Differential Gene Set Enrichment Analysis: a statistical approach to quantify the relative enrichment of two gene sets. - James H. Joly; William E. Lowry; Nicholas A. Graham (Bioinform., 2021)

The landscape of metabolic pathway dependencies in cancer cell lines. - James H. Joly; Brandon T. L. Chew; Nicholas A. Graham (PLoS Comput. Biol., 2021)

Kinetic and data-driven modeling of pancreatic β-cell central carbon metabolism and insulin secretion. - Patrick E. Gelbach; Dongqing Zheng; Scott E. Fraser; Kate L. White; Nicholas A. Graham; Stacey D. Finley (PLoS Comput. Biol., 2022)

Drug mechanism enrichment analysis improves prioritization of therapeutics for repurposing. - Belinda B. Garana; James H. Joly; Alireza Delfarah; Hyunjun Hong; Nicholas A. Graham (BMC Bioinform., 2023)