In 1983, Dr. J. Robin Warren and Dr. Barry Marshall reported finding a new kind of bacteria in the stomachs of people with gastritis. Warren and Marshall were soon led to the hypothesis that peptic ulcers are generally caused, not by excess acidity or stress, but by a bacterial infection. Initially, this hypothesis was viewed as preposterous, and it is still somewhat controversial. In 1994, however, a U. S. National Institutes of Health Consensus Development Panel concluded that infection appears to (...) play an important contributory role in the pathogenesis of peptic ulcers, and recommended that antibiotics be used in their treatment. Peptic ulcers are common, affecting up to 10% of the population, and evidence has mounted that many ulcers can be cured by eradicating the bacteria responsible for them. (shrink)

The innovation systems approach has swiftly spread out worldwide in the last three decades and stood as an important framework for policy-making in the fields of science, technology, and innovation. At the same time, there have been serious and untreated concerns in the literature about the theoretical soundness of this approach. Our discussion in this paper is based on the belief that a detailed analysis on epistemological foundations of the approach could shed a judgmental light on the aforementioned concerns. To (...) provide that analysis, we reconstructed and studied the nature and evolution of innovation systems approach as a case of conceptual revolution against the more established traditions in economics of innovation. Our analyses show that the rise of the systemic view of innovation include radical changes in conceptual structures pertaining to orthodox view of innovation. These developments also go so far as to include significant shifts in epistemological foundations of the old paradigm. These later shifts provide us with an epistemological base from which we can shelter the innovation systems approach from the hard criticisms rooted in a quasi-positivist point of view. That epistemological base also shows the path for the future development of the approach towards more robustness and precision. (shrink)

Part I Introduction The specific problem adressed in this thesis is: what is the rational use of theory and experiment in the process of scientific discovery, in theory and in the practice of drug research for Parkinson’s disease? The thesis aims to answer the following specific questions: what is: 1) the structure of a theory?; 2) the process of scientific reasoning?; 3) the route between theory and experiment? In the first part I further discuss issues about rationality in science as (...) introduction to part II, and I present an overview of my case-study of neuropharmacology, for which I interviewed researchers from the Groningen Pharmacy Department, as an introduction to part III. Part II Discovery In this part I discuss three theoretical models of scientific discovery according to studies in the fields of Logic, Cognition, and Computation. In those fields the structure of a theory is respectively explicated as: a set of sentences; a set of associated memory chunks; and as a computer program that can generate the observed data. Rationality in discovery is characterized by: finding axioms that imply observation sentences; heuristic search for a hypothesis, as part of problem solving, by applying memory chunks and production rules that represent skill; and finding the shortest program that generates the data, respectively. I further argue that reasoning in discovery includes logical fallacies, which are neccesary to introduce new hypotheses. I also argue that, while human subjects often make errors in hypothesis evaluation tasks from a logical perspective, these evaluations are rational given a probabilistic interpretation. Part III Neuropharmacology In this last part I discusses my case-study and a model of discovery in a practice of drug research for Parkinson’s disease. I discuss the dopamine theory of Parkinson’s disease and model its structure as a qualitative differential equation. Then I discuss the use and reasons for particular experiments to both test a drug and explore the function of the brain. I describe different kinds of problems in drug research leading to a discovery. Based on that description I distinguish three kinds of reasoning tasks in discovery, inference to: the best explanation, the best prediction and the best intervention. I further demonstrate how a part of reasoning in neuropharmacology can be computationally modeled as qualitative reasoning, and aided by a computer supported discovery system. (shrink)

This paper is an investigation of the degree of incommensurability between Western scientific medicine and traditional Chinese medicine, focusing on the practice and theory of acupuncture. We describe the structure of traditional Chinese medicine, oriented around such concepts as yin, yang, qi, and xing, and discuss how the conceptual and explanatory differences between Western medicine and traditional Chinese medicine generate impediments to their comparison and evaluation. We argue that the linguistic, conceptual, ontological, and explanatory impediments can to a large extent (...) be overcome, and conclude that the dramatic differences between Western and traditional Chinese medicine do not provide insurmountable barriers to rational evaluation of acupuncture. We conclude with a discussion of the intentional and emotional aspects of conceptual change. (shrink)