On the frequency of copy number variants. - Iuliana Ionita-Laza; Nan M. Laird; Benjamin A. Raby; Scott T. Weiss; Christoph Lange 003 (Bioinform., 2008)

Data structures and algorithms for analysis of genetics of gene expression with Bioconductor: GGtools 3.x. - Vincent J. Carey; Adam R. Davis; Michael F. Lawrence; Robert Gentleman; Benjamin A. Raby (Bioinform., 2009)

A graphical model approach for inferring large-scale networks integrating gene expression and genetic polymorphism. - Jen-hwa Chu; Scott T. Weiss; Vincent J. Carey; Benjamin A. Raby (BMC Syst. Biol., 2009)

Quantifying differential gene connectivity between disease states for objective identification of disease-relevant genes. - Jen-hwa Chu; Ross Lazarus; Vincent J. Carey; Benjamin A. Raby (BMC Syst. Biol., 2011)

Copy number variation genotyping using family information. - Jen-hwa Chu; Angela J. Rogers; Iuliana Ionita-Laza; Katayoon Darvishi; Ryan Mills; Charles Lee; Benjamin A. Raby (BMC Bioinform., 2013)

Analyzing networks of phenotypes in complex diseases: methodology and applications in COPD. - Jen-hwa Chu; Craig P. Hersh; Peter J. Castaldi; Michael H. Cho; Benjamin A. Raby; Nan M. Laird; Russell Bowler; Stephen I. Rennard; Joseph Loscalzo; John Quackenbush; Edwin K. Silverman (BMC Syst. Biol., 2014)

A Weakly Supervised Transformer to Support Rare Disease Diagnosis from Electronic Health Records: Methods and Applications in Rare Pulmonary Disease. - Kimberly F. Greco; Zongxin Yang; Mengyan Li; Han Tong; Sara Morini Sweet; Alon Geva; Kenneth D. Mandl; Benjamin A. Raby; Tianxi Cai (CoRR, 2025)