B.S. ​University of California, San Diego 2000M.S. ​University of California, San Diego 2002Ph.D. University of California, San Diego 2005

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

Jason Papin, Professor

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.


  • Harrison Distinguished Teaching Professor 2021
  • Fellow, Biomedical Engineering Society 2018
  • Kadner Award for Outstanding Graduate Teaching 2017
  • Fellow, American institute of Medical and Biological Engineering 2016
  • National Science Foundation CAREER Award 2007

Research Interests

  • Biomedical Data Sciences
  • Computational Systems Biology
  • Quantitative Biosciences
  • Biotechnology and Biomolecular Engineering (Biomolecular Design, Cellular and Molecular Bioengineering)
UVa BME Professor Jason Papin has a new NIH RO1

Jason Papin, Professor of Biomedical Engineering, develops computational models of cellular networks and performing high-throughput experiments to characterize biological systems relevant to human disease, with a focus on infectious disease, toxicology, and cancer.

In the News

Selected Publications

  • Network analysis of toxin production in Clostridioides difficile identifies key metabolic dependencies ABS PLOS Computational Biology
  • Reconstructor: a COBRApy compatible tool for automated genome-scale metabolic network reconstruction with parsimonious flux-based gap-filling ABS Bioinformatics
  • Identifying functional metabolic shifts in heart failure with the integration of omics data and a heart-specific, genome-scale model ABS Cell Reports
  • Comparative analyses of parasites with a comprehensive database of genome-scale metabolic models ABS PLOS Computational Biology
  • Integrated Experimental and Computational Analyses Reveal Differential Metabolic Functionality in Antibiotic-Resistant Pseudomonas aeruginosa ABS Cell Systems

Courses Taught

  • BME 4550 Microbial Biomedical Engineering
  • BME 6310 Computation and Modeling in Biomedical Engineering
  • BME 4315/6315 Systems Bioengineering and Multi-Scale Models
  • BME 6056 BME Going Pro