Skip to main content
Log in

Part-whole science

  • Published:
Synthese Aims and scope Submit manuscript

Abstract

A scientific explanatory project, part-whole explanation, and a kind of science, part-whole science are premised on identifying, investigating, and using parts and wholes. In the biological sciences, mechanistic, structuralist, and historical explanations are part-whole explanations. Each expresses different norms, explananda, and aims. Each is associated with a distinct partitioning frame for abstracting kinds of parts. These three explanatory projects can be complemented in order to provide an integrative vision of the whole system, as is shown for a detailed case study: the tetrapod limb. My diagnosis of part-whole explanation in the biological sciences as well as in other domains exploring evolved, complex, and integrated systems (e.g., psychology and cognitive science) cross-cuts standard philosophical categories of explanation: causal explanation and explanation as unification. Part-whole explanation is itself one essential aspect of part-whole science.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  • Barrett H. C., Kurzban R. (2006) Modularity in cognition: Framing the debate. Psychological Review 113: 628–647

    Article  Google Scholar 

  • Bechtel W., Richardson R.C. (1993) Discovering complexity. Decomposition and localization as strategies in scientific research. Princeton University Press, Princeton

    Google Scholar 

  • Boogerd F. C., Bruggeman F. J., Richardson R. C., Stephan A., Westerhoff H. V. (2005) Emergence and its place in nature: A case study of biochemical networks. Synthese 145: 131–164

    Article  Google Scholar 

  • Boyd, R. (1999a). Kinds as the “workmanship of men”: Realism, constructivism, and natural kinds. In J. Nida-Rümelin (Ed.), Rationalität, realismus, revision: Proceedings of the third international congress, Gesellschaft für Analytische Philosophie (pp. 52–89). Berlin: de Gruyter.

  • Boyd R. (1999) Homeostasis, species, and higher taxa. In: Wilson R.A. (eds) Species. New interdisciplinary essays. MIT Press, Cambridge, pp 141–185

    Google Scholar 

  • Brigandt, I. (2009). Natural kinds in evolution and systematics: Metaphysical and epistemological considerations. (Vergara-Silva, F., & Winther, R. G., Eds.). Acta Biotheoretica, 57, 77–97.

  • Brooks R.A. (1997) Intelligence without representation. In: Haugeland J. (eds) Mind design II. Philosophy, psychology, artificial intelligence. MIT Press, Cambridge, pp 395–420

    Google Scholar 

  • Burke A. C., Feduccia A. (1997) Developmental patterns and the identification of homologies in the avian hand. Science 278: 666–668

    Article  Google Scholar 

  • Capdevila J., Izpisúa Belmonte J. C. (2001) Patterning mechanisms controlling vertebrate limb development. Annual Review of Cell and Developmental Biology 17: 87–132

    Article  Google Scholar 

  • Cartwright N. (1999) The dappled world. A study of the boundaries of science. Cambridge University Press, Cambridge, UK

    Google Scholar 

  • Colless D. H. (1985) On “character” and related terms. Systematic Zoology 34: 229–233

    Article  Google Scholar 

  • Craver C. (2007) Explaining the brain. Mechanisms and the mosaic unity of neuroscience. Oxford University Press, Oxford

    Google Scholar 

  • Crombie A.C. (1994) Styles of scientific thinking in the European tradition (3 Vols). Duckworth, London

    Google Scholar 

  • Cummins R. (1975) Functional analysis. Journal of Philosophy 72: 741–765

    Article  Google Scholar 

  • Cummins R. (1983) The nature of psychological explanation. MIT Press, Cambridge, MA

    Google Scholar 

  • Cummins R. (1999) “How does it work?” vs. “what are the laws?”: Two conceptions of psychological explanation. In: Keil F. C., Wilson R. A. (eds) Explanation and cognition. MIT Press, Cambridge, MA, pp 117–144

    Google Scholar 

  • Dupré J. (1993) The disorder of things. Metaphysical foundations of the disunity of science. Harvard University Press, Cambridge

    Google Scholar 

  • Dupré J. (2002) Is ‘natural kind’ a natural kind term?. The Monist 85: 29–49

    Google Scholar 

  • Emmeche C., Køppe S., Stjernfelt F. (1997) Explaining emergence: Towards an ontology of levels. Journal for General Philosophy of Science 28: 83–119

    Article  Google Scholar 

  • Feduccia A., Nowicki J. (2002) The hand of birds revealed by early ostrich embryos. Naturwissenschaften 89: 391–393

    Article  Google Scholar 

  • Forgacs G., Newman S.A. (2005) Biological physics of the developing embryo. Cambridge University Press, Cambridge

    Book  Google Scholar 

  • Friedman M. (1974) Explanation and scientific understanding. Journal of Philosophy 71: 5–19

    Article  Google Scholar 

  • Friedman M. (1983) Foundations of space-time theories. Relativistic physics and philosophy of science. Princeton University Press, Princeton

    Google Scholar 

  • Galis F., Kundrát M., Metz J. A. J. (2005) Hox genes, digit identities, and the theropod/bird transition. Journal of Experimental Zoology. Part B. Molecular and Developmental Evolution 304B: 198–205

    Article  Google Scholar 

  • Gerstl P., Pribbenow S. (1995) Midwinters, end games, and body-parts: A classification of part-whole relations. International Journal of Human-Computer Studies 43: 865–889

    Article  Google Scholar 

  • Gilbert S. F., Sarkar S. (2000) Embracing complexity: Organicism for the 21st century. Developmental Dynamics 219: 1–9

    Article  Google Scholar 

  • Ghiselin M. (1997) Metaphysics and the origin of species. State University of New York Press, Albany, NY

    Google Scholar 

  • Ghiselin M. (2005) Homology as a relation of correspondence between parts of individuals. Theory in Biosciences 124: 91–103

    Google Scholar 

  • Glennan S. (1996) Mechanisms and the nature of causation. Erkenntnis 44: 49–71

    Article  Google Scholar 

  • Glennan S. (2002) Rethinking mechanistic explanation. Philosophy of Science 69: S342–S353

    Article  Google Scholar 

  • Goodman N. (1978) Ways of worldmaking. Hackett Publishing Co, Indianapolis

    Google Scholar 

  • Goodwin B. (1994) How the leopard changed its spots. The evolution of complexity. Simon & Shuster, New York

    Google Scholar 

  • Goodwin B., Dawkins R. (1995) What is an organism?: A discussion. In: Thompson N. S. (eds) Perspectives in ethology. Volume 11: Behavioral design. Plenum Press, New York, pp 47–60

    Google Scholar 

  • Gould, S. J. (1980). The panda’s thumb. In S. J. Gould (Ed.), The panda’s thumb. Reflections in natural history (pp. 19–26). New York: W.W. Norton & Co.

  • Griffiths P.E. (1999) Squaring the circle: Natural kinds with historical essences. In: Wilson R.A. (eds) Species, New interdisciplinary essays. MIT Press, Cambridge, pp 209–228

    Google Scholar 

  • Guerrero McManus F. (2009) Rational disagreements in phylogenetics. (Vergara-Silva, F. & Winther, R. G., Eds.). Acta Biotheoretica 57: 99–127

    Article  Google Scholar 

  • Hacking I. (2002) Historical ontology. Cambridge University Press, Cambridge, MA

    Google Scholar 

  • Hacking I. (2007) Natural kinds: Rosy dawn, scholastic twilight. Royal Institute of Philosophy Supplements 61: 203–240

    Article  Google Scholar 

  • Hacking I. (2009) Scientific reason. National Taiwan University Press, Taipei

    Google Scholar 

  • Hall, B.K. (eds) (2007) Fins into limbs. Evolution, development, and transformation. University of Chicago Press,

    Google Scholar 

  • Hall B.K. (2007) Introduction. In: Hall B.K. (eds) Fins into limbs. Evolution, development, and transformation. University of Chicago Press, Chicago, pp 1–3

    Google Scholar 

  • Halonen I., Hintikka J. (2005) Toward a theory of the process of explanation. Synthese 143: 5–61

    Article  Google Scholar 

  • Harfe B. D., Scherz P. J., Nissim S., Tian H., McMahon A. P., Tabin C. J. (2004) Evidence for an expansion-based temporal Shh gradient in specifying vertebrate digit identities. Cell 118: 517–528

    Article  Google Scholar 

  • Haugeland J. (1997) What is mind design?. In: Haugeland J. (eds) Mind design II. Philosophy, psychology, artificial intelligence. MIT Press, Cambridge, pp 1–28

    Google Scholar 

  • Haugeland J. (1998) The nature and plausibility of cognitivism (1978). In: Haugeland J. (eds) Having thought. Essays in the metaphysics of mind. Harvard University Press, Cambridge, MA, pp 9–45

    Google Scholar 

  • Hentschel H. G. E., Glimm T., Glazier J. A., Newman S. A. (2004) Dynamical mechanisms for skeletal pattern formation in the vertebrate limb. Proceedings of the Royal Society of London. Series B 271: 1713–1722

    Article  Google Scholar 

  • Hull D. (1989) The metaphysics of evolution. State University of New York Press, Albany

    Google Scholar 

  • Hull D. (1992) The particular-circumstance model of scientific explanation. In: Nitecki M. H., Nitecki D. V. (eds) History and evolution. SUNY Press, Albany, NY, pp 69–80

    Google Scholar 

  • Kauffman, S. A. (1971). Articulation of parts explanation in biology and the rational search for them. In R. C. Buck & R. S. Cohen (Eds.), PSA 1970. (and Boston studies in the philosophy of science, Vol. 8) (pp. 257–272). Dordrecht: Reidel

  • Kauffman S.A. (1993) The origins of order. Self-organization and selection in evolution. Oxford University Press, Oxford

    Google Scholar 

  • Kearney M., Rieppel O. (2006) Rejecting “the given” in systematics. Cladistics 22: 369–377

    Article  Google Scholar 

  • Khalidi M. A. (1998) Natural kinds and crosscutting categories. Journal of Philosophy 95: 33–50

    Article  Google Scholar 

  • Kitcher P. (1981) Explanatory unification. Philosophy of Science 48: 251–281

    Article  Google Scholar 

  • Levins R., Lewontin R.C. (1985) The dialectical biologist. Harvard University Press, Cambridge

    Google Scholar 

  • Lewontin R. C. (1969) The bases of conflict in biological explanation. Journal of the History of Biology 2: 35–45

    Article  Google Scholar 

  • Lewontin R. C. (2001) Foreword. In: Wagner G. P. (eds) The character concept in evolutionary biology. Academic Press, San Diego, pp xvii–xxiii

    Chapter  Google Scholar 

  • Lewontin R. C., Levins R. (2007) Biology under the influence. Dialectical essays on ecology, agriculture, and health. Monthly Review Press, New York

    Google Scholar 

  • Longino H. (2001) The fate of knowledge. Princeton University Press, Princeton

    Google Scholar 

  • Love, A. (2009). Typology reconfigured: From the metaphysics of essentialism to the epistemology of representation. (Vergara-Silva, F., & Winther, R. G., Eds.). Acta Biotheoretica, 57, 51–75.

  • Lovejoy C. O., McCollum M. A., Reno P. L., Rosenman B. A. (2003) Developmental biology and human evolution. Annual Review of Anthropology 32: 85–109

    Article  Google Scholar 

  • Machamer P., Darden L., Craver C. (2000) Thinking about mechanisms. Philosophy of Science 67: 1–25

    Article  Google Scholar 

  • Martínez S. F. (1992) Objetividad contextual y robustez. Diánoia 38: 143–152

    Google Scholar 

  • Newman S. A., Müller G. B. (2000) Epigenetic mechanisms of character origination. Journal of Experimental Zoology. Part B. Molecular and Developmental Evolution 288: 304–317

    Article  Google Scholar 

  • Newman S. A., Müller G. B. (2005) Origination and innovation in the vertebrate limb skeleton: An epigenetic perspective. Journal of Experimental Zoology. Part B. Molecular and Developmental Evolution 304B: 593–609

    Article  Google Scholar 

  • Noë A. (2009) Out of our heads. Hill and Wang, New York

    Google Scholar 

  • Oster G. F., Shubin N., Murray J. D., Alberch P. (1988) Evolution and morphogenetic rules: The shape of the vertebrate limb in ontogeny and phylogeny. Evolution 42: 862–884

    Article  Google Scholar 

  • Pinker S. (2005) So how does the mind work?. Mind and Language 20: 1–24

    Article  Google Scholar 

  • Radder H. (2006) The world observed/the world conceived. University of Pittsburgh Press, Pittsburgh

    Google Scholar 

  • Richards R. J. (1992) The structure of narrative explanation in history and biology. In: Nitecki M. H., Nitecki D. V. (eds) History and evolution. SUNY Press, Albany, NY, pp 19–53

    Google Scholar 

  • Rieppel O. (1988) Fundamentals of comparative biology. Birkhauser Verlag AG, Basel, Switzerland

    Google Scholar 

  • Rieppel O. (2001) Preformationist and epigenetic biases in the history of the morphological character concept. In: Wagner G. P. (eds) The character concept in evolutionary biology. Academic Press, San Diego, pp 57–75

    Chapter  Google Scholar 

  • Rieppel O., Kearney M. (2007) The poverty of taxonomic characters. Biology and Philosophy 22: 95–113

    Article  Google Scholar 

  • Salmon W. C. (1990) Four decades of scientific explanation. University of Minnesota Press, Minneapolis

    Google Scholar 

  • Sarkar S. (1992) Models of reduction and categories of reductionism. Synthese 91: 167–194

    Article  Google Scholar 

  • Shapin S. (1996) The scientific revolution. University of Chicago Press, Chicago

    Google Scholar 

  • Shubin N. H. (1994) History, ontogeny, and evolution of the archetype. In: Hall B. K. (eds) Homology: The hierarchical basis of comparative biology. Academic Press, San Diego, pp 249–271

    Google Scholar 

  • Shubin N. H., Alberch P. (1986) A morphogenetic approach to the origin and basic organization of the tetrapod limb. Evolutionary Biology 20: 319–387

    Google Scholar 

  • Simon H.A. (1962) The architecture of complexity. Proceedings of the American Philosophical Society 106: 467–482

    Google Scholar 

  • Simons P. (1987) Parts. A study in ontology. Oxford University Press, Oxford

    Google Scholar 

  • Smith B. (eds). (1987). Foundations of gestalt theory. Munich, Philosophia

    Google Scholar 

  • Smith B., Varzi A. C. (1999) The niche. Noûs 33: 198–222

    Article  Google Scholar 

  • Smith L. B., Thelen E. (2003) Development as a dynamic system. Trends in Cognitive Sciences 7: 343–348

    Article  Google Scholar 

  • Sober E. (1988) Reconstructing the past. Parsimony, evolution, and inference. MIT Press, Cambridge

    Google Scholar 

  • Sober E. (2004) The contest between parsimony and likelihood. Systematic Biology 53: 644–653

    Article  Google Scholar 

  • Sober E. (2008) Evidence and evolution. The logic behind the science. Cambridge University Press, Cambridge

    Google Scholar 

  • Stjernfelt, F. (2007). Diagrammatology. An investigation on the borderlines of phenomenology, ontology, and semiotics. Synthese Library Vol. 336. Dordrecht, Netherlands: Springer.

  • Strevens M. (2004) The causal and unification accounts of explanation unified—causally. Noûs 38: 154–176

    Article  Google Scholar 

  • Tabery J. G. (2004) Synthesizing activities and interactions in the concept of a mechanism. Philosophy of Science 71: 1–15

    Article  Google Scholar 

  • Tanaka, M., & Tickle, C. (2007). The development of fins and limbs. In B. K. Hall (Ed.), Fins into limbs. Evolution, development, and transformation (pp. 65–78). Chicago: University of Chicago Press.

  • Thompson, D. ([1917] 1961). On growth and form. Abridged from 1917 edition by J. T. Bonner. Cambridge: Cambridge University Press.

  • Tickle C. (2003) Patterning systems—from one end of the limb to the other. Developmental Cell 4: 449–458

    Article  Google Scholar 

  • Tickle C. (2006) Making digit patterns in the vertebrate limb. Nature Reviews. Molecular Cell Biology 7: 45–53

    Article  Google Scholar 

  • Turing A. M. (1952) The chemical basis of morphogenesis. Philosophical Transactions of the Royal Society of London. Series B 237: 37–72

    Article  Google Scholar 

  • van Fraassen B. (1980) The scientific image. Oxford University Press, Oxford

    Book  Google Scholar 

  • Vargas A. O., Wagner G. P. (2009) Frame-shifts of digit identity in bird evolution and cyclopamine-treated wings. Evolution and Development 11: 162–168

    Google Scholar 

  • Vergara-Silva, F., & Winther, R. G. (Eds.). (2009). Symposium issue. Systematics, Darwinism, and the philosophy of science. Acta Biotheoretica 57(1–2), 1–307.

    Google Scholar 

  • Wagner G. P. (2005) The developmental evolution of avian digit homology: An update. Theory in Biosciences 124: 165–183

    Google Scholar 

  • Wagner G.P., Gauthier J.A. (1999) 1, 2, 3 = 2, 3, 4: A solution to the problem of the homology of the digits in the avian hand. Proceedings of the National Academy of Sciences 96: 5111–5116

    Article  Google Scholar 

  • Wagner G.P., Larsson H.C.E. (2007) Fins and limbs in the study of evolutionary novelties. In: Hall B.K. (eds) Fins into limbs. Evolution, development, and transformation. University of Chicago Press, Chicago, pp 49–61

    Google Scholar 

  • Weatherbee S.D., Niswander L.A. (2007) Mechanisms of chondrogenesis and osteogenesis in limbs. In: Hall B.K. (eds) Fins into limbs. Evolution, development, and transformation. University of Chicago Press, Chicago, pp 93–102

    Google Scholar 

  • Webster G., Goodwin B. (1996) Form and transformation. Generative and relational principles in biology. Cambridge University Press, Cambridge

    Google Scholar 

  • Winston M. E., Chaffin R., Herrmann D. (1987) A taxonomy of part-whole relations. Cognitive Science 11: 417–444

    Article  Google Scholar 

  • Wimsatt, W. C. (1974). Complexity and organization. In K. Schaffner & R. S. Cohen (Eds.), PSA 1972. (and Boston studies in the philosophy of science, Vol. 20) (pp. 67–86). Dordrecht: Reidel.

  • Wimsatt W.C. (2007) Re-engineering philosophy for limited beings. Piecewise approximations to reality. Harvard University Press, Cambridge

    Google Scholar 

  • Winther R. G. (2001) Varieties of modules: Kinds, levels, origins and behaviors. Journal of Experimental Zoology. Part B. Molecular and Developmental Evolution 291: 116–129

    Article  Google Scholar 

  • Winther R. G. (2006) Parts and theories in compositional biology. Biology and Philosophy 21: 471–499

    Article  Google Scholar 

  • Winther, R. G. (2007). Estilos de investigación científica, modelos e insectos sociales. In E. Suárez (Ed.), Variedad Infinita. Ciencia y representación. Un enfoque histórico y filosófico (pp. 55–89). Mexico City: UNAM and Editorial Limusa.

  • Winther R.G. (2008) Systemic Darwinism. Proceedings of the National Academy of Sciences 105: 11833–11838

    Article  Google Scholar 

  • Winther R. G. (2009a) Character analysis in cladistics: Abstraction, reification, and the search for objectivity. (Vergara-Silva, F. & Winther, R. G., Eds.). Acta Biotheoretica 57: 129–162

    Article  Google Scholar 

  • Winther, R. G. (2009b). Schaffner’s model of theory reduction: Critique and reconstruction. Philosophy of Science, 76.

  • Winther, R. G. (forthcoming a). Prediction in selectionist evolutionary theory. Philosophy of Science, 76.

  • Winther, R. G. (forthcoming b). Teorías, prácticas y estilos de investigación científica. In S. Martínez, X. Huang, & G. Guillaumin (Eds.), Filosofía de las prácticas científicas. Hacia una filosofía de la ciencia no centrada en teorías. Universidad Autónoma Metropolitana.

  • Wolpert L. (1969) Positional information and the spatial pattern of cellular differentiation. Journal of Theoretical Biology 25: 1–47

    Article  Google Scholar 

  • Woodger J. H. (1945) On biological transformations. In: Le Gros Clark W. E., Medawar P. B. (eds) Growth and form. Essays presented to D’Arcy Thompson. Clarendon Press, Oxford, pp 95–120

    Google Scholar 

  • Woodward J. (2003) Making things happen. A theory of causal explanation. Oxford University Press, Oxford

    Google Scholar 

  • Zhu J., Zhang Y. T., Newman S. A., Alber M. (2009) Application of discontinuous Galerkin methods for reaction-diffusion systems in developmental biology. Journal of Scientific Computing 40: 391–418

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Rasmus Grønfeldt Winther.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Winther, R.G. Part-whole science. Synthese 178, 397–427 (2011). https://doi.org/10.1007/s11229-009-9647-0

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11229-009-9647-0

Keywords

Navigation