Information for IMV Cluster

 

Ha Youn Lee

Assistant Professor of Biostatistics and Computational Biology
Ph.D. (2000) Seoul National University, Korea
 

Contact Information:

University of Rochester
Dept of Biostatistics and Computational Biology
601 Elmwood Avenue Box 630
Rochester, New York 14642
 
Office: Lattimore Medical Bldg 107
Phone: (585) 241-0710
Fax: (585) 256-2541
E-mail: hayoun@bst.rochester.edu
 

Modeling Immune Responses to Viral Infections

Research Description:

Dr. Lee is interested in the use of mathematical and computational modeling approaches to study viral pathogenesis and host immune responses to infection, with emphasis on HIV and highly pathogenic influenza viruses. Dr. Lee has been developing mathematical equations and computer simulations which can integrate experimental and clinical measures of virus replication and sequence diversification, as well as host immunity. Her research is supported by a newly (2009) funded NIH R01 award that focuses on the acute stage of HIV infection, and on defining vaccine-inducible host immune functions that can be expected to lead to containment of infection and long-term protection from disease. Major additional areas of interest in the laboratory include quantitative assessment on the roles of different immune components in controlling influenza virus infection. Students studying with Dr. Lee will be engaged as full scientific partners and will help to better define, improve and exploit models for virus infection, with the goal of using these models to develop improved vaccines and treatments. Prior experience in mathematics or computing is not necessary, and students can expect to participate in self-directed research that combines modeling approaches with hands-on experimentation or clinical data, in a collaborative setting.


Selected Publications

B.N. Bimber, P. Chugh, E.E. Giorgi, B. Kim, A.L. Almudevar, S. Dewhurst, D.H. O'Connor, H.Y. Lee.  Nef gene evolution from a single transmitted strain in acute SIV infection.  Retrovirology 6:57 (2009).

H.Y. Lee, E. Hawkins, M.S. Zand, T. Mosmann, H. Wu, P.D. Hodgkin, and A.S. Perelson.  Interpreting CFSE Obtained Division Histories of B cells In Vitro with Smith-Martin and Cyton Type Models.  Bull. Math. Biol. (in press).

H.Y. Lee, D.J. Topham, S.Y. Park, J. Treanor, T. Mosmann, X. Jin, B. Ward, H. Miao, A.S. Perelson, M. Zand, and H. Wu.  Simulation and Prediction of the Adaptive Immune Response to Influenza A Infection.  J. Virology 83:(2009).

H.Y. Lee, A.S. Perelson, S.C. Park, and T. Leitner.  Dynamic Correlation Between Intrahost HIV-1 Quasispecies Evolution and Disease Progression.  PLoS Comp. Biology, 4(12):e100240 (2008).

C. Beargie, T. Liu, M. Corriveau, H.Y. Lee, J. Gott, and R. Bundshuh.  Genome annotation in the presence of insertional RNA editing.  Bioinformatics 24:2571-2578 (2008).

B. Keele, E. Giorgi, J. Salazar-Gonzalez, J. Decker, K. Pham, M. Salazar, C. Sun, T. Grayson, S. Wang, H. Li, X. Wei, C. Jiang, J. Kirchherr, F. Gao, J. Anderson, L. Ping, R. Swanstrom, G. Tomaras, B. Blattner, P. Goepfert, E. Delwart, M. Busch, M. Cohen, D. Montefiori, B. Haynes, B. Gashen, G. Athreya, H.Y. Lee, N. Wood, C. Seoighe, A. Perelson, T. Bhattacharya, B. Korber, B. Hahn, and G. Shaw.  Identification and Characterization of Transmitted and Early Founder Virus Envelopes in Primary HIV-1 Infection.  Proc. Natl. Acad. Sci. 105:7552-7557 (2008).

J. M. Kilby, H. Y. Lee, J. D. Hazelwood,  A. Bansal, R. P. Bucy, M. S. Saag, G. M. Shaw,  E. P. Acosta, V. A. Johnson, A. S. Perelson, and P. A. Goepfert.  Treatment Response in Acute/Early Infection Versus Advanced AIDS:  Equivalent First and Second Phases of HIV RNA Decline, AIDS 22:957-962 (2008).

S.N. Gordon, R.M. Dunham, J.C. Engram, J. Estes, Z. Wang, N.R. Klatt, M. Paiardini, I.V. Pandrea, C. Apetrei, D.L. Sodora, H.Y. Lee, A.T. Haase, M.D. Miller, A. Kaur, S.I. Staprans, A.S. Perelson, M.B. Feinberg, and G. Silvestri.  Short-lived infected cells support virus replication in naturally SIV-infected sooty mangabeys: implications for AIDS pathogenesis.  J. Virology 82: 3725-3735 (2008).

H.Y. Lee and A.S. Perelson.  Modeling T cell Proliferation and Death In Vitro Based on Labeling Data: Generalization of the Smith-Martin Cell Cycle Model.  Bull. Math. Biol. 70: 21-44 (2008).

I. Maljkovic Berry, R. Ribeiro, M. Kothari, G. Athreya, M. Daniels, H.Y. Lee, W. Bruno, and T. Leitner.  Unequal evolutionary rates in the HIV-1 pandemic: The evolutionary rate of HIV-1 slows down when the epidemic rate increases.  J. Virology 81: 10625-10635 (2007).