Feng Qi, Ph.D. Research Scientist I Computational Bioengineering Group Biotechnology and Bioengineering Center 8701 Watertown Plank Road Milwaukee, WI 53226-0509 (414)-955-2484 (414)-955-6568 (Fax) Email: fqi@mcw.edu

Education

• Ph.D. in Chemical Physics Dept. of Chemical Physics. University of Sci. & Tech. of China, July, 2003, Advisor: Prof. Houwen Xin
  Thesis: Investigation of Regulation Effects of Environment Fluctuation and Topological Disorder on Nonlinear Dynamics
• M.S. in Chemical Physic Dept. of Chemical Physics. University of Sci. & Tech. of China, July, 2000
• B.E. in Computer Engineering Dept. of Electronic Science and Technology. University of Sci. & Tech. of China, July, 1999
• B.E. in Polymer Physics Dept. of Polymer Science & Engineering. University of Sci. & Tech. of China, July, 1998

Research Interests

• Metabolic Network Analysis,
• Enzyme Kinetics, Modelling and Simulation
• Physiological Based Pharmacokinetics and Pharmacodynamics model development
• Stochastic Resonance/Pattern Formation

Selected Publications

• "Generating rate equations for complex enzyme systems by a computer-assisted systematic method", Qi F, Dash RK, Han Y and Beard DA, BMC Bioinformatics 2009, 10:238 doi:10.1186/1471-2105-10-238
• "BISEN: Biochemical Simulation Environment", Vanlier J, Wu F, QI FENG, et al. Bioinformatics, 25(6), 836, 2009 (PMID: 19244386)
• "A biophysically-based mathematical model for kinetics of mitochondrial calcium uniporter", Dash KR, QI FENG, Beard DA, Biophysical Journal, 96, 1318, 2009 (PMID: 19217850)
• "Detailed kinetics and regulation of mammalian NAD-linked isocitrate dehydrogenase",QI FENG, Chen X, and Beard DA, Biochim Biophys Acta. 2008 Jul 11 (PMID: 18672100)
• "Randomness enhances cooperation: a resonance type phenomenon in evolutionary games", Ren J., Wang W.X., QI FENG, Physical Review E Stat Nonlin Soft Matter Phys, 75, 045101(R), 2007 (PMID: 17500945)
• "Empirical study on clique-degree distribution of networks", Xiao WK, Ren J, QI FENG, etc., Physical Review E Stat Nonlin Soft Matter Phys. 2007 Sep;76(3 Pt 2):037102.
• "Directionality is an inherent property of biochemical networks", Yang F, QI FENG, Beard DA, q-bio/0701004
• "Analysis of partition, transport, and fluorescence of rhodamine-123 to determine mitochondrial membrance potential", Huang M., Camara A., QI FENG, Stowe, D.F., Beard D.A., FASEB J, 20(5): A1300, 2006.
• "Ordering Chaos by Random Shortcuts", QI FENG, Hou Zhonghuai, Xin Houwen, Physical Review Letters, 91, 2003, 064102.(It has been selected by Virtual Journal of Biological Physics Research. August 15, 2003, Volume 6, Issue 4)
• "New Scale-free Property of the Real Complex Networks", Xiao Weike, QI FENG, Song Zhiwei, Zhu Mengxiao, Yang Hongfeng, Jin Huiyu. cond-mat/0309395.
• "New Characterization of Disorder Taming Spatiotemporal Chaos", QI FENG, Hou Zhonghuai, Xin Houwen, Physics Letters A, 308(5-6), 2003, 405--410. (nlin.CD/0301022 )
• "Effects of Noise on the Off Rate of Ca2+ Binding Proteins in Coupled Biochemical Cell System", Zhang Jiqian, QI FENG, Xin Houwen. Biophysical Chemistry, 94, 2002, 201--207.
• "Internal Stochastic Resonance in a Model System for Intracellular Calcium Oscillation", Zhong Shi, QI FENG, Xin Houwen.Chemical Physics Letters, 342(5-6), 2001, 583--586.
• "Stochastic Resonance Induced by Fluctuation in Liquid Membrane Oscillator without Input Signals", QI FENG, Xin Houwen. Biophysical Chemistry, 90, 2001, 175--182.

Presentations and Abstracts

• "BISEN: Biochemical Simulation Environment" J. Vanlier, F. Wu, F. Qi, K.C. Vinnakota, Y. Han, R.K. Dash, J.A.L. Jeneson, N.A.W. van Riel, P.A.J. Hilbers, D.A. Beard, Alpbach, Austria, Conference Poster, 2009
• "Detailed kinetics and regulation of mamalian NAD-linked isocitrate dedydrogenase", QI Feng, Chen X.W., Beard D.A., BMES, 2008, St. Louis,
• "Multi-scale modeling of cardiac energy metabolism and myocardial substrate transport", SIAM, 2008.
• "The adenine nucleotide translocase operates near optimal efficiency at physiological state.", QI Feng, Wu F., Beard D.A., BMES, 2007, Los Angles, 40.
• "A thermodynamically balanced kinetic model of the mitochondrial calcum uni-porter.", QI Feng, Dash K.R., Beard D.A., BMES, 2007, Los Angles, 50.
• "Applications of thermodynamics in genome-scale constraint-based metabolic modeling.", Yang F., QI Feng, Beard D.A., BMES, 2007, Los Angles, 63.
• "Analysis of par- tition, transport, and fluorescence of rhodamine-123 to determine mitochondrial membrance potential", Huang M., Camara A., QI Feng, Stowe, D.F., Beard D.A., FASEB J, 20(5): A1300, 2006.
• "Multi-scale biochemical net-work and drug distribution modeling for screening metabolic interactions.", Yang F., QI Feng, Vinnakota K., Beard D.A., BMES, 2006, Chicago, 727.
• "Model-based analysis of the purine nucleotide cycle regulatory role in the muscle energy metabolism." QI Feng, Yang F., Qian H., Beard D.A., BMES, 2006, Chicago, 481.

Software Development

• IAP -  Systematic method to characterise AP by adjustable impulse function. (ongoing) 2009  
• KAPattern - A computer-assisted systematic method for deriving steady-state equations in enzyme systems. 2009
• BISEN: BIochemical Simulation ENvironment. 2008