MR-5 2041a
​Box 800759, Health System
Charlottesville, VA 22908
Google Scholar Papin Lab


Jason Papin develops computational models of cellular networks and performs high-throughput experiments to characterize biological systems relevant to human disease. After his training in Bioengineering at the University of California, San Diego, Jason Papin joined the faculty at the University of Virginia in 2005. He is now a Professor in the Department of Biomedical Engineering.

His lab works on problems in systems biology, metabolic network analysis, infectious disease, toxicology, heart disease, and cancer, developing computational approaches for integrating high-throughput data into predictive computational models. He manages a lab with both experimental and computational activities and his research group has had continuous support with funding from the National Institutes of Health, National Science Foundation (including as a CAREER award recipient), Department of Defense, Department of Energy, and several private foundations and companies. Jason is an elected fellow of the Biomedical Engineering Society and the American Institute of Medical and Biological Engineering.

Jason serves as the Co-Editor-in-Chief of PLOS Computational Biology as well as on the editorial board of other journals. His service to the scientific community also includes effort as a past elected member of the Board of Directors of the Biomedical Engineering Society, previously as a standing member of the Biodata Management and Analysis (BDMA) NIH study section, and numerous other review panels of federal funding agencies.

His teaching and mentoring have been recognized with receipt of awards for excellence in undergraduate, graduate, and postdoctoral training. He is the past director of the Biomedical Engineering graduate program at the University of Virginia.

Jason’s work also involves many translational activities with recognition as an inventor on several issued patents and consulting with biotechology companies.


Ph.D. University of California, San Diego 2005

M.S. ​University of California, San Diego 2002

B.S. ​University of California, San Diego 2000

Network modeling of biological systems to predict drug targets and understand mechanisms of disease.

Jason Papin Professor

Research Interests

Biomedical Data Sciences
Computational Systems Biology
Quantitative Biosciences
Biotechnology and Biomolecular Engineering Biomolecular Design, Cellular and Molecular Bioengineering

Selected Publications

Network analysis of toxin production in Clostridioides difficile identifies key metabolic dependencies. PLOS Computational Biology. D.A. Powers, M.L. Jenior, G.L. Kolling, J.A. Papin
Reconstructor: a COBRApy compatible tool for automated genome-scale metabolic network reconstruction with parsimonious flux-based gap-filling. Bioinformatics. M. L. Jenior, E.M. Glass, J.A. Papin
Identifying functional metabolic shifts in heart failure with the integration of omics data and a heart-specific, genome-scale model. Cell Reports. B.V. Dougherty, K.D. Rawls, G.L. Kolling, K.C. Vinnakota, A. Wallqvist, J.A. Papin
Comparative analyses of parasites with a comprehensive database of genome-scale metabolic models. PLOS Computational Biology. M.A. Carey , G.L. Medlock, M. Stolarczyk, W.A. Petri Jr., J.L. Guler, J.A. Papin
Integrated Experimental and Computational Analyses Reveal Differential Metabolic Functionality in Antibiotic-Resistant Pseudomonas aeruginosa. Cell Systems. L.J. Dunphy, P. Yen, J.A. Papin