A simplified metabolic network reconstruction to promote understanding and development of flux balance analysis tools. - Kristopher D. Rawls; Bonnie V. Dougherty; Edik M. Blais; Ethan Stancliffe; Glynis L. Kolling; Kalyan C. Vinnakota; Venkat R. Pannala; Anders Wallqvist; Jason A. Papin (Comput. Biol. Medicine, 2019)

Transcriptome-guided parsimonious flux analysis improves predictions with metabolic networks in complex environments. - Matthew L. Jenior; Thomas J. Moutinho Jr.; Bonnie V. Dougherty; Jason A. Papin (PLoS Comput. Biol., 2020)

Identifying metabolic adaptations characteristic of cardiotoxicity using paired transcriptomics and metabolomics data integrated with a computational model of heart metabolism. - Bonnie V. Dougherty; Connor J. Moore; Kristopher D. Rawls; Matthew L. Jenior; Bryan Chun; Sarbajeet Nagdas; Jeffrey J. Saucerman; Glynis L. Kolling; Anders Wallqvist; Jason A. Papin (PLoS Comput. Biol., 2024)