ABSTRACT Is there something specific about modelling that distinguishes it from many other theoretical endeavours? We consider Michael Weisberg’s thesis that modelling is a form of indirect representation through a close examination of the historical roots of the Lotka–Volterra model. While Weisberg discusses only Volterra’s work, we also study Lotka’s very different design of the Lotka–Volterra model. We will argue that while there are elements of indirect representation in both Volterra’s and Lotka’s modelling approaches, they are largely due to two (...) other features of contemporary model construction processes that Weisberg does not explicitly consider: the methods-drivenness and outcome-orientedness of modelling. 1Introduction 2Modelling as Indirect Representation 3The Design of the Lotka–Volterra Model by Volterra 3.1Volterra’s method of hypothesis 3.2The construction of the Lotka–Volterra model by Volterra 4The Design of the Lotka–Volterra Model by Lotka 4.1Physical biology according to Lotka 4.2Lotka’s systems approach and the Lotka–Volterra model 5Philosophical Discussion: Strategies and Tools of Modelling 5.1Volterra’s path from the method of isolation to the method of hypothesis 5.2The template-based approach of Lotka 5.3Modelling: methods-driven and outcome-oriented 6Conclusion. (shrink)

One striking feature of the contemporary modelling practice is its interdisciplinary nature. The same equation forms, and mathematical and computational methods, are used across different disciplines, as well as within the same discipline. Are there, then, differences between intra- and interdisciplinary transfer, and can the comparison between the two provide more insight on the challenges of interdisciplinary theoretical work? We will study the development and various uses of the Ising model within physics, contrasting them to its applications to socio-economic systems. (...) While the renormalization group methods justify the transfer of the Ising model within physics – by ascribing them to the same universality class – its application to socio-economic phenomena has no such theoretical grounding. As a result, the insights gained by modelling socio-economic phenomena by the Ising model may remain limited. (shrink)

The picture of synthetic biology as a kind of engineering science has largely created the public understanding of this novel field, covering both its promises and risks. In this paper, we will argue that the actual situation is more nuanced and complex. Synthetic biology is a highly interdisciplinary field of research located at the interface of physics, chemistry, biology, and computational science. All of these fields provide concepts, metaphors, mathematical tools, and models, which are typically utilized by synthetic biologists by (...) drawing analogies between the different fields of inquiry. We will study analogical reasoning in synthetic biology through the emergence of the functional meaning of noise, which marks an important shift in how engineering concepts are employed in this field. The notion of noise serves also to highlight the differences between the two branches of synthetic biology: the basic science-oriented branch and the engineering-oriented branch, which differ from each other in the way they draw analogies to various other fields of study. Moreover, we show that fixing the mapping between a source domain and the target domain seems not to be the goal of analogical reasoning in actual scientific practice. (shrink)

Synthetic biology has a strong modal dimension that is part and parcel of its engineering agenda. In turning hypothetical biological designs into actual synthetic constructs, synthetic biologists reach towards potential biology instead of concentrating on naturally evolved organisms. We analyze synthetic biology’s goal of making biology easier to engineer through the combinatorial theory of possibility, which reduces possibility to combinations of individuals and their attributes in the actual world. While the last decades of synthetic biology explorations have shown biology to (...) be much more difficult to engineer than originally conceived, synthetic biology has not given up its combinatorial approach. (shrink)

One striking feature of the contemporary modeling practice is its interdisciplinarity: the same function forms and equations, and mathematical and computational methods are being transferred across disciplinary boundaries. Within philosophy of science this interdisciplinary dimension of modeling has been addressed by both analogy and template-based approaches that have proceeded separately from each other. We argue that a more fully-blown account of model transfer needs both perspectives. We examine analogical reasoning and template application through a detailed case study on the transfer (...) of the Ising model from physics into neuroscience. Our account combines the analogy and template-based approaches through the notion of a model template that highlights the conceptual side of model transfer. (shrink)

Recently, Bechtel and Abrahamsen have argued that mathematical models study the dynamics of mechanisms by recomposing the components and their operations into an appropriately organized system. We will study this claim through the practice of combinational modeling in circadian clock research. In combinational modeling, experiments on model organisms and mathematical/computational models are combined with a new type of model—a synthetic model. We argue that the strategy of recomposition is more complicated than what Bechtel and Abrahamsen indicate. Moreover, synthetic modeling as (...) a kind of material recomposition strategy also points beyond the mechanistic paradigm. (shrink)

The attempt to define life has gained new momentum in the wake of novel fields such as synthetic biology, astrobiology, and artificial life. In a series of articles, Cleland, Chyba, and Machery claim that definitions of life seek to provide necessary and sufficient conditions for applying the concept of life—something that such definitions cannot, and should not do. We argue that this criticism is largely unwarranted. Cleland, Chyba, and Machery approach definitions of life as classifying devices, thereby neglecting their other (...) epistemic roles. We identify within the discussions of the nature and origin of life three other types of definitions: theoretical, transdisciplinary, and diagnostic definitions. The primary aim of these definitions is not to distinguish life from nonlife, although they can also be used for classificatory purposes. We focus on the definitions of life within the budding field of astrobiology, paying particular attention to transdisciplinary definitions, and diagnostic definitions in the search for biosignatures from other planets. (shrink)

One of the most conspicuous features of contemporary modeling practices is the dissemination of mathematical and computational methods across disciplinary boundaries. We study this process through two applications of the Ising model: the Sherrington-Kirkpatrick model of spin glasses and the Hopfield model of associative memory. The Hopfield model successfully transferred some basic ideas and mathematical methods originally developed within the study of magnetic systems to the field of neuroscience. As an analytical resource we use Paul Humphreys's discussion of computational and (...) theoretical templates. We argue that model templates are crucial for the intra- and interdisciplinary theoretical transfer. A model template is an abstract conceptual idea associated with particular mathematical forms and computational methods. (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)

This paper examines two parallel discussions of scientific modeling which have invoked experimentation in addressing the role of models in scientific inquiry. One side discusses the experimental character of models, whereas the other focuses on their exploratory uses. Although both relate modeling to experimentation, they do so differently. The former has considered the similarities and differences between models and experiments, addressing, in particular, the epistemic value of materiality. By contrast, the focus on exploratory modeling has highlighted the various kinds of (...) exploratory functions of models in the early stages of inquiry. These two perspectives on modeling are discussed through a case study in the field of synthetic biology. The research practice in question explores biological control by making use of an ensemble of different epistemic means: mathematical models and simulations, synthetic genetic circuits and intracellular measuring devices, and finally electronic circuits. We argue that the study of exploratory modeling should trace the ways different epistemic means, in different materialities, are being combined over time. Finally, the epistemic status of such novel investigative objects as synthetic genetic circuits is evaluated, with the conclusion that they can function as both experiments and models. (shrink)

In his famous article “The Unreasonable Effectiveness of Mathematics in the Natural Sciences” Eugen Wigner argues for a unique tie between mathematics and physics, invoking even religious language: “The miracle of the appropriateness of the language of mathematics for the formulation of the laws of physics is a wonderful gift which we neither understand nor deserve”. The possible existence of such a unique match between mathematics and physics has been extensively discussed by philosophers and historians of mathematics. Whatever the merits (...) of this claim are, a further question can be posed with regard to mathematization in science more generally: What happens when we leave the area of theories and laws of physics and move over to the realm of mathematical modeling in interdisciplinary contexts? Namely, in modeling the phenomena specific to biology or economics, for instance, scientists often use methods that have their origin in physics. How is this kind of mathematical modeling justified? (shrink)