Models and Explanation

g—a statistical factor capturing intercorrelations between scores on different IQ tests—is of theoretical interest despite being a low-fidelity model of both folk psychological intelligence and its cognitive/neural underpinnings. g idealizes away from those aspects of cognitive/neural mechanisms that are not explanatory of the relevant variety of folk psychological intelligence, and idealizes away from those varieties of folk psychological intelligence that are not generated by the relevant cognitive/neural substrate. In this manner, g constitutes a high-fidelity bridge model of the relationship between (...) its two targets, and thereby helps demystify the relationship between folk and scientific psychology. (shrink)

Over the last decades, network-based approaches have become highly popular in diverse fields of biology, including neuroscience, ecology, molecular biology and genetics. While these approaches continue to grow very rapidly, some of their conceptual and methodological aspects still require a programmatic foundation. This challenge particularly concerns the question of whether a generalized account of explanatory, organisational and descriptive levels of networks can be applied universally across biological sciences. To this end, this highly interdisciplinary theme issue focuses on the definition, motivation (...) and application of key concepts in biological network science, such as explanatory power of distinctively network explanations, network levels, and network hierarchies. (shrink)

Simple idealized models seem to provide more understanding than opaque, complex, and hyper-realistic models. However, an increasing number of scientists are going in the opposite direction by utilizing opaque machine learning models to make predictions and draw inferences, suggesting that scientists are opting for models that have less potential for understanding. Are scientists trading understanding for some other epistemic or pragmatic good when they choose a machine learning model? Or are the assumptions behind why minimal models provide understanding misguided? In (...) this paper, using the case of deep neural networks, I argue that it is not the complexity or black box nature of a model that limits how much understanding the model provides. Instead, it is a lack of scientific and empirical evidence supporting the link that connects a model to the target phenomenon that primarily prohibits understanding. (shrink)

This paper adds to the philosophical literature on mechanistic explanation by elaborating two related explanatory functions of idealisation in mechanistic models. The first function involves explaining the presence of structural/organizational features of mechanisms by reference to their role as difference-makers for performance requirements. The second involves tracking counterfactual dependency relations between features of mechanisms and features of mechanistic explanandum phenomena. To make these functions salient, we relate our discussion to an exemplar from systems biological research on the mechanism for countering (...) heat shock—the heat shock response (HSR) system—in Escherichia coli (E. coli) bacteria. This research also reinforces a more general lesson: ontic constraint accounts in the literature on mechanistic explanation provide insufficiently informative normative appraisals of mechanistic models. We close by outlining an alternative view on the explanatory norms governing mechanistic representation. (shrink)

Mathematics is often taken to play one of two roles in the empirical sciences: either it represents empirical phenomena or it explains these phenomena by imposing constraints on them. This article identifies a third and distinct role that has not been fully appreciated in the literature on applicability of mathematics and may be pervasive in scientific practice. I call this the “bridging” role of mathematics, according to which mathematics acts as a connecting scheme in our explanatory reasoning about why and (...) how two different descriptions of an empirical phenomenon relate to each other. I discuss two bridging roles appearing in biological and physical explanations. (shrink)

Precision medicine and molecular systems medicine (MSM) are highly utilized and successful approaches to improve understanding, diagnosis, and treatment of many diseases from bench-to-bedside. Especially in the COVID-19 pandemic, molecular techniques and biotechnological innovation have proven to be of utmost importance for rapid developments in disease diagnostics and treatment, including DNA and RNA sequencing technology, treatment with drugs and natural products and vaccine development. The COVID-19 crisis, however, has also demonstrated the need for systemic thinking and transdisciplinarity and the limits (...) of MSM: the neglect of the bio-psycho-social systemic nature of humans and their context as the object of individual therapeutic and population-oriented interventions. COVID-19 illustrates how a medical problem requires a transdisciplinary approach in epidemiology, pathology, internal medicine, public health, environmental medicine, and socio-economic modeling. Regarding the need for conceptual integration of these different kinds of knowledge we suggest the application of general system theory (GST). This approach endorses an organism-centered view on health and disease, which according to Ludwig von Bertalanffy who was the founder of GST, we call Organismal Systems Medicine (OSM). We argue that systems science offers wider applications in the field of pathology and can contribute to an integrative systems medicine by (i) integration of evidence across functional and structural differentially scaled subsystems, (ii) conceptualization of complex multilevel systems, and (iii) suggesting mechanisms and non-linear relationships underlying the observed phenomena. We underline these points with a proposal on multi-level systems pathology including neurophysiology, endocrinology, immune system, genetics, and general metabolism. An integration of these areas is necessary to understand excess mortality rates and polypharmacological treatments. In the pandemic era this multi-level systems pathology is most important to assess potential vaccines, their effectiveness, short-, and long-time adverse effects. We further argue that these conceptual frameworks are not only valid in the COVID-19 era but also important to be integrated in a medicinal curriculum. (shrink)

The aim of this book is to explain economic dualism in the history of modern Europe. The emergence of the manorial-serf economy in the Bohemia, Poland, and Hungary in the 16th and the 17th centuries was the result of a cumulative impact of various circumstantial factors. The weakness of cities in Central Europe disturbed the social balance – so characteristic for Western-European societies – between burghers and the nobility. The political dominance of the nobility hampered the development of cities and (...) limited the influence of burghers, paving the way to the rise of serfdom and manorial farms. These processes were accompanied by increased demand for agricultural products in Western Europe. (shrink)

Conducting research on animals is supposed to be valuable because it provides information on how human mechanisms work. But for the use of animal models to be ethically justified, it must be epistemically justified. The inference from an observation about an animal model to a conclusion about humans must be warranted for the use of animals to be moral. When researchers infer from animals to humans, it’s an extrapolation. Often non-human primates are used as animal models in laboratory behavioral research. (...) The target populations are humans and other non-human primates. I argue that the epistemology of extrapolation renders the use of non-human primates in laboratory behavioral research unreliable. If the model is relevantly similar to the target, then the experimental conditions introduce confounding variables. If the model is not relevantly similar to the target, then the observations of the model cannot be extrapolated to the target. Since using non-human primates in as animal models in laboratory behavioral research is not epistemically justified, using them as animal models in laboratory behavioral research is not ethically justified. (shrink)

According to a widespread view in metaphysics and philosophy of science, all explanations involve relations of ontic dependence between the items appearing in the explanandum and the items appearing in the explanans. I argue that a family of mathematical cases, which I call “viewing-as explanations”, are incompatible with the Dependence Thesis. These cases, I claim, feature genuine explanations that aren’t supported by ontic dependence relations. Hence the thesis isn’t true in general. The first part of the paper defends this claim (...) and discusses its significance. The second part of the paper considers whether viewing-as explanations occur in the empirical sciences, focusing on the case of so-called fictional models. It’s sometimes suggested that fictional models can be explanatory even though they fail to represent actual worldly dependence relations. Whether or not such models explain, I suggest, depends on whether we think scientific explanations necessarily give information relevant to intervention and control. Finally, I argue that counterfactual approaches to explanation also have trouble accommodating viewing-as cases. (shrink)

There has been a growing trend to include non-causal models in accounts of scientific explanation. A worry addressed in this paper is that without a higher threshold for explanation there are no tools for distinguishing between models that provide genuine explanations and those that provide merely potential explanations. To remedy this, a condition is introduced that extends a veridicality requirement to models that are empirically underdetermined, highly-idealised, or otherwise non-causal. This condition is applied to models of electroweak symmetry breaking beyond (...) the Standard Model. (shrink)

This paper aims to offer a new view of the role of connectionist models in the study of human cognition through the conceptualization of the history of connectionism – from the simplest perceptrons to convolutional neural nets based on deep learning techniques, as well as through the interpretation of criticism coming from symbolic cognitive science. Namely, the connectionist approach in cognitive science was the target of sharp criticism from the symbolists, which on several occasions caused its marginalization and almost complete (...) abandonment of its assumptions in the study of cognition. Criticisms have mostly pointed to its explanatory inadequacy as a theory of cognition or to its biological implausibility as a theory of implementation, and critics often focused on specific shortcomings of some connectionist models and argued that they apply to connectionism in general. In this paper, we want to show that both types of critique are based on the assumption that the only valid explanations in cognitive science are instances of homuncular functionalism and that by removing this assumption and by adopting an alternative methodology – exploratory mechanistic strategy, we can reject most objections to connectionism as irrelevant, explain the progress of connectionist models despite their shortcomings and sketch the trajectory of their future development. By adopting mechanistic explanations and by criticizing functionalism, we will reject the objections of explanatory inadequacy, by characterizing connectionist models as generic rather than concrete mechanisms, we will reject the objections of biological implausibility, and by attributing the exploratory character to connectionist models we will show that practice of generalizing current to general failures of connectionism is unjustified. (shrink)

Voilà un livre comme on pouvait l’espérer. Centré sur la Covid-19 et sur sa diffusion, il s’installe au cœur de questions brûlantes, encore urgentes pour tout un chacun, mais il garde aussi la tête froide, prend du recul, informe, enseigne et questionne, qui plus est de façon pédagogique. Davantage : au-delà du bilan critique, il propose des perspectives inédites, voire quelques suggestions solides. Il nous donne à réfléchir sur des chemins moins balisés. À le lire, on comprendra, par l’exemple, pourquoi (...) un modèle ne peut assurer simultanément toutes les fonctions de connaissance qu’on en peut attendre (décrire, prédire, expliquer, etc.). On comprendra pourquoi il faut souvent des modèles simples mais aussi, dans certains cas, des modèles nécessairement plus compliqués. On comprendra également pourquoi il faut cultiver une pluralité de modèles, toujours dans la collégialité, souvent dans l’interdisciplinarité : non seulement pour que ces modèles prennent en compte plusieurs aspects, mais aussi pour que leurs diverses fonctions puissent entrer en dialogue, et enfin pour qu’ils s’épaulent, convergent ou se rectifient, en particulier là où l’on attend d’eux qu’ils mettent au jour des propriétés structurelles robustes, les seules offrant en retour une prise à l’action et à la décision légitimes. On comprendra enfin que la disponibilité de données à la fois pertinentes et stabilisées est un point d’achoppement majeur, dans les circonstances, tant il est discutable de paramétrer un modèle de diffusion de la Covid-19 avec les paramètres de la grippe simplement parce qu’ils sont mieux connus. (shrink)

A common strategy for simplifying complex systems involves partitioning them into subsystems whose behaviors are roughly independent of one another at shorter timescales. Dynamic causal models clarify how doing so reveals a system’s nonequilibrium causal relationships. Here I use these models to elucidate the idealizations and abstractions involved in representing a system at a timescale. The models reveal that key features of causal representations—such as which variables are exogenous—may vary with the timescale at which a system is considered. This has (...) implications for debates regarding which systems can be represented causally. (shrink)

This thesis starts with three challenges to the structuralist accounts of applied mathematics. Structuralism views applied mathematics as a matter of building mapping functions between mathematical and target-ended structures. The first challenge concerns how it is possible for a non-mathematical target to be represented mathematically when the mapping functions per se are mathematical objects. The second challenge arises out of inconsistent early calculus, which suggests that mathematical representation does not require rigorous mathematical structures. The third challenge comes from renormalisation group (...) (RG) explanations of universality. It is argued that the structural mapping between the world and a highly abstract minimal model adds little value to our understanding of how RG obtains its explanatory force. I will address the first and second challenges from the similarity perspective. The similarity account captures representations as similarity relations, providing a more flexible and broader conception of representation than structuralism. It is the specification of the respect and degree of similarity that forges mathematics into a context of representation and directs it to represent a specific system in reality. Structuralism is treatable as a tool for explicating similarity rela-tions set-theoretically. The similarity account, combined with other approaches (e.g., Nguyen and Frigg’s extensional abstraction account and van Fraassen’s pragmatic equivalence), can dissolve the first challenge. Additionally, I will make a structuralist response to the second challenge, and suggestions regarding the role of infinitesimals from the similarity perspective. In light of the similarity account, I will propose the “hotchpotch picture” as a method-ological reflection of our study of representation and explanation. Its central insight is to dissect a representation or an explanation into several aspects and use different theories (that are usually thought of competing) to appropriate each of them. Based on the hotchpotch picture, RG explanations can be dissected to the “indexing” and “inferential” conceptions of explanation, which are captured or characterised by structural mappings. Therefore, structuralism accommodates RG explanations, and the third challenge is resolved. (shrink)

The paper argues that an account of understanding should take the form of a Carnapian explication and acknowledge that understanding comes in degrees. An explication of objectual understanding is defended, which helps to make sense of the cognitive achievements and goals of science. The explication combines a necessary condition with three evaluative dimensions: An epistemic agent understands a subject matter by means of a theory only if the agent commits herself sufficiently to the theory of the subject matter, and to (...) the degree that the agent grasps the theory, the theory answers to the facts and the agent’s commitment to the theory is justified. The threshold for outright attributions of understanding is determined contextually. The explication has descriptive as well as normative facets and allows for the possibility of understanding by means of non-explanatory theories. (shrink)

The aim of this dissertation is to comprehensively study various robustness arguments proposed in the literature from Levins to Lloyd as well as the opposition offered to them and pose enquiry into the degree of epistemic virtue that they provide to the model prediction results with respect to climate science and modeling. Another critical issue that this dissertation strives to examine is that of the actual epistemic notion that is operational when scientists and philosophers appeal to robustness. In attempting to (...) explicate this idea, the discussion turns to arguments provided by Schupbach who completely rejects probabilistic independence in favour of explanatory reasoning, Stegenga and Menon who still see some value in probabilistic independence, and Winsberg who takes applies Schupbach’s to climate science, going beyond models to involve multi-modal evidence. After an exhaustive discussion on these arguments, this dissertation attempts to provide a thorough and updated notion of robustness in climate modeling and climate science. (shrink)

This short paper has two parts. First, we prove a generalisation of Aumann's surprising impossibility result in the context of rational decision making. We then move, in the second part, to discuss the interpretational meaning of some formal setups of epistemic models, and we do so by means of presenting an interesting puzzle in epistemic logic. The aim is to highlight certain problematic aspects of these epistemic systems concerning first/third-person asymmetry which underlies both parts of the story. This asymmetry, we (...) argue, reveals certain limits of what epistemic models can be. (shrink)

The expression "analytic narratives" is used to refer to a range of quite recent studies that lie on the boundaries between history, political science, and economics. These studies purport to explain specific historical events by combining the usual narrative approach of historians with the analytic tools that economists and political scientists draw from formal rational choice theories. Game theory, especially of the extensive form version, is currently prominent among these tools, but there is nothing inevitable about such a technical choice. (...) The chapter explains what analytic narratives are by reviewing the studies of the major book Analytic Narratives (1998), which are concerned with the workings of political institutions broadly speaking, as well as several cases drawn from military and security studies, which form an independent source of the analytic narratives literature. At the same time as it gradually develops a definition of analytic narratives, the chapter investigates how they fulfil one of their main purposes, which is to provide explanations of a better standing than those of traditional history. An important principle that will emerge in the course of the discussion is that narration is called upon not only to provide facts and problems, but also to contribute to the explanation itself. The chapter distinguishes between several expository schemes of analytic narratives according to the way they implement this principle. From all the arguments developed here, it seems clear that the current applications of analytic narratives do not exhaust their potential, and in particular that they deserve the attention of economic historians, if only because they are concerned with microeconomic interactions that are not currently their focus of attention. (shrink)

We introduce a new type of pluralism about biological function that, in contrast to existing, demonstrates a practical integration among the term’s different meanings. In particular, we show how to generalize Sandra Mitchell’s notion of integrative pluralism to circumstances where multiple epistemic tools of the same type are jointly necessary to solve scientific problems. We argue that the multiple definitions of biological function operate jointly in this way based on how biologists explain the evolution of protein function. To clarify how (...) our account relates to existing views, we introduce a general typology for monist and pluralist accounts along with standardized criteria for judging which is best supported by evidence. (shrink)

In Economics Rules, Dani Rodrik (2015) argues that what makes economics powerful despite the limitations of each and every model is its diversity of models. Rodrik suggests that the diversity of models in economics improves its explanatory capacities, but he does not fully explain how. I offer a clearer picture of how models relate to explanations of particular economic facts or events, and suggest that the diversity of models is a means to better economic explanations.

Despite their success in describing and predicting cognitive behavior, the plausibility of so-called ‘rational explanations’ is often contested on the grounds of computational intractability. Several cognitive scientists have argued that such intractability is an orthogonal pseudoproblem, however, since rational explanations account for the ‘why’ of cognition but are agnostic about the ‘how’. Their central premise is that humans do not actually perform the rational calculations posited by their models, but only act as if they do. Whether or not the problem (...) of intractability is solved by recourse to ‘as if’ explanations critically depends, inter alia, on the semantics of the ‘as if’ connective. We examine the five most sensible explications in the literature, and conclude that none of them circumvents the problem. As a result, rational ‘as if’ explanations must obey the minimal computational constraint of tractability. (shrink)

This book analyses the impact computerization has had on contemporary science and explains the origins, technical nature and epistemological consequences of the current decisive interplay between technology and science: an intertwining of formalism, computation, data acquisition, data and visualization and how these factors have led to the spread of simulation models since the 1950s. -/- Using historical, comparative and interpretative case studies from a range of disciplines, with a particular emphasis on the case of plant studies, the author shows how (...) and why computers, data treatment devices and programming languages have occasioned a gradual but irresistible and massive shift from mathematical models to computer simulations. -/- . (shrink)

Science continually contributes new models and rethinks old ones. The way inferences are made is constantly being re-evaluated. The practice and achievements of science are both shaped by this process, so it is important to understand how models and inferences are made. But, despite the relevance of models and inference in scientific practice, these concepts still remain contro-versial in many respects. The attempt to understand the ways models and infer-ences are made basically opens two roads. The first one is to (...) produce an analy-sis of the role that models and inferences play in science. The second one is to produce an analysis of the way models and inferences are constructed, especial-ly in the light of what science tells us about our cognitive abilities. The papers collected in this volume go both ways. (shrink)

The focus in the literature on scientific explanation has shifted in recent years towards model-based approaches. In recent work, Alisa Bokulich has argued that idealization has a central role to play in explanation. Bokulich claims that certain highly-idealized, structural models can be explanatory, even though they are not considered explanatory by causal, mechanistic, or covering law accounts of explanation. This paper focuses on Bokulich’s account in order to make the more general claim that there are problems with maintaining that a (...) structural criterion can capture the way that highly-idealized models explain. This paper examines Bokulich’s claim that the structural model explanation of quantum wavefunction scarring, featuring semiclassical mechanics, is deeper than the explanation provided by the local quantum model. The challenge for Bokulich is to show that the semiclassical model answers a wider range of w-questions, as this is her method of assessing structural information. I look at two reasonable approaches employing w-questions, and I argue that neither approach is ultimately satisfactory. Because structural similarity has preferences for more fundamental models, I argue that the local quantum model provides explanations that at least as deep as the semiclassical ones. The criterion either wrongly identifies all models as explanatory, or prefers models from fundamental theory. Either way, it cannot capture the way that highly-idealized models explain. (shrink)

Simulation models of the Reiterated Prisoner's Dilemma have been popular for studying the evolution of cooperation since more than 30 years now. However, there have been practically no successful instances of empirical application of any of these models. At the same time this lack of empirical testing and confirmation has almost entirely been ignored by the modelers community. In this paper, I examine some of the typical narratives and standard arguments with which these models are justified by their authors despite (...) the lack of empirical validation. I find that most of the narratives and arguments are not at all compelling. None the less they seem to serve an important function in keeping the simulation business running despite its empirical shortcomings. (shrink)

This chapter elaborates and develops the thesis originally put forward by Mary Morgan (2005) that some mathematical models may surprise us, but that none of them can completely confound us, i.e. let us unable to produce an ex post theoretical understanding of the outcome of the model calculations. This chapter intends to object and demonstrate that what is certainly true of classical mathematical models is however not true of pluri-formalized simulations with multiple axiomatic bases. This chapter thus proposes to show (...) that - and why - some of these computational simulations that are now booming in the sciences not only surprise us but also confound us. To do so, it shows too that it is needed to elaborate and articulate with some new precision the concept of weak emergence initially due, for its part, to Mark A. Bedau (1997). (shrink)

Idealizing conditions are scapegoats for scientific hypotheses, too often blamed for falsehood better attributed to less obvious sources. But while the tendency to blame idealizations is common among both philosophers of science and scientists themselves, the blame is misplaced. Attention to the nature of idealizing conditions, the content of idealized hypotheses, and scientists’ attitudes toward those hypotheses shows that idealizing conditions are blameless when hypotheses misrepresent. These conditions help to determine the content of idealized hypotheses, and they do so in (...) a way that prevents those hypotheses from being false by virtue of their constituent idealizations. (shrink)

Now that complex Agent-Based Models and computer simulations spread over economics and social sciences - as in most sciences of complex systems -, epistemological puzzles (re)emerge. We introduce new epistemological tools so as to show to what precise extent each author is right when he focuses on some empirical, instrumental or conceptual significance of his model or simulation. By distinguishing between models and simulations, between types of models, between types of computer simulations and between types of empiricity, section 2 gives (...) conceptual tools to explain the rationale of the diverse epistemological positions presented in section 1. Finally, we claim that a careful attention to the real multiplicity of denotational powers of symbols at stake and then to the implicit routes of references operated by models and computer simulations is necessary to determine, in each case, the proper epistemic status and credibility of a given model and/or simulation. (shrink)

Both the irreducible complexity of biological phenomena and the aim of a universalized biology (life-as-it-could-be) have lead to a deep methodological shift in the study of life; represented by the appearance of ALife, with its claim that computational modelling is the main tool for studying the general principles of biological phenomenology. However this methodological shift implies important questions concerning the aesthetic, engineering and specially the epistemological status of computational models in scientific research: halfway between the well established categories of theory (...) and experiment. ALife models become powerful epistemic artefacts allowing the simulation of emergent phenomena, the interaction between different levels of organization and the integration of different causal factors in the very same manipulable object. The use of computational models in ALife can be classified in four main categories depending on their position between theoretical and empirical practices: generic, conceptual, functional and mechanistic. For each of these categories we analyse their epistemic value and select paradigmatic examples that illustrate how ALife models can be fruitfully inserted in the study of life. (shrink)

In this comment on the work by Ulises Moulines I shall not refer to the interesting analysis of the ontological commitments that depends the treatment of the so-called «data models», nor shall I debate the general metaphysical principles proposed in his approach, adopting an experimentalist, instrumentalist, anti-realistic, positivist or empirical stance. I shall focus on the last part of his article in which he elaborates on the links between Wesley Salmon's causalist approach and the structuralist analysis of explanation viewed as (...) theoretical embedding, as he relates it to the structural analysis of the theoretical terms in light of a certain general shared understanding of epistemology's job. (shrink)

Recent contributions by Kuhn, Wartofsky, and Granger, converge in the direction of an extended view of models, one that acknowledges a metaphorical dimension in the language of science. Such a view is in some respects the opposite of the views of both Bachelard and the Logical Empiricists. A number of familiar puzzles of the philosophy of science, such as the problem of reference, the opposition of realism and instrumentalism, that between explanation and understanding, and the status of scientific objectivity, may (...) receive a new solution in the light of the Kuhn/Wartofsky/Granger view of scientific metaphors. (shrink)