In this paper I respond to Wim van der Steen''s arguments against the supposed current overemphasis on norms ofcoherence andinterdisciplinary integration in biology. On the normative level, I argue that these aremiddle-range norms which, although they may be misapplied in short-term attempts to solve (temporarily?) intractable problems, play a guiding role in the longer-term treatment of biological problems. This stance is supported by a case study of apartial success story, the development of the one gene — one enzyme hypothesis. As (...) that case shows, thegoal of coherent interdisciplinary integration not only provides guidance for research, but also provides the standard for recognizingfailed integrations of the sort that van der Steen criticizes. (shrink)

Many studies of the unification of science focus on the theories of different disciplines. The model for integration is the theory reduction model. This paper argues that the embodiment of theories in scientists, and the institutions in which scientists work and the instruments they employ, are critical to the sort of integration that actually occurs in science. This paper examines the integration of scientific endeavors that emerged in cell biology in the period after World War II when the development of (...) cell fractionation and electron microscopy made serious investigations of cell organelles possible. One surprising feature of such integration is that it generated further disintegration as the new institutions of cell biology separated the practitioners of the new discipline from other, closely related biological disciplines. (shrink)

The official model of explanation proposed by the logical empiricists, the covering law model, is subject to familiar objections. The goal of the present paper is to explore an unofficial view of explanation which logical empiricists have sometimes suggested, the view of explanation as unification. I try to show that this view can be developed so as to provide insight into major episodes in the history of science, and that it can overcome some of the most serious difficulties besetting the (...) covering law model. (shrink)

As a working hypothesis for philosophy of science, the unity of science thesis has been decisively challenged in all its standard formulations; it cannot be assumed that the sciences presuppose an orderly world, that they are united by the goal of systematically describing and explaining this order, or that they rely on distinctively scientific methodologies which, properly applied, produce domain-specific results that converge on a single coherent and comprehensive system of knowledge. I first delineate the scope of arguments against global (...) unity theses. However implausible old-style global unity theses may now seem, I argue that unifying strategies of a more local and contingent nature do play an important role in scientific inquiry. This is particularly clear in archaeology where, to establish evidential claims of any kind, practitioners must exploit a range of inter-field and inter-theory connections. At the same time, the robustness of these evidential claims depends on significant disunity between the sciences from which archaeologists draw background assumptions and auxiliary hypotheses. This juxtaposition of unity with disunity poses a challenge to standard positions in the debate about scientific unity. (shrink)

There are a variety of topics in the philosophy of science that need to be rethought, in varying degrees, after one pays careful attention to the ways in which computer simulations are used in the sciences. There are a number of conceptual issues internal to the practice of computer simulation that can benefit from the attention of philosophers. This essay surveys some of the recent literature on simulation from the perspective of the philosophy of science and argues that philosophers have (...) a lot to learn by paying closer attention to the practice of simulation. (shrink)

Explanatory unification—the urge to “explain much by little”—serves as an ideal of theorizing not only in natural sciences but also in the social sciences, most notably in economics. The ideal is occasionally challenged by appealing to the complexity and diversity of social systems and processes in space and time. This article proposes to accommodate such doubts by making a distinction between two kinds of unification and suggesting that while such doubts may be justified in regard to mere derivational unification (which (...) serves as a formal constraint on theories), it is less justified in the case of ontological unification (which is a result of factual discovery of the actual degree of underlying unity in the world). (shrink)

One foundational question in contemporarybiology is how to `rejoin evolution anddevelopment. The emerging research program(evolutionary developmental biology or`evo-devo) requires a meshing of disciplines,concepts, and explanations that have beendeveloped largely in independence over the pastcentury. In the attempt to comprehend thepresent separation between evolution anddevelopment much attention has been paid to thesplit between genetics and embryology in theearly part of the 20th century with itscodification in the exclusion of embryologyfrom the Modern Synthesis. This encourages acharacterization of evolutionary developmentalbiology as the marriage (...) of evolutionary theoryand embryology via developmental genetics. Butthere remains a largely untold story about thesignificance of morphology and comparativeanatomy (also minimized in the ModernSynthesis). Functional and evolutionarymorphology are critical for understanding thedevelopment of a concept central toevolutionary developmental biology,evolutionary innovation. Highlighting thediscipline of morphology and the concepts ofinnovation and novelty provides an alternativeway of conceptualizing the `evo and the `devoto be synthesized. (shrink)

The question is discussed how noise gained a functional meaning in the context of biology. According to the common view, noise is considered a disturbance or perturbation. I analyze how this understanding changed and what kind of developments during the last 10 years contributed to the emergence of a new understanding of noise. Results gained during a field study in a synthetic biology laboratory show that the emergence of this new research discipline—its highly interdisciplinary character, its new technologies and novel (...) modeling strategies—provided essential impulses, which led to the observed change in the concept of noise. The laboratory study is combined with a historical analysis, which explores the general question as to how concepts travel between disciplines and, specifically, how noise was transferred from engineering and physics into biology. In the past, scientists, such as Lotka and Goodwin, tried to introduce a statistical mechanics into biology and discussed the problem of “unfitting” concepts. The change in the meaning of the concept can be interpreted as a way of making it fit to the novel context in which it is applied. (shrink)

Experiment, instrumentation, and procedures of measurement, the body of practices and technologies forming the technical culture of science, have received at most a cameo appearance in most histories. For the history of science is almost always written as the history of theory. Of course, the interpretation of science as dominated by theory was the main pillar of the critique, launched by Kuhn, Quine, Hanson, Feyerabend, and others, of the positivist and logical empiricist traditions in the philosophy of science. Against Carnap, (...) Hempel, Nagel, and Popper, who accorded observation reports an independent status either as a source of inductive support or as a basis for the falsification of scientific theories, Hanson and Kuhn emphasized the theory-ladenness of observation. They made this central point – that all observation is shaped by reference to theory – the cornerstone of a full-blown philosophy of science by buttressing it with two additional lines of argument: First, theories are always underdetermined by the data, several theories being compatible with the same set of data. Hence, choice between theories is never a matter of empirical support, but always turns around conceptual issues. Second, statements derived from theory never confront nature alone; they are always clothed in a web of interrelated beliefs. Thus, theories, their associated observation languages, and the entire technical culture they support must be accepted or rejected as wholes. (shrink)

It is considered in some quarters that hypothesis‐driven methods are the only valuable, reliable or significant means of scientific advance. Data‐driven or ‘inductive’ advances in scientific knowledge are then seen as marginal, irrelevant, insecure or wrong‐headed, while the development of technology—which is not of itself ‘hypothesis‐led’ (beyond the recognition that such tools might be of value)—must be seen as equally irrelevant to the hypothetico‐deductive scientific agenda. We argue here that data‐ and technology‐driven programmes are not alternatives to hypothesis‐led studies in (...) scientific knowledge discovery but are complementary and iterative partners with them. Many fields are data‐rich but hypothesis‐poor. Here, computational methods of data analysis, which may be automated, provide the means of generating novel hypotheses, especially in the post‐genomic era. BioEssays 26:99–105, 2004. © 2003 Wiley Periodicals, Inc. (shrink)

Using the occasion of the publication of a Blackwell anthology in the philosophy of technology, Philosophy of Technology: The Technological Condition (2003), as a key to the contemporary role of this subdiscipline, this article reviews the current state-of-this-art. Both philosophy of science and philosophy of technology are twentieth century inventions, but each has followed a somewhat different set of philosophical traditions and pursued sometimes divergent questions. Here the primary developments of recent philosophy of technology are examined with emphasis upon issues (...) which might also be of greater interest to philosophers of science. These include epistemological, but also environmental and cultural issues. The bibliographical spread includes references to some fifty recent books in the field. (shrink)

This paper argues that conceptualizing unity as "interconnection" (rather than reduction) provides a more fruitful and versatile framework for the philosophical study of scientific unification. Building on the work of Darden and Maull, Kitcher, and Kincaid, I treat unity as a relationship between fields: two fields become more integrated as the number and/or significance of interfield connections grow. Even when reduction fails, two theories or fields can be unified (integrated) in significant ways. I highlight two largely independent dimensions of unification. (...) Fields are theoretically unified to the extent that we understand how the ontologies, concepts, and generalizations of these fields are connected. (Reductionism is one form of theoretical unity, but not the only form). Fields are practically unified through heuristic connections (e.g., using the heuristics of one field to generate hypotheses in another field) and by the development of methods for integrating the qualitatively distinct bodies of data generated by the two fields. I discuss the relationship between paleontological and neontological systematics to illustrate the utility of conceptualizing unity as interconnection. (shrink)

The most immediate reason why chemists are unenthusiastic about the philosophy of science is the historic hostility of important philosophers, to the concept of atoms. (Without atoms, discovery in chemistry would have proceeded with glacial slowness, if at all, in the last 200 years.) Other important reasons include the anti-realist influence of the philosophical dogmas of logical positivism, instrumentalism, of strict empiricism. Though (as has been said) these doctrines have recently gone out of fashion, they are still very influential.A diagram (...) of the methodology of experimental research is proposed, in the form of a flow sheet, with feedback. The model is developed as a multi-level expansion of a diagram of the hypothetico-deductive model. It recognizes that strong mutual support, or interlocking, of research endeavors is important, at the underlying level or levels where explanatory causation contributes to scientific understanding. (Mutual support at the laboratory level is generally weak or trivial.) The multiplicity of explanatory levels, and the interlocking, point to solutions to some well-known problems, such as the origin of the hypotheses, and even a resolution to the underdetermination problem. (shrink)

The ArgumentBehind the dispute over the relative priority of theory and experiment lie conflicting philosophical images of the nature of scientific inquiry. One crucial image arose in the 1920s, when the logical positivists agitated for a “unity of science” that would ground all meaningful scientific activity on an observational foundation. Their goals and rhetoric dovetailed with the larger movements of architectural, literary, and philosophical modernism. Historians of science followed the positivists by tracking experimental science as the basis for scientific progress. (...) After World War II, historians and philosophers of science created an antipositivist movement, inverting the positivist idea that observation had epistemic priority. But this counter-movement retained the modernist aspiration to unity, now chaining observation to theory. Once again historians of science, following their philosophical colleagues, illustrated the new modernism with historical instances of observation dominated by theory.Either reductionist scheme, by privileging one activity over the other, dictates an overly constrictive periodization. We need a wider class of periodization models that will allow instrumentation, experimentation, and theory a partial autonomy without granting any one the sole legitimate narrative standpoint. Such a heterogeneous representation of historical traditions may, surprisingly, make better sense of the perceived coherence of activity across theoretical transitions than the monolithic modernist representation of science it displaces. (shrink)

This paper argues, first, that recent studies of experimentation, most notably by Deborah Mayo, provide the conceptual resources to describe scientific discovery's early stages as error-probing processes. Second, it shows that this description yields greater understanding of those early stages, including the challenges that they pose, the research strategies associated with them, and their influence on the rest of the discovery process. Throughout, the paper examines the phenomenon of "chemical hormesis" (i.e., anomalous low-dose effects from toxic chemicals) as a case (...) study that is important not only for the biological sciences but also for contemporary public policy. The resulting analysis is significant for at least two reasons. First, by elucidating the importance of discovery's earliest stages, it expands previous accounts by philosophers such as William Wimsatt and Lindley Darden. Second, it identifies the discovery process as yet another philosophical topic on which the detailed studies of the "new experimentalists" can shed new light. (shrink)

In which respects do modeling and experimenting resemble or differ from each other? We explore this question through studying in detail the combinatorial strategy in synthetic biology whereby scientists triangulate experimentation on model organisms, mathematical modeling, and synthetic modeling. We argue that this combinatorial strategy is due to the characteristic constraints of the three epistemic activities. Moreover, our case study shows that in some cases materiality clearly matters, in fact it provides the very rationale of synthetic modeling. We will show (...) how the materialities of the different kinds of models – biological components versus mathematical symbols – in combination with their different structures – the complexity of biological organisms versus the isolated network structure and its mathematical dynamics - define the spectrum of epistemic possibilities in synthetic biology. Furthermore, our case shows that from the perspective of scientific practice the question of whether or not simulations are like or unlike experiments is often beside the point, since they are used to accomplish different kinds of things. (shrink)