Mining, Modeling and Simulation of the Biomolecular Network

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CIS Colloquium, Oct 14, 2009, 11:00AM – 12:00PM, Wachman 447

Mining, Modeling and Simulation of the Biomolecular Network

Xiaohua (Tony) Hu, Drexel University

In this talk, we present a novel method to mine, model and evaluate the regulatory system which executes a cellular function, and can be represented as a biomolecular network. Our method consists of two steps. First, a novel scale-free network clustering approach is applied to the biomolecular network to obtain various sub-networks. Second, a computational model is generated for the sub-network and simulated to predict their behavior in the cellular context. We discuss and evaluate some of the advanced computational models, in particular, state-space model, probabilistic Boolean Network model, fuzzy logic model. The modeling results represent hypotheses that are tested against high-throughput datasets (microarrays and/or genetic screens) for both the natural system and perturbations. Experimental results on time-series gene expression data for the human cell cycle indicate our approach is promising for sub-network mining and simulation from large biomolecular network.

Xiaohua (Tony) Hu is currently an associate professor (early tenured in 2007) and the founding director of the data mining and bioinformatics lab at the College of Information Science and Technology, one of the best information science schools in USA. Tony is a scientist, teacher and entrepreneur. He joined Drexel University in 2002, founded the International Journal of Data Mining and Bioinformatics (SCI indexed) in 2006, International Journal of Granular Computing, Rough Sets and Intelligent Systems in 2008. Earlier, he worked as a research scientist in the world-leading R&D centers such as Nortel Research Center, GTE labs and HP Labs. In 2001, he founded the DMW Software in Silicon Valley, California. He has received prestigious awards including the 2005 National Science Foundation (NSF) Career award, the best paper award at the 2007 International Conference on Artificial Intelligence, and the best paper award at the 2004 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology. Tony received his Ph.D. in Computer Science from University of Regina, Canada 1995, M.Sc. in Computer Science from Simon Fraser University, Canada in 1992, M.Eng. in Computer Engineering from Institute of Computing Technology, Chinese Academy of Science in 1988 and B.Sc. (Software) from Wuhan University in 1985.