title: A Perspective on the Role of Computational Models in Immunology.
abstract: This is an exciting time for immunology because the future promises to be replete with exciting new discoveries that can be translated to improve health and treat disease in novel ways. Immunologists are attempting to answer increasingly complex questions concerning phenomena that range from the genetic, molecular, and cellular scales to that of organs, whole animals or humans, and populations of humans and pathogens. An important goal is to understand how the many different components involved interact with each other within and across these scales for immune responses to emerge, and how aberrant regulation of these processes causes disease. To aid this quest, large amounts of data can be collected using high-throughput instrumentation. The nonlinear, cooperative, and stochastic character of the interactions between components of the immune system as well as the overwhelming amounts of data can make it difficult to intuit patterns in the data or a mechanistic understanding of the phenomena being studied. Computational models are increasingly important in confronting and overcoming these challenges. I first describe an iterative paradigm of research that integrates laboratory experiments, clinical data, computational inference, and mechanistic computational models. I then illustrate this paradigm with a few examples from the recent literature that make vivid the power of bringing together diverse types of computational models with experimental and clinical studies to fruitfully interrogate the immune system.
authors.affiliation: Institute for Medical Engineering and Science, Departments of Chemical Engineering, Physics, Chemistry, and Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139; email: arupc@mit.edu.|Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts 02139.
authors.forename: Arup K
authors.initials: AK
authors.lastname: Chakraborty
mesh_terms: D000818:Animals; D035843:Biomedical Research; D019295:Computational Biology; D003198:Computer Simulation; D057166:High-Throughput Screening Assays; D006801:Humans; D018448:Models, Immunological; D015166:Monitoring, Immunologic / Q000379:methods; D011948:Receptors, Antigen, T-Cell / Q000235:genetics; D015398:Signal Transduction; D013601:T-Lymphocytes / Q000276:immunology*; D014612:Vaccines / Q000276:immunology*
chemical_list: D011948:Receptors, Antigen, T-Cell; D014612:Vaccines
keywords: T cell repertoire; computational immunology; immune monitoring; signaling; vaccine design