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Liu, Lei
CAS Key Laboratory of System Biology

Research Focus
1. Computational Systems Biology: using ordinary differential equations, we establish mathematic models for biological systems, especially the metabolic networks and gene regulatory networks to study the stability and systems level behavior.
2. Epigenetic Regulation: we mainly focus on the roles of miRNA and DNA methylation in transcription regulation during stem cell differentiation and disease process
3. Biomedical informatics: we study the issues related to healthcare informatics, developing programs for medical informatics systems to enable translational medicine. We are developing knowledgebase for evidence-based medicine, clinical decision support systems and personalized medicine platforms.



05/1997   Ph.D. in Cell Biology   University of Connecticut, Storrs, CT
12/1994   M.S. in Biochemistry   University of Connecticut, Storrs, CT
06/1991   M.S. in Developmental Biology         Institute of Developmental Biology, Beijing, China
06/1988   B.S. in Genetics   Peking University, Beijing, China


06/2007-present Professor, Shanghai Institute for Biological Sciences/The Key Laboratory of Systems Biology, Chinese Academy of Sciences, Shanghai, China
07/2007-present Professor and Vice Director, Shanghai Center for Bioinformation Technology, Shanghai, China
10/2003-05/2007 Visiting Professor, Shanghai Center for Bioinformation Technology, Shanghai, China.
03/2002-05/2007 Scientist, National Center for Supercomputing Application (NCSA), University of Illinois at Urbana-Champaign, Urbana, Illinois.
05/2000-05/2007 Adjunct Assistant Professor, Department of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois.
02/1999-05/2007 Director of Bioinformatics, the W. M. Keck Center for Comparative and Functional Genomics, the University of Illinois, Urbana, Illinois.
06/1999-08/1999 Interim Director of High Throughput DNA Sequencing, W. M. Keck Center for Comparative and Functional Genomics, University of Illinois, Urbana, Illinois.
06/1997-01/1999  Postdoctoral Fellow, Department of Computer Science and Engineering, University of Connecticut, Storrs, Connecticut.


Selected Publications

1. An improved kinetic model for the acetone-butanol-ethanol pathway of Clostridium acetobutylicum and model-based perturbation analysis, Rudong Li, Yuanyuan Li, Ling-Yi Lu, Cong Ren, Yi-Xue Li, *Lei Liu, BMC Systems Biology,2011 (in press).
2. Using Pseudo Amino Acid Composition to Predict Protease Families by Incorporating a Series of Protein Biological Features, Lele Hu, Lulu Zheng, Zhiwen Wang, Bing Li, *Lei Liu, Protein & Peptide Letters, 2011 (in press).
3. The role of Hepatitis C Virus in the dynamic protein interaction networks of hepatocellular cirrhosis and carcinoma, Tao Huang, Lei Liu, Qi Liu, Guohui Ding, Yejun Tan, Zhidong Tu, Yixue Li, *Hongyue Dai, *Lu Xie, International Journal of Computational Biology and Drug Design, Inderscience, 4(1), pp 5-17,  2011.
4. Dysfunctional gene/protein networks in hepatitis C virus-induced hepatocellular cirrhosis and carcinoma, Huang, Tao, Ding, Guohui, Li, Yixue, Liu, Lei, Tan, Eugene, Dai, Hongyue, Liu, Qi, Tu, Zhidong, Xie, Lu, 2010 ACM International Conference on Bioinformatics and Computational Biology, ACM-BCB 2010, pp 502-507, 2010/8/2
5. ESCPP: An evaluation and alerting system for the compatibility between practice guidelines and practicing medicine using Arden syntax, Liu, Xingnan, Xu, Ye, Li, Zuofeng, Liu, Lei, Zhang, Xiaoyan, 1st International Conference on Information Science and Engineering, ICISE2009, pp 3649-3652, 2009/12/26
6. Comparison of AdaBoost and logistic regression for detecting colorectal cancer patients with synchronous liver metastasis, Wen, Jingran, Zhang, Xiaoyan, Xu, Ye, Li, Zuofeng, Liu, Lei, 2nd International Conference on Biomedical and Pharmaceutical Engineering, ICBPE 2009, 2009/12/2
7. Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms, Tu, Kang, Yu, Hui, Hua, You-Jia, Li, Yuan-Yuan, Liu, Lei, Xie, Lu, Li, Yi-Xue, Nucleic Acids Research, 37(18), pp 5969-5980,  2009/10

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