A high profile context in which physics and biology meet today is in the new field of systems biology. Systems biology is a fascinating subject for sociological investigation because the demands of interdisciplinary collaboration have brought epistemological issues and debates front and centre in discussions amongst systems biologists in conference settings, in publications, and in laboratory coffee rooms. One could argue that systems biologists are conducting their own philosophy of science. This paper explores the epistemic aspirations of the field by (...) drawing on interviews with scientists working in systems biology, attendance at systems biology conferences and workshops, and visits to systems biology laboratories. It examines the discourses of systems biologists, looking at how they position their work in relation to previous types of biological inquiry, particularly molecular biology. For example, they raise the issue of reductionism to distinguish systems biology from molecular biology. This comparison with molecular biology leads to discussions about the goals and aspirations of systems biology, including epistemic commitments to quantification, rigor and predictability. Some systems biologists aspire to make biology more similar to physics and engineering by making living systems calculable, modelable and ultimately predictable—a research programme that is perhaps taken to its most extreme form in systems biology’s sister discipline: synthetic biology. Other systems biologists, however, do not think that the standards of the physical sciences are the standards by which we should measure the achievements of systems biology, and doubt whether such standards will ever be applicable to ‘dirty, unruly living systems’. This paper explores these epistemic tensions and reflects on their sociological dimensions and their consequences for future work in the life sciences. (shrink)

The philosophy of science of Imre Lakatos suggests criteria for acceptability of work in the interdisciplinary area of theology and science: proposals must contribute to scientific (or theological) research programs that lead to prediction and discovery of novel facts. Lakatos's methodology also suggests four legitimate types of theology–and–science interaction: (1) heuristic use of theology in science; (2) incorporation of a theological assertion as an auxiliary hypothesis in a scientific research program, or (3) as the central theory of a research program; (...) and (4) hybrid theology–and–science programs with empirical data. Three recent Zygon articles illustrate these four types. (shrink)

Selectionist evolutionary theory has often been faulted for not making novel predictions that are surprising, risky, and correct. I argue that it in fact exhibits the theoretical virtue of predictive capacity in addition to two other virtues: explanatory unification and model fitting. Two case studies show the predictive capacity of selectionist evolutionary theory: parallel evolutionary change in E. coli, and the origin of eukaryotic cells through endosymbiosis.

The running debate between Peter Achinstein and his critics concerning the nature of scientific evidence is misguided as each side attempts to explicate a distinct notion of evidence. Achinstein's approach, however, is valuable in helping to point out a problem with Carnap's statistical relevance model. By claiming an increase in probability to be necessary for evidence, the received view is incapable of accounting for evidence which is statistically irrelevant but explanatorily relevant. A broader view of evidence which can account for (...) pragmatic concerns such as explanation is thereby required. (shrink)

Bayesian confirmation theory, as traditionally interpreted, treats the temporal relationship between the formulation of a hypothesis and the confirmation (or recognition) of evidence entailed by that hypothesis merely as a component of the psychology of discovery and acceptance of a hypothesis. The temporal order of these events is irrelevant to the logic of rational theory choice. A few years ago Richmond Campbell and Thomas Vinci offered a reinterpretation of Bayes' Theorem in defense of the view that the temporal relationship between (...) hypothesis and evidence really does matter. More specifically, they advocated the thesis that successful predictions implied by scientific hypothesis H will increase the degree of confirmation of H only if they are novel predictions in the following sense; Evidence E is heuristically novel with respect to hypothesis H if and only if H was not deliberately designed to explain E (if E has already been corroborated) or in anticipation of E (if E is regarded as likely to be corroborated at some future date). Campbell and Vinci argue that the traditional interpretation of Bayes' Theorem misconstrues the significance of predictive novelty by ignoring heuristic novelty. In this paper I review the formal component of their preferred interpretation and demonstrate that it fails to establish that heuristic novelty has any special effect on theory confirmation. That is, even on their revisionist interpretation, regardless of whether H was deliberately designed to explain known evidence E (or in anticipation of suspected E), or whether H was designed without any awareness of the entailment relationship between H and E, Bayes' Theorem will generate the same epistemic probability for hypothesis H. Cases where new evidence was not foreseen at the time a hypothesis first emerged do not carry any more epistemic weight than they would have if such evidence had been foreseen. * Research on this paper was supported by an NEH summer grant. My thanks also to Richmond Campbell and Thomas Vinci for their reply to my initial evaluation of their position (in private correspondence), which compelled me to reconsider their arguments more carefully. (shrink)

Scientific hypotheses may either predict particular unknown facts or accommodate previously-known data. Although affirmed predictions are intuitively more rewarding than accommodations of established facts, opinions divide whether predictive hypotheses are also epistemically superior to accommodation hypotheses. This paper examines the contribution of predictive hypotheses to discoveries of several bio-molecular systems. Having all the necessary elements of the system known beforehand, an abstract predictive hypothesis of semiconservative mode of DNA replication was successfully affirmed. However, in defining the genetic code whose biochemical (...) basis was unclear, hypotheses were only partially effective and supplementary experimentation was required for its conclusive definition. Markedly, hypotheses were entirely inept in predicting workings of complex systems that included unknown elements. Thus, hypotheses did not predict the existence and function of mRNA, the multiple unidentified components of the protein biosynthesis machinery, or the manifold unknown constituents of the ubiquitin–proteasome system of protein breakdown. Consequently, because of their inability to envision unknown entities, predictive hypotheses did not contribute to the elucidation of cation theories remained the sole instrument to explain complex bio-molecular systems, the philosophical question of alleged advantage of predictive over accommodative hypotheses became inconsequential. (shrink)

A common intuition about evidence is that if data x have been used to construct a hypothesis H, then x should not be used again in support of H. It is no surprise that x fits H, if H was deliberately constructed to accord with x. The question of when and why we should avoid such “double-counting” continues to be debated in philosophy and statistics. It arises as a prohibition against data mining, hunting for significance, tuning on the signal, and (...) ad hoc hypotheses, and as a preference for predesignated hypotheses and “surprising” predictions. I have argued that it is the severity or probativeness of the test—or lack of it—that should determine whether a double-use of data is admissible. I examine a number of surprising ambiguities and unexpected facts that continue to bedevil this debate. (shrink)

The aim of this paper is to put in place some cornerstones in the foundations for an objective theory of confirmation by considering lessons from the failures of predictivism. Discussion begins with a widely accepted challenge, to find out what is needed in addition to the right kind of inferential–semantical relations between hypothesis and evidence to have a complete account of confirmation, one that gives a definitive answer to the question whether hypotheses branded as “post hoc monsters” can be confirmed. (...) The predictivist view is then presented as a way to meet this challenge. Particular attention is paid to Worrall’s version of predictivism, as it appears to be the most sophisticated of the lot. It is argued that, despite its faults, his view turns our heads in the right direction by attempting to remove contingent considerations from confirmational matters. The demand to remove such considerations becomes the first of four cornerstones. Each cornerstone is put in place with the aim to steer clear of the sort of failures that plague various kinds of predictivism. In the process, it becomes obvious that the original challenge is wrongheaded and in need of revision. The paper ends with just such a revision. (shrink)

Why did Copernicus's research programme supersede Ptolemy's?’, Lakatos and Zahar argued that, on Zahar's criterion for ‘novel fact’, Copernican theory was objectively scientifically superior to Ptolemaic theory. They are mistaken, Lakatos and Zahar applied Zahar's criterion to ‘a historical thought-experiment’—fictional rather than real history. Further, in their fictional history, they compared Copernicus to Eudoxus rather than Ptolemy, ignored Tycho Brahe, and did not consider facts that would be novel for geostatic theories. When Zahar's criterion is applied to real history, the (...) results are distinctly different. Finally, most of the historical and conceptual problems in applying Zahar's criterion to the Copernican Revolution primarily arise from a deep difficulty in Lakatos's programme: the necessity of individuating research programmes and identifying their originators. 1 Working closely with David Dahl was crucial in developing this paper. Robert Westman's valiant effort to keep me on the historical straight and narrow drastically limited my tendency to a priori historical pronouncements. The Vassar Philosophy Department, John Tompsich, and Jean Sterling were also helpful. (shrink)

La tesis de la subdeterminación empírica representa uno de los mayores desafíos contemporáneos en contra del realismo científico, sin embargo, frecuentemente se le ha considerado como un reto coherente y se ha buscado una forma de atenuar su impacto ya sea mitigando alguna posición realista, o bien, atacando alguno de sus presupuestos más problemáticos. En este ensayo defiendo un argumento en su contra, a saber, que es una tesis que nos conduce a una reductio y que semejante resultado echa por (...) tierra su supuesta plausibilidad como una tesis antirrealista. (shrink)

ArgumentThis paper investigates whether there is a discrepancy between stated and actual aims in biomechanical research, particularly with respect to hypothesis testing. We present an analysis of one hundred papers recently published inThe Journal of Experimental BiologyandJournal of Biomechanics, and examine the prevalence of papers which have hypothesis testing as a stated aim, contain hypothesis testing claims that appear to be purely presentational, and have exploration as a stated aim. We found that whereas no papers had exploration as a stated (...) aim, 58 per cent of papers had hypothesis testing as a stated aim. We had strong suspicions, at the bare minimum, that presentational hypotheses were present in 31 per cent of the papers in this latter group. (shrink)

This paper is a supplement to, and provides a proof of principle of, Kuhn vs. Popper on Criticism and Dogmatism in Science: A Resolution at the Group Level. It illustrates how calculations may be performed in order to determine how the balance between different functions in science—such as imaginative, critical, and dogmatic—should be struck, with respect to confirmation (or corroboration) functions and rules of scientific method.

History of science, it has been argued, has benefited philosophers of science primarily by forcing them into greater contact with "real science." In this paper I argue that additional major benefits arise from the importance of specifically historical considerations within philosophy of science. Loci for specifically historical investigations include: (1) making and evaluating rational reconstructions of particular theories and explanations, (2) estimating the degree of support earned by particular theories and theoretical claims, and (3) evaluating proposed philosophical norms for the (...) evaluation of the degree of support for theories and the worth of explanations. More generally, I argue that theories develop and change structure with time, that (like biological species) they are historical entities. Accordingly, both the identification and the evaluation of theories are essentially historical in character. (shrink)

Metaphysics has undergone two major innovations in recent decades. First, naturalistic metaphysicians have argued that our best science provides an important source of evidence for metaphysical theories. Second, social metaphysicians have begun to explore the nature of social entities such as groups, institutions, and social categories. Surprisingly, these projects have largely kept their distance from one another. Katherine Hawley has recently argued that, unlike the natural sciences, the social sciences are not sufficiently successful to provide evidence about the metaphysical nature (...) of social entities. By contrast, I defend an optimistic view of naturalistic social metaphysics. Drawing on a case study of research into contextual effects in social epidemiology, I show that social science can provide a valuable evidence for social metaphysicians. (shrink)

Das Problem, unter welchen Bedingungen eine Hypothese oder Theorienmodifikation als methodologisch akzeptabel gilt, wird in der wissenschaftstheoretischen Tradition als die Frage des Ad-Hoc-Charakters von Hypothesen diskutiert. Das gleichartige Problem tritt aber auch in Lakatos' Methodologie wissenschaftlicher Forschungsprogramme auf, welche von methodologisch zulässigen Theorienänderungen die Vorhersage 'neuer Tatsachen' verlangt. Über diesen Begriff der neuen Tatsache und damit der Adäquatheitsbedingungen für wissenschaftliche Erklärungen hat sich eine weitgefächerte Debatte entsponnen. In diesem Papier wird der Versuch unternommen, die Forderung der unabhängigen Testbarkeit einer Hypothese, (...) welche im Rahmen der Diskussion des Ad-hoc-Charakters von Hypothesen eine wichtige Rolle spielt, auch für die Frage der Spezifizierung von 'neuen Tatsachen' fruchtbar zu machen. Ich argumentiere zugunsten der Bedingung, daß eine Hypothese als methodologisch akzeptabel gelten sollte, wenn sie zumindest zwei unabhängige Tatsachen erklärt. Ein derartiger Ansatz verlangt die Kennzeichnung dessen, was als 'eine Tatsache' zu gelten hat. Die Schwierigkeit einer derartigen Kennzeichnung ist ein notorisches Problem jedes Kriteriums, das auf unabhängige Testbarkeit zielt. Eine Klärung dieses Problems wird über das Konzept der empirischen Generalisierung versucht. Als 'eine Tatsache' im methodologischen Sinne gilt demnach ein gesetzmäßiger Zusammenhang zwischen zwei Meßgrößen. Dies erlaubt weiterführend eine Klärung des Problems, was methodologisch als 'ein Experiment' zu werten ist, d. h. was als Reproduktion desselben und was als andersartiges Experiment gelten soll. Mit Hilfe dieser Klärungen wird unter anderem der Ad-hoc-Charakter der Lorentzschen Kontraktionshypothese sowie das Problem der Gleich- oder Verschiedenartigkeit von Michelson-Morley- und Kennedy-Thorndike-Experiment untersucht. (shrink)

In psychology, measurement instruments are constructed from scales, which are obtained on the grounds of exploratory and confirmatory factor analysis. Looking at the literature, one can find various recommendations regarding how these techniques should be used during the scale construction process. Some authors suggest to use exploratory factor analysis on the entire data set while others advice to perform an internal cross-validation by randomly splitting the data set in two and then either perform exploratory factor analysis on both parts or (...) exploratory factor analysis on the first part and confirmatory factor analysis on the other. In spite of all these divergent recommendations, there is no consensus on which method yields the best result. In this paper, we analyze this issue in light of the prediction versus accommodation debate and argue that the answer to this question depends on one’s conception of the criteria that should be used to achieve the goals of the scientific enterprise. (shrink)

This paper presents a new 'discontinuous' view of Popper's theory of corroboration, where theories cease to have corroboration values when new severe tests are devised which have not yet been performed, on the basis of a passage from The Logic of Scientific Discovery. Through subsequent analysis and discussion, a novel problem for Popper's account of corroboration, which holds also for the standard view, emerges. This is the problem of the Big Test : that the severest test of any hypothesis is (...) actually to perform all possible tests. But this means that Popper's demand for 'the severest tests' amounts simply to a demand for 'all possible tests'. The paper closes by considering how this bears on accommodation vs. prediction, with respect to corroboration. (shrink)

Intelligent Design (ID) argues for the existence of a designer, postulating it as a theoretical entity of a scientific theory aiming to explain specific characteristics in nature that seems to show design. It is commonly accepted within the Scientific Realism debate, however, that asserting that a scientific theory is successful is not enough for accepting the extramental existence of the entities it postulates. Instead, scientific theories must fulfill additional epistemic requirements, one of which is that they must show successful novel (...) predictions. Evolutionists typically attack ID by offering cases of bad design, such as the inverted retina of vertebrates. ID defenders defend their position affirming that the inversion of the retina must be a detail of design for an as of yet unknown function. The recent discovery of such a function is celebrated by ID defenders as a triumph over evolutionists. The inverted retina case is a good candidate for a novel prediction in favor of ID. In this paper, I analyze whether this is the case. (shrink)

Over the years, nursing research and practice have been through remarkable transformations in response to evolving and emerging healthcare systems and practices. Regarding research, nurses moved beyond merely using the quantitative methodology to combining qualitative, quantitative and mixed methods. In practice, nurses have transitioned from the delivery of medical‐based care to nursing theory‐guided practice, evidence‐based practice, knowledge translation and transformative practice. Some domains of nursing research and practice became progressive, while others degenerated. This paper aims to examine how different domains (...) of nursing research and practice progress and degenerate using Imre Lakatos's methodology of scientific research programs. Lakatos differentiated scientific and pseudoscientific knowledge and coined the idea of scientific research programs. He believed that science in any discipline develops so that some programs are more progressive and others’ degenerative. The degeneration and progression of programs occur steadily and rationally and are determined based on the extent of development and programs’ potential to predict new solutions to old problems. Adopting this idea could enable nurses to critically analyse research programs in everyday knowledge development to use valid and legitimate programs for informing nursing practice. (shrink)

Za Poppera predstavlja znanost proces reševanja problemov, ki temelji na izbiri hipotez. Pri tem ugotavlja podobnost med Darwinovo teorijo in procesom rasti znanstvenega znanja. V tej zvezi je pomembna Popperova teza, da je cilj znanosti resničen opis stvarnosti, ki vsebuje tri vrste bitnosti – ontologija treh svetov. Razlikovanje med bitnostmi pa je vprašljivo, ker temelji na subjektivni intenci interpreta. S tem pa postane vprašljivo samo opredeljevanje rasti znanstvenega znanja in njegov objektivni status, ker bi najboljša teorija morala biti korespondenca med (...) stvarnostjo in celoto vsega človeškega znanja. Tako pa se zadovoljimo z določenim doseženim nivojem znanosti kot najboljšo podobo stvarnosti, kot Resnico. (shrink)

The issues of double-counting, use-constructing, and selection effects have long been the subject of debate in the philosophical as well as statistical literature. I have argued that it is the severity, stringency, or probativeness of the test—or lack of it—that should determine if a double-use of data is admissible. Hitchcock and Sober ([2004]) question whether this ‘severity criterion' can perform its intended job. I argue that their criticisms stem from a flawed interpretation of the severity criterion. Taking their criticism as (...) a springboard, I elucidate some of the central examples that have long been controversial, and clarify how the severity criterion is properly applied to them. Severity and Use-Constructing: Four Points (and Some Clarificatory Notes) 1.1 Point 1: Getting beyond ‘all or nothing’ standpoints 1.2 Point 2: The rationale for prohibiting double-counting is the requirement that tests be severe 1.3 Point 3: Evaluate severity of a test T by its associated construction rule R 1.4 Point 4: The ease of passing vs. ease of erroneous passing: Statistical vs. ‘Definitional’ probability The False Dilemma: Hitchcock and Sober 2.1 Marsha measures her desk reliably 2.2 A false dilemma Canonical Errors of Inference 3.1 How construction rules may alter the error-probing performance of tests 3.2 Rules for accounting for anomalies 3.3 Hunting for statistically significant differences Concluding Remarks. (shrink)

Im Rahmen der Popperianischen Bewährungstheorie spielt der Begriff der Strenge eines Tests eine wichtige Rolle. Einige konkurrierende Vorschläge zur Bestimmung der Teststrenge werden vorgestellt, auf ihre Konsequenzen hin analysiert und miteinander verglichen. Gegen Vorschläge von Popper und Watkins bzw. Lakatos und Musgrave werden schwerwiegende Einwände vorgebracht; durch die Erweiterung einer Idee von Zahar lassen sich deren vertretbare Konsequenzen aber erhalten und sogar erklären. Es wird die Ansicht vertreten, daß es im Zusammenhang mit einer rationalen Theorienpräferenz mehr auf ein Optimum an (...) empirischer Kritik als auf ein Maximum ankommt: ein Test muß zwar streng, aber auch fair sein. (shrink)

"Partial realism" is a common position in the contemporary philosophy of science literature. It states that the "essential" elements of empirically successful scientific theories accurately represent corresponding features the world. This thesis makes several novel contributions related to this position. Firstly, it offers a new definition of the concept of “empirical success”, representing a principled merger between the use-novelty and unification accounts. Secondly, it provides a comparative critical analysis of various accounts of which elements are "essential" to the success of (...) a theory, including structural realism and the divide et impera strategy. A novel account of essentialness, entitled the “empirically successful sub-theory "account", is defended. Thirdly, it is argued that the realism/anti-realism debate should put to the side metaphysical questions and focus instead on partial realism's commitment to the continuity of science. Because this commitment lacks metaphysical implications, it is referred to as "deflationary realism". Anti-realists cannot reject deflationary realism as a matter of a priori principle; its overall viability can therefore only be assessed by a careful examination of the history of science. Finally, another consequence of partial realism, named "partial rationalism", is defended. Partial rationalism states that, in cases where several competing theories have been suggested, scientists are rational just in case they accept the essential elements of each of the scientific theories on offer. This novel position subverts the existing literature on scientific "revolutions", as it sometimes demands that scientists devise a synthesis between competing scientific theories, instead of "choosing" only one. The philosophical points defended in this thesis are illustrated and supported by case studies from the history of science, including Fresnel’s wave theory of light, the Copernican revolution, the "neo-Darwinian synthesis" in evolutionary biology, the "prion revolution" in molecular biology, the miasma theory of disease, and the chemical revolution. (shrink)

This paper has two objectives, neither previously attempted in the published literature—first, to outline J. M. Keynes's theory of knowledge in some detail, and, secondly, to justify the contention that his epistemology is a variety of rationalism, and not, as many have asserted, a form of empiricism. Keynes's attitude to empirical data is also analysed as well as his views on prediction and theory choice. 1This paper is partly based on ideas initially advanced in O'Donnell [1982], a revised and expanded (...) version of which is to be published as O'Donnell [1989]. I should like to thank an anonymous referee for helpful comment, and King's College, Cambridge for permission to quote from the Keynes Papers. (shrink)

Discussions of Karl Popper's falsificationist philosophy of science appear regularly in the recent literature on economic methodology. In this literature, there seem to be two fundamental points of agreement about Popper. First, most economists take Popper's falsificationist method of bold conjecture and severe test to be the correct characterization of scientific conduct in the physical sciences. Second, most economists admit that economic theory fails miserably when judged by these same falsificationist standards. As Latsis states, “the development of economic analysis would (...) look a dismal affair through falsificationist spectacles.”. (shrink)

Roger Jones asks what Newtonian realists should be realists about, given that there are four empirically equivalent formulations of Newtonian mechanics which have different ontological commitments and explanatory mechanisms. A realist answer is sketched: Newtonians should be realists about what the best metaphysical considerations dictate, where the best metaphysical considerations are those which have yielded the best physics. Metaphysical considerations are required within physics, just as they are required to eliminate idealist and surrealist theories which are empirically equivalent to realist (...) ones. Realists must reject the positivist assumption that empirically equivalent theories are explanatory and evidential equivalents, too. (shrink)

The author considers the empirical component of physical theories. He studies the origin and development of the theory of physical experiment, the structure and gnoseological hypotheses of the measuring process, as well as the relativity principle concerning the measuring equipment. Examples of modern physical theories are used in order to demonstrate the influence of experimental facts on the formation and development, verification and accepting of these theories in the structure of scientific systems. The role of accidental experimental facts in this (...) process is also the subject. (shrink)

According to a defense of scientific realism known as the “divide et impera move”, mature scientific theories enjoying predictive success are partially true. This paper investigates a paradigmatic historical case: the prediction, based on Fresnel’s wave theory of light, that a bright spot should figure in the shadow of a disc. Two different derivations of this prediction have been given by both Poisson and Fresnel. I argue that the details of these derivations highlight two problems of indispensability arguments, which state (...) that only the indispensable constituents of this success are worthy of belief and retained through theory-change. The first problem is that, contrary to a common claim, Fresnel’s integrals are not needed to predict the bright spot phenomenon. The second problem is that the hypotheses shared by to these two derivations include problematic idealizations. I claim that this example leads us to be skeptical about which aspects of our current theories are worthy of belief. (shrink)

A aceitação ou a escolha de uma teoria científica por parte de uma comunidade científica é um evento ou processo central na dinâmica científica. É, também, um evento ou processo complexo –já que dele participam as teorias, a experiência e alguma forma de relação inferencial entre a teoria e a experiência.

According to the comparative Bayesian concept of confirmation, rationalized versions of creationism come out as empirically confirmed. From a scientific viewpoint, however, they are pseudo-explanations because with their help all kinds of experiences are explainable in an ex-post fashion, by way of ad-hoc fitting of an empirically empty theoretical framework to the given evidence. An alternative concept of confirmation that attempts to capture this intuition is the use novelty criterion of confirmation. Serious objections have been raised against this criterion. In (...) this paper I suggest solutions to these objections. Based on them, I develop an account of genuine confirmation that unifies the UN-criterion with a refined probabilistic confirmation concept that is explicated in terms of the confirmation of evidence-transcending content parts of the hypothesis. (shrink)

Some of the problem areas in which British philosophers of science have recently been engaged are described and some of the major contributions noted. Two sets of problems are given special attention: one concerned with the analysis of probability statements and one concerned with the appraisal of scientific theories. Three traditions in the approach to this second set of problems are distinguished. These might be called the Carnapian, the Popperian and the Wittgensteinian traditions.