Systems Biology

Volume 13 of the series Topics in Current Genetics pp 143-159


Mechanistic and modular approaches to modeling and inference of cellular regulatory networks

  • Boris N. KholodenkoAffiliated withDepartment of Pathology, Anatomy and Cell Biology, Thomas Jefferson University, 1020 Locust St., Philadelphia, PA 19107 Email author 
  • , Frank J. BruggemanAffiliated withMolecular Cell Physiology & Integrative Bioinformatics, Biocentrum & Faculty of Earth and Life Sciences, De Boelelaan 1085, 1081 HV, Vrije Universiteit, Amsterdam
  • , Herbert M. SauroAffiliated withKeck Graduate Institute, 535 Watson Drive, Claremont, CA 91106, USA, and Control and Dynamical Systems, California Institute of Technology, Pasadena, CA 91125

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In this chapter we wish to present a vision of systems biology as a discipline that generates new insight and knowledge with quantitative and predictive explanatory power at the system level. We will review work that combines quantitative measurements and mathematical and computational modeling of signaling networks to link molecular mechanisms to physiological responses. An emerging synergistic modeling approach is presented that uses novel approaches to network inference, molecular dynamic simulations, chemical kinetics and reaction-diffusion equations, and functional modularization in biochemical networks.