We investigate the context of discovery of two significant achievements of twentieth century biochemistry: the chemiosmotic mechanism of oxidative phosphorylation and the dark reaction of photosynthesis. The pursuit of these problems involved discovery strategies such as the transfer, recombination and reversal of previous causal and mechanistic knowledge in biochemistry. We study the operation and scope of these strategies by careful historical analysis, reaching a number of systematic conclusions: even basic strategies can illuminate “hard cases” of scientific discovery that go far (...) beyond simple extrapolation or analogy; the causal–mechanistic approach to discovery permits a middle course between the extremes of a completely substrate-neutral and a completely domain-specific view of scientific discovery; the existing literature on mechanism discovery underemphasizes the role of combinatorial approaches in defining and exploring search spaces of possible problem solutions; there is a subtle interplay between a fine-grained mechanistic and a more coarse-grained causal level of analysis, and both are needed to make discovery processes intelligible. (shrink)

After giving a brief account of human rights, the paper investigates five contemporary attacks on them. All of the attacks come from two contemporary proponents of the cost-benefit state, attorney Cass Sunstein and philosopher Larry Laudan. These attacks may be called, respectively, the rationality, objectivity, permission, voluntariness, and comparativism claims. Laudan's and Sunstein's rationality claim (RC) ist that only policy decisions passing cost-benefit tests are rational. Their objectivity presupposition (OP) is that only acute, deterministic threats to life are objective. Sunstein’s (...) permission claim (PC) is that regulators are merely permitted, 3 not required, to take distributive and human rights concerns into account. Sunstein’s 3 voluntariness claim (VC) is that the consent of potential victims is not relevant to government regulations about risks and benefits. Laudan’s comparativism claim 3 (CC) is that there are no rules of thumb, no precomparative norms like human rights, for assessing theory choice in policy science. The paper analyzes each of these claims, shows how they undercut human rights, and argues that each of them errs. (shrink)

Discovery proceeds in stages of construction, evaluation, and revision. Each of these stages is constrained by what is known or conjectured about what is being discovered. A new characterization of mechanism aids in specifying what is to be discovered when a mechanism is sought. Guidance in discovering mechanisms may be provided by the reasoning strategies of schema instantiation, modular subassembly, and forward/backward chaining. Examples are found in mechanisms in molecular biology, biochemistry, immunology, and evolutionary biology.

Comparing alternative scientific theories obviously is relevant to theory assessment, but are comparativists (like Laudan) correct when they also make it necessary? This paper argues that they are not. Defining rationality solely in terms of theories' comparative problem-solving strengths, comparativist philosophers of science like Laudan subscribe to what I call the irrelevance claim (IC) and the necessity claim (NC). According to IC, a scientific theory's being well or poorly confirmed is "irrelevant" to its acceptance; NC is the claim that "all (...) evaluations of research traditions and theories must be made within a comparative context," how any theory "compares with its competitors" (Laudan 1977, 21, 120). Using current competing theories (T1 and T2) of population viability assessment (PVA) for the Florida panther, the paper investigates IC/NC. In part because dominant T2 panther biologists accept IC/NC (which T1 theorists reject), the paper argues that they appear both to have accepted flawed T2 and to have contributed to flawed panther science and policy. Correcting Laudan's Comparativist Philosophy of Science (LCPS), underlying the T1-versus-T2 debate, thus may hold promise for helping resolve both the scientific and policy controversy over panther PVA. (shrink)

In the 1950s–60s biochemists searched intensively for a series of high-energy molecules in the cell. Although we now believe that these molecules do not exist, biochemists claimed to have isolated or identified them on at least sixteen occasions. The episode parallels the familiar eighteenth-century case of phlogiston, in illustrating how error is not simply the loss of facts but, instead, must be actively constructed. In addition, the debates surrounding each case demonstrate how revolutionary-scale disagreement is sometimes resolved by differentiating or (...) partitioning empirical domains, rather than by replacement of one theory by another. (shrink)

Discovery proceeds in stages of construction, evaluation, and revision. Each of these stages is constrained by what is known or conjectured about what is being discovered. A new characterization of mechanism aids in specifying what is to be discovered when a mechanism is sought. Guidance in discovering mechanisms may be provided by the reasoning strategies of schema instantiation, modular subassembly, and forward/backward chaining. Examples are found in mechanisms in molecular biology, biochemistry, immunology, and evolutionary biology.

Incommensurability of scientific theories, as conceived by Thomas Kuhnand Paul Feyerabend, is thought to be a major or even insurmountable obstacletothe empirical comparison of these theories. I examine this problem in light ofaconcrete case from the history of experimental biology, namely the oxidativephosphorylation controversy in biochemistry (ca. 1961-1977). After a briefhistorical exposition, I show that the two main competing theories which werethe subject of the ox-phos controversy instantiate some of the characteristicfeatures of incommensurable theories, namely translation failure,non-corresponding predictions, and different (...) claims about what kinds ofentitiesexist in the world. By examining how the controversy was eventually resolved, Ithen show that at least this pair of incommensurable theories couldneverthelessbe empirically compared. (shrink)