7 found
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  1.  37
    Emergence and its place in nature: a case study of biochemical networks.Fred C. Boogerd, Frank J. Bruggeman, Robert C. Richardson, Achim Stephan & Hans V. Westerhoff - 2005 - Synthese 145 (1):131-164.
    We will show that there is a strong form of emergence in cell biology. Beginning with C.D. Broad’s classic discussion of emergence, we distinguish two conditions sufficient for emergence. Emergence in biology must be compatible with the thought that all explanations of systemic properties are mechanistic explanations and with their sufficiency. Explanations of systemic properties are always in terms of the properties of the parts within the system. Nonetheless, systemic properties can still be emergent. If the properties of the components (...)
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  2.  80
    Systems Biology: Philosophical Foundations.Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (eds.) - 2007 - Boston: 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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  3.  46
    Towards philosophical foundations of Systems Biology: introduction.Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff - 2007 - In Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (eds.), Systems Biology: Philosophical Foundations. Elsevier.
  4.  27
    Afterthoughts as foundations for systems biology.Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff - 2007 - In Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (eds.), Systems Biology: Philosophical Foundations. Elsevier.
  5.  21
    The regulatory strength: How to be precise about regulation and homeostasis.Daniel Kahn & Hans V. Westerhoff - 1993 - Acta Biotheoretica 41 (1-2):85-96.
    The concepts of regulation and homeostasis are of frequent use but lack a single universally accepted definition. Here we propose a definition of theregulatory strength andhomeostatic strength, which allow to assess the importance of a regulatory pathway in a quantitative fashion.
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  6.  39
    Control involving metabolism and Gene expression.Hans V. Westerhoff & Daniel Kahn - 1993 - Acta Biotheoretica 41 (1-2):75-83.
    Control of DNA supercoiling by the free-energy of hydrolysis of ATP that involves gene expression is analyzed in terms of three levels of unconnected metabolic pathways. These are synthesis and breakdown of topoisomerase mRNAs, synthesis and breakdown of topoisomerase proteins and supercoiling and relaxation of DNA. The so-called square-matrix method previously developed for the control of metabolic pathways, is extended to deal with this hierarchical control system. It turns out that also in this case, the matrix of control coefficients is (...)
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  7. Macromolecular intelligence in microorganisms. [REVIEW]Frank J. Bruggeman, Wally C. Van Heeswijk, Fred Boogerd & Hans V. Westerhoff - 2000 - Biological Chemistry 381:965-972.
    Biochemistry and molecular biology have been focusing on the structural, catalytic, and regulatory proper- ties of individual macromolecules from the perspective of clarifying the mechanisms of metabolism and gene expression. Complete genomes of ‘primitive’ living organisms seem to be substantially larger than necessary for metabolism and gene expression alone. This is in line with the findings of silent phenotypes for supposedly important genes, apparent redundancy of functions, and variegated networks of signal transduction and transcription factors. Here we propose that evolutionary (...)
     
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