Multi-Dimensional Graphical Models: A Unified Bayesian Framework

An array-variate directed acyclic graphical model for tensor data.

Variance in Estimated Pairwise Genetic Distance Under High versus Low Coverage Sequencing: the Contribution of Linkage Disequilibrium

A dose insertion design for phase I/II clinical trials in oncology based on both efficacy and toxicity outcomes.

Bayesian Nonlinear Model Selection for Gene Regulatory Networks

A Bayesian directed acyclic graphical model to recover the structure of nonlinear gene regulatory networks.

Integrative Bayesian Network Analysis of Genomic Data

An integrative Bayesian network approach to investigate the relationships between genetic and epigenetic alterations as well as how these mutations affect a patient’s clinical outcome.