This groundbreaking, open access volume analyses and compares data practices across several fields through the analysis of specific cases of data journeys. It brings together leading scholars in the philosophy, history and social studies of science to achieve two goals: tracking the travel of data across different spaces, times and domains of research practice; and documenting how such journeys affect the use of data as evidence and the knowledge being produced. The volume captures the opportunities, challenges and concerns involved in (...) making data move from the sites in which they are originally produced to sites where they can be integrated with other data, analysed and re-used for a variety of purposes. The in-depth study of data journeys provides the necessary ground to examine disciplinary, geographical and historical differences and similarities in data management, processing and interpretation, thus identifying the key conditions of possibility for the widespread data sharing associated with Big and Open Data. The chapters are ordered in sections that broadly correspond to different stages of the journeys of data, from their generation to the legitimisation of their use for specific purposes. Additionally, the preface to the volume provides a variety of alternative “roadmaps” aimed to serve the different interests and entry points of readers; and the introduction provides a substantive overview of what data journeys can teach about the methods and epistemology of research. (shrink)

This paper aims to address some methodological issues related to case-based research in the philosophy of contemporary sciences. We focus on the selection processes by which philosophers pick or generate a particular set of papers to conduct their case-based research. We illustrate how to use various quantitative and qualitative methods to improve the epistemic features of the selection processes, and help generate some potential case-based hypotheses for further philosophical investigation.

1. Biomedical sciences are fast-growing fields with unprecedented speed of research outputs, especially in the quantities of papers. Philosophers aiming to study ongoing biomedical changes face cha...

Molecular biologists exploit information conveyed by mechanistic models for experimental purposes. In this article, I make sense of this aspect of biological practice by developing Keller’s idea of the distinction between ‘models of’ and ‘models for’. ‘Models of (phenomena)’ should be understood as models representing phenomena and are valuable if they explain phenomena. ‘Models for (manipulating phenomena)’ are new types of material manipulations and are important not because of their explanatory force, but because of the interventionist strategies they afford. This (...) is a distinction between aspects of the same model. In molecular biology, models may be treated either as ‘models of’ or as ‘models for’. By analysing the discovery and characterization of restriction–modification systems and their exploitation for DNA cloning and mapping, I identify the differences between treating a model as a ‘model of’ or as a ‘model for’. These lie in the cognitive disposition of the modeller towards the model: a modeller will look at a model as a ‘model of’ if interested in its explanatory force, or as a ‘model for’ if interested in the material manipulations it can possibly afford. (shrink)

The provocative paper by John Forrester ‘If p, Then What? Thinking in Cases’ opened up the question of case thinking as a separate mode of reasoning in the sciences. Case-based reasoning is certainly endemic across a number of sciences, but it has looked different according to where it has been found. This article investigates this mode of science – namely thinking in cases – by questioning the different interpretations of ‘If p?’ and exploring the different interpretative responses of what follows (...) in ‘Then What?’. The aim is to characterize how ‘reasoning in, within, with, and from cases’ forms a mode of scientific investigation for single cases, for runs of cases, and for comparative cases, drawing on materials from a range of different fields in which case-based reasoning appears. (shrink)

Knowledge transfer across different contexts has become an increasingly prevalent feature of current science. As such, it is a relevant topic also for history and philosophy of science. This special issue presents a set of papers that study knowledge transfer in various disciplines. The contributions approach the topic from either an integrated history and philosophy of science perspective, 2) a systematic philosophical perspective, or 3) a historical perspective. This overview article is organized in three sections. The introduction provides some background (...) and context of the topic. The second section specifies the three components of knowledge transfer, i.e., knowledge, context, and the transfer process. It motivates our take on this topic and then outlines the central ideas of each paper. The third section reflects on the kinds of methods used to study processes of knowledge transfer. The article concludes by highlighting some of the features of such processes, some of the main challenges and obstacles that those processes involve, and possible ways of dealing with them. (shrink)

Mathematical models and their modeling frameworks developed to advance knowledge in one discipline are sometimes sourced to answer questions or solve problems in another discipline. Studying this aspect of cross-disciplinary transfer of knowledge objects, philosophers of science have weighed in on the question of whether knowledge about how a mathematical model is previously applied in one discipline is necessary for the success of reapplying said model in a different discipline. However, not much has been said about whether the answer to (...) that epistemological question applies to the reapplication of a modeling framework. More generally, regarding the nature of the production of knowledge in science, a metaphysical question remains to be explored whether historical contingencies associated with a mathematical construct have a genuine impact on the nature—as opposed to sociological practices or individual psychology—of advancing scientific knowledge with said construct. Focusing on this metaphysical question, this paper analyzes the use of mathematical logic in the development of the Chomsky hierarchy and subsequent reapplications of said hierarchy; with these examples, this paper develops the notion of “spillovers” as a way to detect cross-disciplinary justifications for better understanding the relations between reapplications of the same mathematical construct across disciplines. (shrink)

Although the interdisciplinary nature of contemporary biological sciences has been addressed by philosophers, historians, and sociologists of science, the different ways in which engineering concepts and methods have been applied in biology have been somewhat neglected. We examine - using the mechanistic philosophy of science as an analytic springboard - the transfer of network methods from engineering to biology through the cases of two biology laboratories operating at the California Institute of Technology. The two laboratories study gene regulatory networks, but (...) in remarkably different ways. The research strategy of the Davidson lab fits squarely into the traditional mechanist philosophy in its aim to decompose and reconstruct, in detail, gene regulatory networks of a chosen model organism. In contrast, the Elowitz lab constructs minimal models that do not attempt to represent any particular naturally evolved genetic circuits. Instead, it studies the principles of gene regulation through a template-based approach that is applicable to any kinds of networks, whether biological or not. We call for the mechanists to consider whether the latter approach can be accommodated by the mechanistic approach, and what kinds of modifications it would imply for the mechanistic paradigm of explanation, if it were to address modelling more generally. (shrink)

Deidealization as a topic in its own right has attracted remarkably little philosophical interest despite the extensive literature on idealization. One reason for this is the often implicit assumption that idealization and deidealization are, potentially at least, reversible processes. We question this assumption by analyzing the challenges of deidealization within a menu of four broad categories: deidealizing as recomposing, deidealizing as reformulating, deidealizing as concretizing, and deidealizing as situating. On closer inspection, models turn out much more inflexible than the reversal (...) thesis would have us believe, and deidealization emerges as a creative part of modeling. (shrink)

We track and analyze the re-situation of scientific knowledge in the field of human population genomics ancestry studies. We understand re-situation as a process of accommodating the direct or indirect transfer of objects of knowledge from one site/situation to other sites/situations. Our take on the concept borrows from Mary S. Morgan’s work on facts traveling while expanding it to include other objects of knowledge such as models, data, software, findings, and visualizations. We structure a specific case study by tracking the (...) re-situation of these objects between three research projects studying human population diversity reported in three articles in Science, Genome Research and PLoS Genetics between 2002 and 2005. We characterize these three engagements as a unit of analysis, a “skirmish,” in order to compare: the divergence of interests in how life-scientists answer similar research questions and to track the challenging transformation of workflows in research laboratories as these scientific objects are re-situated individually or in bundles. Our analysis of the case study shows that an accurate understanding of re-situation requires tracking the whole bundle of objects in a project because they interact in particular key ways. The absence or dismissal of these interactions opens the door to unforeseen trade-offs, misunderstandings and misrepresentations about research design and workflow and what these say about the questions asked and the findings produced. (shrink)

How do scientific innovations spread within and across scientific communities? In this paper, we propose a general account of the diffusion of scientific innovations. This account acknowledges that novel ideas must be elaborated on and conceptually translated before they can be adopted and applied to field-specific problems. We motivate our account by examining an exemplary case of knowledge diffusion, namely, the early spread of theories of rational decision-making. These theories were grounded in a set of novel mathematical tools and concepts (...) that originated in John von Neumann and Oskar Morgenstern's Theory of Games and Economic Behavior and subsequently spread widely across the social and behavioral sciences. Introducing a network-based diffusion measure, we trace the spread of those tools and concepts into distinct research areas. We furthermore present an analytically tractable typology for classifying publications according to their roles in the diffusion process. The proposed framework allows for a systematic examination of the conditions under which scientific innovations spread within and across preexisting and newly emerging scientific communities. (shrink)

It is widely argued that the skills of scientific expertise are tacit, meaning that they are difficult to study. In this essay, I draw on work from the philosophy of action about the nature of skills to show that there is another access point for the study of skills—namely, skill transmission in science education. I will begin by outlining Small’s Aristotelian account of skills, including a brief exposition of its advantages over alternative accounts of skills. He argues that skills exist (...) in a sort of life cycle between learning, practicing, and transmitting, which provides reasons to think that we should pay close attention to the way skills are transmitted in teaching and learning. To demonstrate how a study of skill transmittance can be revealing about the nature of skills in expertise, I explore an example—what I identify as the skill of tension-balancing in model-building. After describing the skill, I briefly examine two case studies from the science education literature that reveal insights about the skill of tension-balancing as it functions in the practice of model-building. (shrink)

Previously, I (Boesch 2017) described a notion called “representational licensing”—the set of activities of scientific practice by which scientists establish the intended representational use of a vehicle. In this essay, I expand and develop this concept of representational licensing. I begin by showing how the concept is of value for both pragmatic and substantive approaches to scientific representation. Then, through the examination of a case study of the Mississippi River Basin Model, I point out and explain some of the activities (...) of representational licensing that help to establish the representational nature of this model. Throughout the exploration of the case study, I pause to identify some important lessons which apply more generally about the nature of representational licensing in science. (shrink)

How do philosophers of science make use of historical case studies? Are their accounts of historical cases purpose-built and lacking in evidential strength as a result of putting forth and discussing philosophical positions? We will study these questions through the examination of three different philosophical case studies. All of them focus on modeling and on Vito Volterra, contrasting his work to that of other theoreticians. We argue that the worries concerning the evidential role of historical case studies in philosophy are (...) partially unfounded, and the evidential and hermeneutical roles of case studies need not be played against each other. In philosophy of science, case studies are often tied to conceptual and theoretical analysis and development, rendering their evidential and theoretic/hermeneutic roles intertwined. Moreover, the problems of resituating or generalizing local knowledge are not specific to philosophy of science but commonplace in many scientific practices—which show similarities to the actual use of historical case studies by philosophers of science. (shrink)

Mathematical formalisms that are constructed for inquiry in one disciplinary context are sometimes applied to another, a phenomenon that I call ‘tool migration.’ Philosophers of science have addressed the advantages of using migrated tools. In this paper, I argue that tool migration can be epistemically risky. I then develop an analytic framework for better understanding the risks that are implicit in tool migration. My approach shows that viewing mathematical constructs as tools while also acknowledging their representational features allows for a (...) balanced understanding of knowledge production that is aided by the research tools migrated across disciplinary boundaries. (shrink)

There is an ongoing and robust tradition of science and technology studies scholars conducting ethnographic laboratory studies. These laboratory studies—like all ethnographies—are each conducted at a particular time, are situated in a particular place, and are about a particular culture. Presumably, this contextual specificity means that such ethnographies have limited applicability beyond the narrow slice of time, place, and culture that they each subject to examination. But we do not always or even often treat them that way. It is beyond (...) common for us to speak about what one or another laboratory study reveals about the laboratory, or “science” much more broadly. Given the contextual specificity of our ethnographic laboratory studies, what justifies this presumed generalizability? Initially, this manuscript surveys typical responses to this question, but then it pursues an unusual one: the potential replicability of ethnographic results. This potential is hereby explored, via an ethnographic replication attempt—one designed and conducted in order to test the generalizability of a particular laboratory study, that of Latour and Woolgar’s classic Laboratory Life. The results of the ethnographic replication attempt are reported, and a remarkable degree of replicability is established. (shrink)

When radiocarbon dating techniques were applied to archaeological material in the 1950s they were hailed as a revolution. At last archaeologists could construct absolute chronologies anchored in temporal data backed by immutable laws of physics. This would make it possible to mobilize archaeological data across regions and time-periods on a global scale, rendering obsolete the local and relative chronologies on which archaeologists had long relied. As profound as the impact of 14C dating has been, it has had a long and (...) tortuous history now described as proceeding through three revolutions, each of which addresses distinct challenges of capturing, processing and packaging radiogenic data for use in resolving chronological puzzles with which archaeologists has long wrestled. In practice, mobilizing radiogenic data for archaeological use is a hard-won achievement; it involves multiple transformations that, at each step of the way, depend upon a diverse array of technical expertise and background knowledge. I focus on strategies of triangulation and traceability that establish the integrity of these data and their relevance as anchors for evidential reasoning in archaeology. (shrink)

At the interface of developmental biology and evolutionary biology, the very criteria of scientific knowledge are up for grabs. A central issue is the status of evolutionary genetics models, which some argue cannot coherently be used with complex gene regulatory network (GRN) models to explain the same evolutionary phenomena. Despite those claims, many researchers use evolutionary genetics models jointly with GRN models to study evolutionary phenomena. This dissertation compares two recent research projects in which researchers jointly use the two kinds (...) of models. I use methods from the empirical social sciences, such as digital corpus analysis, content analysis, and structured case analysis. I infer three primary conclusions about projects of the kind studied. First, they employ an implicit concept of gene that enables the joint use of both kinds of models. Second, they pursue more epistemic aims besides mechanistic explanation of phenomena. Third, they don’t work to create and export broad synthesized theories. Rather, they focus on phenomena too complex to be understood by a common general theory, they distinguish parts of the phenomena, and they apply models from different theories to the different parts. For such projects, seemingly incompatible models are synthesized largely through mediated representations of complex phenomena. (shrink)