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Education
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 BE Computer Science and Engineering, Tsinghua University, Beijing, China, 6/1993
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Ph.D. Computer Science, State University of New York at Stony Brook, 12/1997
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Academic Appointment, Affiliation, and Employment History
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Associate Professor of Biological Sciences, Computer Science and Mathematics, University of Southern California, 03/01/2006-
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Assistant Professor of Biological Sciences, Computer Science and Mathematics, University of Southern California, 09/01/2000-03/01/2006
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Lecturer and Research Fellow of Genetics, Harvard Medical School, 01/01/1997-01/01/2000
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Guest Research Associate of Biology, Brookhaven National Library, 01/01/1995-01/01/1998
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Description of Research
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Summary Statement of Research Interests
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Within the fields of computational biology and bioinformatics, Professor Chen seeks to apply computer algorithms and mathematical methods to answer questions in biology and medicine, specifically in studies of human genetics, proteomics, and genomics. Dr. Chen's research includes (1) analysis of variations of the human genome and their relationships to human diseases, (2) studies of functions and dynamic of large-scale biochemical netoworks inside the cell, and (3) identification of proteins through analyzing mass spectrometry data.
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Affiliations with Research Centers, Labs, and Other Institutions
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NIH Center of Excellence in Genome Sciences
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Center for Computational and Experimental Genomics,http://www-hto.usc.edu
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Publications
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Journal Article
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Jiang, R., Yang, H., Kuo, C. J., Sun, F., Chen, T.
(2007).
Sequence-based prioritization of nonsynonymous single nucleotide polymorphisms for the study of disease mutations. American Journal of Human Genetics..
Vol. 81 (2), pp. 346-60.
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Chen, T., Wan, Y., Yang, A.
(2006).
PepHMM: A hidden Markov model based scoring function for tandem mass spectrometry. Analytical Chemistry.
Vol. 78 (2), pp. 432-7.
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Zhidong, T., Wang, L., Arbeitman, M. N., Chen, T., Sun, F.
(2006).
An integrative approach for causal gene identification and expression regulatory pathway inference. Bioinformatics.
Vol. n/a
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Jiang, R., Tu, Z., Chen, T., Sun, F.
(2006).
Network Motif Identification in Stochastic Networks. The Proceeding of National Academy of Sciences.
Vol. 103 (2), pp. 9404-9.
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Zhang, K., Sun, F., Waterman, M., Chen, T.
(2003).
Haplotype block partition with limited resources and applications to human chromosome 21 haplotype data. American Journal of Human Genetics.
Vol. 73, pp. 63-73.
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Zhang, K., Deng, M., Chen, T., Waterman, M., Sun, F.
(2002).
A dynamic programming approach for haplotype partitioning. The Proceeding of National Academy of Sciences.
Vol. 99 (11), pp. 7335-9.
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Deng, M., Metah, S., Sun, F., Chen, T.
(2002).
nferring Domain-Domain Interactions from Protein-Protein Interactions. Genome Research.
Vol. 12, pp. 1540-8.
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Other
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Chen, T. Chen, T., Kao, M.Y., Tepel, M., Rush, J., and Church, G.M. A Dynamic Programming Approach to De Novo Peptide Sequencing via Tandem Mass Spectrometry. Journal of Computational Biology, Vol 8, Num 3, Page 325-337, 2001.
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Honors and Awards
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Sloan Research Fellowship, Alfred P. Sloan Fellowship in Evolutionary and Computational Biology, 2004
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