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  1. Fred C. Boogerd, Frank J. Bruggeman, Robert C. Richardson, Achim Stephan & Hans V. Westerhoff (forthcoming). » Emergence and its Place in Nature: A Case Study of Biochemical Networks «, Erscheint In. Synthese.
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  2. Fred C. Boogerd, Frank J. Bruggeman & Robert C. Richardson (2013). Mechanistic Explanations and Models in Molecular Systems Biology. Foundations of Science 18 (4):725-744.
    Mechanistic models in molecular systems biology are generally mathematical models of the action of networks of biochemical reactions, involving metabolism, signal transduction, and/or gene expression. They can be either simulated numerically or analyzed analytically. Systems biology integrates quantitative molecular data acquisition with mathematical models to design new experiments, discriminate between alternative mechanisms and explain the molecular basis of cellular properties. At the heart of this approach are mechanistic models of molecular networks. We focus on the articulation and development of mechanistic (...)
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  3. Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (2007). Afterthoughts as Foundations for Systems Biology. In Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (eds.), Systems Biology: Philosophical Foundations. Elsevier.
  4. Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (eds.) (2007). Systems Biology: Philosophical Foundations. Elsevier.
    Systems biology is a vigorous and expanding discipline, in many ways a successor to genomics and perhaps unprecendented in its combination of biology with a ...
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  5. Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (2007). Towards Philosophical Foundations of Systems Biology: Introduction. In Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (eds.), Systems Biology: Philosophical Foundations. Elsevier.
  6. Frank J. Bruggeman (2007). Systems Biology: At Last an Integrative Wet and Dry Biology. Biological Theory 2 (2):183-188.
    The progress of the molecular biosciences has been so enormous that a discipline studying how cellular functioning emerges out of the behaviors of their molecular constituents has become reality. Systems biology studies cells as spatiotemporal networks of interacting molecules using an integrative approach of theory , experimental biology , and quantitative network-wide analytical measurement . Its aim is to understand how molecules jointly bring about life. Systems biology is rapidly discovering principles governing the functioning of molecular networks and methods to (...)
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