The Faculty


Translational computational research, system-level simulations of trauma and sepsis


University of Miami, Florida, BS, 1982-1984, Biology

University of Miami, Florida, MD, 1984-1988, Medicine

University of Illinois, Chicago, , 1988-1993, General Surgery

Cook County Hospital, Chicago, , 2002-2003, Surgical Critical Care


1999 Attending of the Year Teaching Award, Department of Emergency Medicine, Cook County Hospital

1999 Attending of the Year Teaching Award, Department of Surgery, Rush Medical School

2000 Attending of the Year Teaching Award, Department of Emergency Medicine, Cook County Hospital

2003 Attending of the Year Teaching Award, Department of Emergency Medicine, Cook County Hospital

2007 Outstanding Teaching Award, Department of Surgery, Northwestern University

2008 Outstanding Teaching Award, Department of Surgery. Northwestern University

2009 Outstanding Teaching Award, Department of Surgery, Northwestern University

2011 Excellence in Teaching Award, Department of Surgery, University of Chicago

Research Interests

I have over 10 years experience in the computational modeling of inflammation as it relates to sepsis, being the first researcher to publish on the use of agent-based modeling, a computer simulation method, in the area of acute inflammation and sepsis. I have partnered with collaborators at the University of Pittsburgh to expand and extend the use of mathematical modeling in the area of sepsis and acute inflammation and wound healing. More recently I have worked with John Alverdy at the University of Chicago on the role of host-pathogen interactions in the gut with respect to surgical diseases, such as gut-derived sepsis, necrotizing enterocolotis and anastomotic healing. I am also actively developing means of integrating regulatory network models with metabolic flux balance models. I am a co-Founder of the Society for Complexity in Acute Illness (, a scientific society designed to bring together laboratory scientists, clinical investigators and computational researchers to study systemic inflammation and acute disease. I have also, as an external collaborator of the National Center for Biomedical Ontology (, looked to extending agent-based modeling to link to bioinformatic knowledge representation as seen in bio-ontolgies with the goal of facilitating the use of dynamic computational modeling as a means of biomedical knowledge representation and communication. I am the developer and director of the Fellowship in Translational Systems Biology at the University of Chicago, a 1-2 year program intended to train biomedical researchers in computational methods of dynamic knowledge representation and agent-based modeling in conjunction with a basic science lab. I am also working on the use of artificial intelligence systems to aid in the semi-automation of model development. I am also involved in the application of evolutionary and ecological perspectives on the dynamics of the host-pathogen interactome, and, more basically, on foundational questions of biology.

Selected peer-reviewed publications

  1. An, G.  Agent Based Computer Simulation (ABCS) and SIRS: Building a Bridge between Basic Science and Clinical Trials.  Shock 2001; 16(4):  266-273.
  2. An, G.  In-Silico Experiments of Existing and Hypothetical Cytokine-Directed Clinical Trials using Agent Based Modeling.  Critical Care Medicine 2004; 32(10):2050-2060.
  3. An, G. Concepts for developing a collaborative in-silico model of the acute inflammatory response using agent based modeling. Journal of Critical Care 2006; 21(1): 105-110. PMID: 16616634 
  4. An, G., Faeder, J. and Vodovotz, Y.  A Review of Translational Systems Biology as applied to Inflammation: Introduction of an Engineering Approach to the Pathophysiology of the Burn Patient.  J Burn Care Res 2008; 29(2):277-285. PMID: 18354282 PMC 3640324
  5. Vodovotz, Y., Csete, M., Bartels, J., Chang, S. and An, G. Translational Systems Biology of Inflammation. PLoS Comput Biol 2008; 4(4): e1000014. doi:10.1371/journal.pcbi.1000014. PMID: 18437239 PMC 2329781
  6. An, G. Introduction of an agent-based multi-scale modular architecture for dynamic knowledge representation of acute inflammation.  Theoretical Biology and Medical Modelling 2008; 5:11 (May 27, 2008. PMID: 18505587 PMC2442588
  7. An G. A model of TLR4 signaling and tolerance using a qualitative, particle event-based method: Introduction of Spatially Configured Stochastic Reaction Chambers (SCSRC).  Mathematical Biosciences 2009; 217:43-52. PMID: 18950646 
  8. An, G, Mi, Q., Dutta-Moscato, J. and Vodovotz, Y. Agent-based models in translational systems biology. Wiley Interdisciplinary Reviews: Systems Biology and Medicine. Published Online: June 25, 2009.  Doi: 10:1002/wsbm.45. PMID: 20835989
  9. Chau, T.A., McCully, M.L., Brintnell, W., An G., Kasper, K.J., Haeryfar, S.M.M., McCormick, J.K., Cairns, E., Heinrichs, D.E. and Madrenas, J.  TLR2 Ligands on the Staphylococcal Cell Wall Down-regulate Superantigen-Induced T Cell Activation and Prevent Toxic Shock Syndrome. Nature Medicine 2009; 15:641-648. Doi: 10.1038/nm.1965 PMID: 19465927
  10. An, G. Translational Systems Biology using an Agent-based Approach for Dynamic Knowledge Representation: An Evolutionary Paradigm for Biomedical Research. Wound Repair and Regeneration.  Published Online: January 7, 2010. 18(1):8-12. Doi: 10.1111/j.1524-475X.2009.00568.x PMID: 20082675
  11. An, G.  Closing the scientific loop: Bridging correlation and causality in the petaflop age. Sci. Transl. Med. 2010.  2(41):41ps34. Doi: 10.1126/scitranslmed.3000390. PMID: 20650869
  12. Seal, J.B., Alverdy, J.C., Zaborina, O. and An, G. Agent-based dynamic knowledge representation of Pseudomonas aeruginosa virulence activation in the stressed gut: Towards characterizing host-pathogen interactions in gut-derived sepsis. Theoretical Biology and Medical Modelling, ePub September 19, 2011. 8(1):33. doi:10.1186/1742-4682-8-33. PMID: 21929759 PMC 3184268
  13. Kim, M., Christley, S., Alverdy, J.C., Liu, D. and An, G. Immature Oxidative Stress Management as Unifying Hypothesis in the Pathogenesis of Necrotizing Enterocolitis: Insights from an Agent-based Model. Surgical Infections. 2012. Feb; 13(1):18-32. Epub 2012, Jan 4. Doi:10.1089/sur.2011.057. PMID: 22217195 PMC 3292758
  14. Christley, S. and An, G. A proposal for augmenting biological model construction with a semi-intelligent computational modeling assistant. Computational and Mathematical Organization Theory. 2011. ePub November 4, 2011. 17(4). doi: 10.1007/s10588-011-9101-y
  15. Stern, J.R., Christley, S., Zaborina, O., Alverdy, J.C. and An, G. Integration of TGF- β and EGFR based signaling pathways using an agent-based modeling of epithelial restitution. Wound Repair and Regeneration. Epub ahead of print Oct 30, 2012. 20(6):862-3. Doi: 10.111.j.1524-475X.2012.00852.x. PMID: 23110640