A Perspective on the Role of Computational Models in Immunology

作者: Arup K. Chakraborty

DOI: 10.1146/ANNUREV-IMMUNOL-041015-055325

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摘要: This is an exciting time for immunology because the future promises to be replete with new discoveries that can translated improve health and treat disease in novel ways. Immunologists are attempting answer increasingly complex questions concerning phenomena range from genetic, molecular, cellular scales of organs, whole animals or humans, populations humans pathogens. An important goal understand how many different components involved interact each other within across these immune responses emerge, aberrant regulation processes causes disease. To aid this quest, large amounts data collected using high-throughput instrumentation. The nonlinear, cooperative, stochastic character interactions between system as well overwhelming make it difficult intuit patterns a mechanistic understanding being studied. Computational models confronting overcoming challenges. I first describe iterative paradigm research integrates laboratory experiments, clinical data, computational inference, models. then illustrate few examples recent literature vivid power bringing together diverse types experimental studies fruitfully interrogate system.

参考文章(181)
P. K. Chattopadhyay, M. Roederer, A mine is a terrible thing to waste: high content, single cell technologies for comprehensive immune analysis. American Journal of Transplantation. ,vol. 15, pp. 1155- 1161 ,(2015) , 10.1111/AJT.13193
Martin Meier-Schellersheim, G. Mack, SIMMUNE, a tool for simulating and analyzing immune system behavior arXiv: Multiagent Systems. ,(1999)
A. S. Perelson, Mihaela Oprea, Somatic mutation leads to efficient affinity maturation when centrocytes recycle back to centroblasts. Journal of Immunology. ,vol. 158, pp. 5155- 5162 ,(1997)
Lily A. Chylek, Leonard A. Harris, Chang-Shung Tung, James R. Faeder, Carlos F. Lopez, William S. Hlavacek, Rule-based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems. Wiley Interdisciplinary Reviews: Systems Biology and Medicine. ,vol. 6, pp. 13- 36 ,(2014) , 10.1002/WSBM.1245
Sun Taek Kim, Maki Touma, Koh Takeuchi, Zhen-Yu J. Sun, Vibhuti P. Dave, Dietmar J. Kappes, Gerhard Wagner, Ellis L. Reinherz, Distinctive CD3 Heterodimeric Ectodomain Topologies Maximize Antigen-Triggered Activation of αβ T Cell Receptors Journal of Immunology. ,vol. 185, pp. 2951- 2959 ,(2010) , 10.4049/JIMMUNOL.1000732
J. G. Jardine, T. Ota, D. Sok, M. Pauthner, D. W. Kulp, O. Kalyuzhniy, P. D. Skog, T. C. Thinnes, D. Bhullar, B. Briney, S. Menis, M. Jones, M. Kubitz, S. Spencer, Y. Adachi, D. R. Burton, W. R. Schief, D. Nemazee, Priming a broadly neutralizing antibody response to HIV-1 using a germline-targeting immunogen Science. ,vol. 349, pp. 156- 161 ,(2015) , 10.1126/SCIENCE.AAC5894
Shishi Luo, Alan S. Perelson, Competitive exclusion by autologous antibodies can prevent broad HIV-1 antibodies from arising Proceedings of the National Academy of Sciences of the United States of America. ,vol. 112, pp. 11654- 11659 ,(2015) , 10.1073/PNAS.1505207112
Hanna Sjölin-Goodfellow, Maria P. Frushicheva, Qinqin Ji, Debra A. Cheng, Theresa A. Kadlecek, Aaron J. Cantor, John Kuriyan, Arup K. Chakraborty, Arthur R. Salomon, Arthur Weiss, The catalytic activity of the kinase ZAP-70 mediates basal signaling and negative feedback of the T cell receptor pathway. Science Signaling. ,vol. 8, ,(2015) , 10.1126/SCISIGNAL.2005596
Lauren M. Childs, Edward B. Baskerville, Sarah Cobey, Trade-offs in antibody repertoires to complex antigens Philosophical Transactions of the Royal Society B. ,vol. 370, pp. 20140245- ,(2015) , 10.1098/RSTB.2014.0245