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Hans V. Westerhoff [7]Hans Westerhoff [3]H. Westerhoff [1]H. V. Westerhoff [1]
  1. Emergence and Its Place in Nature: A Case Study of Biochemical Networks.F. C. Boogerd, F. J. Bruggeman, Robert C. Richardson, Achim Stephan & H. 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.  29
    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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  3.  72
    Systems Biology: Philosophical Foundations.Fred C. Boogerd, Frank J. Bruggeman, Jan-Hendrik S. Hofmeyr & Hans V. Westerhoff (eds.) - 2007 - 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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  4.  41
    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.
  5. Biocomplexity: A Pluralist Research Strategy is Necessary for a Mechanistic Explanation of the "Live" State.F. J. Bruggeman, H. V. Westerhoff & F. C. Boogerd - 2002 - Philosophical Psychology 15 (4):411 – 440.
    The biological sciences study (bio)complex living systems. Research directed at the mechanistic explanation of the "live" state truly requires a pluralist research program, i.e. BioComplexity research. The program should apply multiple intra-level and inter-level theories and methodologies. We substantiate this thesis with analysis of BioComplexity: metabolic and modular control analysis of metabolic pathways, emergence of oscillations, and the analysis of the functioning of glycolysis.
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  6. 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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  7. Inter-Level Relations in Computer Science, Biology, and Psychology.Fred Boogerd, Frank Bruggeman, Catholijn Jonker, Huib Looren de Jong, Allard Tamminga, Jan Treur, Hans Westerhoff & Wouter Wijngaards - 2002 - Philosophical Psychology 15 (4):463–471.
    Investigations into inter-level relations in computer science, biology and psychology call for an *empirical* turn in the philosophy of mind. Rather than concentrate on *a priori* discussions of inter-level relations between 'completed' sciences, a case is made for the actual study of the way inter-level relations grow out of the developing sciences. Thus, philosophical inquiries will be made more relevant to the sciences, and, more importantly, philosophical accounts of inter-level relations will be testable by confronting them with what really happens (...)
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  8.  21
    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.
  9.  16
    BioComplexity and the Essence of the Living State.Oscar Somsen, Rienk van Grondelle & Hans Westerhoff - 1997 - Complexity 2 (5):3-4.
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  10.  38
    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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  11.  7
    Meeting Report-BioComplexity and the Essence of the Living State.Oscar Somsen, Rienk van Grondelle & Hans Westerhoff - 1997 - Complexity 2 (5):3-4.
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  12.  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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