AMBIENT: Active Modules for Bipartite Networks - using high-throughput transcriptomic data to dissect metabolic response. - William A. Bryant; Michael J. E. Sternberg; John W. Pinney (BMC Syst. Biol., 2013)

Analysis of Metabolic Evolution in Bacteria Using Whole-Genome Metabolic Models. - William A. Bryant; Ali A. Faruqi; John W. Pinney (J. Comput. Biol., 2013)