Understanding biochemical networks will lead to revolutionary advances in medicine and biotechnology.

There is a pressing need for reconstructing and analyzing the biochemical networks that orchestrate cellular processes. Understanding how these biochemical networks function (and malfunction) will lead to revolutionary advances in medicine, biotechnology, and the understanding of fundamental biological processes.

The Computational Systems Biology Laboratory (CSBL) at the University of Virginia uses computational and experimental approaches to characterize biological systems relevant to human disease. In particular, we reconstruct integrated cellular networks and develop tools to analyze their properties. The analysis of these networks requires sophisticated computing capabilities and advanced experimental and mathematical techniques.


Meet The research team.

Principal Investigator

Dr. Jason Papin

Dr. Jason Papin is a Professor of Biomedical Engineering at the University of Virginia. His research interests include the integration of high-throughput data into predictive, computational models that can be used to interrogate metabolic and regulatory networks in microbial pathogens and human disease.

Research Faculty

Dr. Glynis Kolling


Dr. Glynis Kolling is an Assistant Professor of Research at the University of Virginia. Her research interests are aimed at understanding the how metabolism within the intestinal microbiota affects human health and the role of metabolism in various bacterial physiological states.

Postdoctoral Fellows

Debi Luzader


Debi is a Postdoctoral Fellow being co-mentored by Dr. Sean Moore in the Department of Pediatrics. Her research interests are aimed at understanding how host age and circadian rhythms influence the microbiota and the role this plays in bacterial infection. Debi received her BS in Genetics, Cell and Developmental Biology with a minor in Mathematics from Arizona State University and her PhD in Microbiology from the University of Virginia. Debi enjoys baking and running outdoors.

Matt Jenior


Matt is a Postdoctoral Fellow who recently obtained his Ph.D. in Microbiology & Immunology from the University of Michigan. Prior to graduate school he graduated with a BA in Biology and a minor in Chemistry from Hiram College. Matt is interested in modeling the metabolism of complex communities of bacteria using next-generation sequencing data in order to better understand context-dependent behavior of microbiome and host during disease. He enjoys walking his dog, playing video games, and eating great food.

Graduate Students

Anna Blazier


Anna is a senior graduate student currently studying therapeutic strategies to combat antibiotic resistance using a genome-scale metabolic network reconstruction of Pseudomonas aeruginosa. She studied both biomedical engineering and religious studies as an undergraduate at the University of Virginia.

Maureen Carey


Maureen is a fourth year microbiology graduate student, working jointly with Dr. Papin and Dr. Jenny G├╝ler. She studies the metabolic network of Plasmodium falciparum in order to investigate antimalarial drug resistance. She received her B.S. in biology from Lafayette College, and likes hiking and going to the farmer's market.

Bonnie Dougherty


Bonnie recently graduated from the University of Virginia with a degree in biomedical engineering. She is currently working on developing a novel plate reader for use in high-throughput screening of microbial pathogens. In her spare time, Bonnie enjoys spending time outdoors, especially hiking, biking, and skiing, as well as exploring Charlottesville with friends.

Laura Dunphy


Laura is a third-year graduate student studying the relationship between bacterial metabolism and the development of antibiotic resistance. She received her undergraduate degree in Biological Engineering from MIT. In her free time, Laura enjoys paddle boarding, snowboarding, and sailing with friends.

Greg Medlock


Greg is a fourth-year graduate student. He graduated from the University of Washington in 2014, where he studied bioengineering. He is currently developing models to understand community metabolism within the human gut microbiome. Outside the lab, he enjoys powerlifting and playing tennis.

Thomas Moutinho


Tom is a third-year graduate student studying microbial community metabolism related to human health and disease. He graduated from Worcester Polytechnic Institute in 2015, where he majored in biomedical engineering. For leisure, Tom enjoys hiking, skiing, and archery.

Kristopher Rawls


Kris is a current fourth year graduate student studying metabolic modeling of different organ systems in response to toxic compounds. He graduated from North Carolina State University in May 2014 and studied biomedical engineering, with a minor in math. Outside the lab Kris enjoys trying new restaurants, puzzling, and learning to cook new things.


J.C. Panagides


J.C. is a fourth-year undergraduate student majoring in Biomedical Engineering and minoring in Applied Mathematics. He is currently working with Tom to engineer a continuous-culture device to automate the process of culturing antibiotic-resistant bacteria. He is also studying the relationship between antibiotic resistance and oxidative stress from ionic silver on microbial populations which he started last year in South Africa. In his free time, he enjoys studying the ocean, playing piano, and traveling.

Ana Untaroiu


Ana is a fourth-year student majoring in Biomedical Engineering. She is working with Maureen on characterizing transcriptional and metabolic changes in antimalarial-resistant parasites. She enjoys hiking and playing tennis.

Dennis McDuffie


Dennis is a fourth-year undergraduate majoring in Biomedical Engineering and minoring in Spanish. He currently acts as lab manager and is working with Greg in studying bacterial interactions in the gut microbiome. In his free time, he enjoys running, hiking, and golfing.

Patrick Gelbach


Patrick is a fourth year undergraduate majoring in biomedical engineering and minoring in Computer Science and in Latin. He is working with Anna on researching the impact of the composition of the biomass objective function on in silico predictions for Genome-scale Metabolic Network Reconstructions. In his free time, he enjoys running, biking, and swimming.

Julia Hiser


Julia is a fourth-year student majoring in biomedical engineering. She is working with Anna on designing a genome-scale metabolic network model of Burkholderia cenocepacia tolerant cells. In her free time, she enjoys being outdoors and playing music.


Postdoctoral Researchers

We are actively looking for talented post-doctoral fellows. Excellent communication skills and a Ph.D. in bioengineering, bioinformatics, chemical engineering, biochemistry or molecular biology with strong experience in a quantitative field are required. Individuals with computational modeling and experimental systems biology expertise particularly relevant to the current project areas are especially encouraged to apply. If you are interested, please send a CV and brief statement of interest to Dr. Jason Papin.

Graduate Students

We are very interested in talented graduate students interested in working in the field of systems bioengineering. Contact Dr. Jason Papin, if interested.

Undergraduate Students

A variety of research projects are available for undergraduate volunteers in engineering or the life sciences. Contact Dr. Jason Papin, if interested.