I defend an account of explanatory depth according to which explanations in the non-fundamental sciences can be deeper than explanations in fundamental physics.

Carl Craver investigates what we are doing when we sue neuroscience to explain what's going on in the brain.

The basic theory of scientific understanding presented in Sections 1–2 exploits three main ideas.First, that to understand a phenomenonP (for a given agent) is to be able to fitP into the cognitive background corpusC (of the agent).Second, that to fitP intoC is to connectP with parts ofC (via arguments in a very broad sense) such that the unification ofC increases.Third, that the cognitive changes involved in unification can be treated as sequences of shifts of phenomena inC. How the theory fits (...) typical examples of understanding and how it excludes spurious unifications is explained in detail. Section 3 gives a formal description of the structure of cognitive corpuses which contain descriptive as well as inferential components. The theory of unification is then refined in the light of so called puzzling phenomena, to enable important distinctions, such as that between consonant and dissonant understanding. In Section 4, the refined theory is applied to several examples, among them a case study of the development of the atomic model. The final part contains a classification of kinds of understanding and a discussion of the relation between understanding and explanation. (shrink)

Philosophers agree that scientific explanations aim to produce understanding, and that good ones succeed in this aim. But few seriously consider what understanding is, or what the cues are when we have it. If it is a psychological state or process, describing its specific nature is the job of psychological theorizing. This article examines the role of understanding in scientific explanation. It warns that the seductive, phenomenological sense of understanding is often, but mistakenly, viewed as a cue of genuine understanding. (...) The article closes with a discussion of several new paths of research that tie the psychology of scientific explanation to cognate notions of learning, testimony, and understanding. (shrink)

To explain the phenomena in the world of our experience, to answer the question “why?” rather than only the question “what?”, is one of the foremost objectives of all rational inquiry; and especially, scientific research in its various branches strives to go beyond a mere description of its subject matter by providing an explanation of the phenomena it investigates. While there is rather general agreement about this chief objective of science, there exists considerable difference of opinion as to the function (...) and the essential characteristics of scientific explanation. In the present essay, an attempt will be made to shed some light on these issues by means of an elementary survey of the basic pattern of scientific explanation and a subsequent more rigorous analysis of the concept of law and of the logical structure of explanatory arguments. (shrink)

The concept of mechanism is analyzed in terms of entities and activities, organized such that they are productive of regular changes. Examples show how mechanisms work in neurobiology and molecular biology. Thinking in terms of mechanisms provides a new framework for addressing many traditional philosophical issues: causality, laws, explanation, reduction, and scientific change.

Is conceptual analysis required for reductive explanation? If there is no a priori entailment from microphysical truths to phenomenal truths, does reductive explanation of the phenomenal fail? We say yes . Ned Block and Robert Stalnaker say no.

Network analysis is increasingly used to discover and represent the organization of complex systems. Focusing on examples from neuroscience in particular, I argue that whether network models explain, how they explain, and how much they explain cannot be answered for network models generally but must be answered by specifying an explanandum, by addressing how the model is applied to the system, and by specifying which kinds of relations count as explanatory.

From antiquity to the end of the twentieth century, philosophical discussions of understanding remained undeveloped, guided by a 'received view' that takes understanding to be nothing more than knowledge of an explanation. More recently, however, this received view has been criticized, and bold new philosophical proposals about understanding have emerged in its place. In this book, Kareem Khalifa argues that the received view should be revised but not abandoned. In doing so, he clarifies and answers the most central questions in (...) this burgeoning field of philosophical research: what kinds of cognitive abilities are involved in understanding? What is the relationship between the understanding that explanations provide and the understanding that experts have of broader subject matters? Can there be understanding without explanation? How can one understand something on the basis of falsehoods? Is understanding a species of knowledge? What is the value of understanding? (shrink)

This article examines three candidate cases of non-causal explanation in computational neuroscience. I argue that there are instances of efficient coding explanation that are strongly analogous to examples of non-causal explanation in physics and biology, as presented by Batterman, Woodward, and Lange. By integrating Lange’s and Woodward’s accounts, I offer a new way to elucidate the distinction between causal and non-causal explanation, and to address concerns about the explanatory sufficiency of non-mechanistic models in neuroscience. I also use this framework to (...) shed light on the dispute over the interpretation of dynamical models of the brain. _1_ Introduction _1.1_ Efficient coding explanation in computational neuroscience _1.2_ Defining non-causal explanation _2_ Case I: Hybrid Computation _3_ Case II: The Gabor Model Revisited _4_ Case III: A Dynamical Model of Prefrontal Cortex _4.1_ A new explanation of context-dependent computation _4.2_ Causal or non-causal? _5_ Causal and Non-causal: Does the Difference Matter? (shrink)

The increasing application of network models to interpret biological systems raises a number of important methodological and epistemological questions. What novel insights can network analysis provide in biology? Are network approaches an extension of or in conflict with mechanistic research strategies? When and how can network and mechanistic approaches interact in productive ways? In this paper we address these questions by focusing on how biological networks are represented and analyzed in a diverse class of case studies. Our examples span from (...) the investigation of organizational properties of biological networks using tools from graph theory to the application of dynamical systems theory to understand the behavior of complex biological systems. We show how network approaches support and extend traditional mechanistic strategies but also offer novel strategies for dealing with biological complexity. (shrink)

In the last 20 years or so, since the publication of a seminal paper by Watts and Strogatz :440–442, 1998), an interest in topological explanations has spread like a wild fire over many areas of science, e.g. ecology, evolutionary biology, medicine, and cognitive neuroscience. The topological approach is still very young by all standards, and even within special sciences it still doesn’t have a single methodological programme that is applicable across all areas of science. That is why this special issue (...) is important as a first systematic philosophical study of topological explanations and their relation to a well understood and widespread explanatory strategy, such as mechanistic one. (shrink)

In this paper, I argue that the newly developed network approach in neuroscience and biology provides a basis for formulating a unique type of realization, which I call topological realization. Some of its features and its relation to one of the dominant paradigms of realization and explanation in sciences, i.e. the mechanistic one, are already being discussed in the literature. But the detailed features of topological realization, its explanatory power and its relation to another prominent view of realization, namely the (...) semantic one, have not yet been discussed. I argue that topological realization is distinct from mechanistic and semantic ones because the realization base in this framework is not based on local realisers, regardless of the scale but on global realizers. In mechanistic approach, the realization base is always at the local level, in both ontic and epistemic accounts. The explanatory power of realization relation in mechanistic approach comes directly from the realization relation-either by showing how a model is mapped onto a mechanism, or by describing some ontic relations that are explanatory in themselves. Similarly, the semantic approach requires that concepts at different scales logically satisfy microphysical descriptions, which are at the local level. In topological framework the realization base can be found at different scales, but whatever the scale the realization base is global, within that scale, and not local. Furthermore, topological realization enables us to answer the “why” questions, which according to Polger 2010 make it explanatory. The explanatoriness of topological realization stems from understanding mathematical consequences of different topologies, not from the mere fact that a system realizes them. (shrink)

In this paper, I aim to provide access to the current debate on non-causal explanations in philosophy of science. I will first present examples of non-causal explanations in the sciences. Then, I will outline three alternative approaches to non-causal explanations – that is, causal reductionism, pluralism, and monism – and, corresponding to these three approaches, different strategies for distinguishing between causal and non-causal explanation. Finally, I will raise questions for future research on non-causal explanations.

In the recent literature on causal and non-causal scientific explanations, there is an intuitive assumption according to which an explanation is non-causal by virtue of being abstract. In this context, to be ‘abstract’ means that the explanans in question leaves out many or almost all causal microphysical details of the target system. After motivating this assumption, we argue that the abstractness assumption, in placing the abstract and the causal character of an explanation in tension, is misguided in ways that are (...) independent of which view of causation or causal explanation one takes to be most accurate. On major accounts of causation, as well as on major accounts of causal explanation, the abstractness of an explanation is not sufficient for it being non-causal. That is, explanations are not non-causal by dint of being abstract. (shrink)

Medical explanations have often been thought on the model of biological ones and are frequently defined as mechanistic explanations of a biological dysfunction. In this paper, I argue that topological explanations, which have been described in ecology or in cognitive sciences, can also be found in medicine and I discuss the relationships between mechanistic and topological explanations in medicine, through the example of network medicine and medical genetics. Network medicine is a recent discipline that relies on the analysis of various (...) disease networks in order to find organizing principles in disease explanation. My aim is to show how topological explanations in network medicine can help solving the conceptual issues that pure mechanistic explanations of the genetics of disease are currently facing, namely the crisis of the concept of genetic disease, the progressive geneticization of diseases and the dissolution of the distinction between monogenic and polygenic diseases. However, I will also argue that topological explanations should not be considered as independent and radically different from mechanistic explanations for at least two reasons. First, in network medicine, topological explanations depend on and use mechanistic information. Second, they leave out some missing gaps in disease explanation that require, in turn, the development of new mechanistic explanations. Finally, I will insist on the specific contribution of topological explanations in medicine: they push us to develop an explanation of disease in general, instead of focusing on single explanations of individual diseases. This last point may have major consequences for biomedical research. (shrink)

A number of philosophers have recently suggested that some abstract, plausibly non-causal and/or mathematical, explanations explain in a way that is radically dif- ferent from the way causal explanation explain. Namely, while causal explanations explain by providing information about causal dependence, allegedly some abstract explanations explain in a way tied to the independence of the explanandum from the microdetails, or causal laws, for example. We oppose this recent trend to regard abstractions as explanatory in some sui generis way, and argue (...) that a prominent ac- count of causal explanation can be naturally extended to capture explanations that radically abstract away from microphysical and causal-nomological details. To this end, we distinguish di erent senses in which an explanation can be more or less abstract, and analyse the connection between explanations’ abstractness and their explanatory power. According to our analysis abstract explanations have much in common with counterfactual causal explanations. (shrink)

In this article I develop a model of theoretical understanding in science. This is a philosophical theory that specifies the conditions that are both necessary and sufficient for a scientist to satisfy the construction ‘S understands theory T ’. I first consider how this construction is preferable to others, then build a model of the requisite conditions on the basis of examples from elementary physics. I then show how this model of theoretical understanding can be made philosophically robust and provide (...) a more sophisticated account than we see from models of a similar kind developed by those working in the psychology of physics and artificial intelligence. 1 Introduction2 The Explicandum/Analysandum3 Analysis of ‘S understands T’ 4 The Inferential Model4.1 Which problems are we talking about?4.2 Does the solution have to be true?4.3 Does each cycle have to be correct for S to understand T?4.4 What is problem-solving reliability?4.5 Does every specific inference of a cycle have to be correct?4.6 Does each inference have to use a principle that is part of the theory?5 Theoretical Understanding and Conceptual Expertise: Empirical Considerations6 Conclusion: Inferential Model of Scientific Understanding and Our Traditional Problems. (shrink)

In this article, network science is discussed from a methodological perspective, and two central theses are defended. The first is that network science exploits the very properties that make a system complex. Rather than using idealization techniques to strip those properties away, as is standard practice in other areas of science, network science brings them to the fore, and uses them to furnish new forms of explanation. The second thesis is that network representations are particularly helpful in explaining the properties (...) of non-decomposable systems. Where part-whole decomposition is not possible, network science provides a much-needed alternative method of compressing information about the behavior of complex systems, and does so without succumbing to problems associated with combinatorial explosion. The article concludes with a comparison between the uses of network representation analyzed in the main discussion, and an entirely distinct use of network representation that has recently been discussed in connection with mechanistic modeling. (shrink)

This article discusses minimal model explanations, which we argue are distinct from various causal, mechanical, difference-making, and so on, strategies prominent in the philosophical literature. We contend that what accounts for the explanatory power of these models is not that they have certain features in common with real systems. Rather, the models are explanatory because of a story about why a class of systems will all display the same large-scale behavior because the details that distinguish them are irrelevant. This story (...) explains patterns across extremely diverse systems and shows how minimal models can be used to understand real systems. (shrink)

In this article, I use a mental models computational account of representation to illustrate some details of my previously presented inferential model of scientific understanding. The hope is to shed some light on possible mechanisms behind the notion of scientific understanding. I argue that if mental models are a plausible approach to modelling cognition, then understanding can best be seen as the coupling of specific rules. I present our beliefs as ?ordinary? conditional rules, and the coupling process as one where (...) the consequent of one ordinary rule (OR) matches and activates the antecedent of the rule to which it is coupled in virtue of the activation of an intermediate ?inference? rule. I argue that on this approach knowledge of an explanation is the activation of ORs in a cognitive hierarchy, while understanding is achieved when those activated ORs are also coupled via correct inference rules. I do not directly address issues regarding the plausibility of mental models themselves. This article should therefore be seen as an exercise in refining the inferential model within an already presupposed computational setting, not one of arguing for the psychological adequacy of computational approaches. (shrink)

Certain scientific explanations of physical facts have recently been characterized as distinctively mathematical –that is, as mathematical in a different way from ordinary explanations that employ mathematics. This article identifies what it is that makes some scientific explanations distinctively mathematical and how such explanations work. These explanations are non-causal, but this does not mean that they fail to cite the explanandum’s causes, that they abstract away from detailed causal histories, or that they cite no natural laws. Rather, in these explanations, (...) the facts doing the explaining are modally stronger than ordinary causal laws or are understood in the why question’s context to be constitutive of the physical arrangement at issue. A distinctively mathematical explanation works by showing the explanandum to be more necessary than ordinary causal laws could render it. Distinctively mathematical explanations thus supply a kind of understanding that causal explanations cannot. 1 Introduction2 Some Distinctively Mathematical Scientific Explanations3 Are Distinctively Mathematical Explanations Set Apart by their Failure to Cite Causes? 4 Distinctively Mathematical Explanations do not Exploit Causal Powers5 How these Distinctively Mathematical Explanations Work6 Conclusion. (shrink)

Peter Lipton has argued that understanding can exist in the absence of explanation. We argue that this does not denigrate explanation's importance to understanding. Specifically, we show that all of Lipton's examples are consistent with the idea that explanation is the ideal of understanding, i.e. other modes of understanding ought to be assessed by how well they replicate the understanding provided by a good and correct explanation. We defend this idea by showing that for all of Lipton's examples of non-explanatory (...) understanding of why p , there exists a correct and reasonably good explanation that would provide greater understanding of p. (shrink)

We argue that dynamical and mathematical models in systems and cognitive neuro- science explain (rather than redescribe) a phenomenon only if there is a plausible mapping between elements in the model and elements in the mechanism for the phe- nomenon. We demonstrate how this model-to-mechanism-mapping constraint, when satisfied, endows a model with explanatory force with respect to the phenomenon to be explained. Several paradigmatic models including the Haken-Kelso-Bunz model of bimanual coordination and the difference-of-Gaussians model of visual receptive fields are (...) explored. (shrink)

Scientific understanding, this paper argues, can be analyzed entirely in terms of a mental act of “grasping” and a notion of explanation. To understand why a phenomenon occurs is to grasp a correct explanation of the phenomenon. To understand a scientific theory is to be able to construct, or at least to grasp, a range of potential explanations in which that theory accounts for other phenomena. There is no route to scientific understanding, then, that does not go by way of (...) scientific explanation. (shrink)

This paper argues that besides mechanistic explanations, there is a kind of explanation that relies upon “topological” properties of systems in order to derive the explanandum as a consequence, and which does not consider mechanisms or causal processes. I first investigate topological explanations in the case of ecological research on the stability of ecosystems. Then I contrast them with mechanistic explanations, thereby distinguishing the kind of realization they involve from the realization relations entailed by mechanistic explanations, and explain how both (...) kinds of explanations may be articulated in practice. The second section, expanding on the case of ecological stability, considers the phenomenon of robustness at all levels of the biological hierarchy in order to show that topological explanations are indeed pervasive there. Reasons are suggested for this, in which “neutral network” explanations are singled out as a form of topological explanation that spans across many levels. Finally, I appeal to the distinction of explanatory regimes to cast light on a controversy in philosophy of biology, the issue of contingence in evolution, which is shown to essentially involve issues about realization. (shrink)

Approaches to explanation -- Causal and explanatory relevance -- The kairetic account of /D making -- The kairetic account of explanation -- Extending the kairetic account -- Event explanation and causal claims -- Regularity explanation -- Abstraction in regularity explanation -- Approaches to probabilistic explanation -- Kairetic explanation of frequencies -- Kairetic explanation of single outcomes -- Looking outward -- Looking inward.

In semiclassical mechanics one finds explanations of quantum phenomena that appeal to classical structures. These explanations are prima facie problematic insofar as the classical structures they appeal to do not exist. Here I defend the view that fictional structures can be genuinely explanatory by introducing a model-based account of scientific explanation. Applying this framework to the semiclassical phenomenon of wavefunction scarring, I argue that not only can the fictional classical trajectories explain certain aspects of this quantum phenomenon, but also that (...) an explanation that does not make reference to these classical structures is, in a certain sense, deficient. (shrink)

This paper examines contemporary attempts to explicate the explanatory role of mathematics in the physical sciences. Most such approaches involve developing so-called mapping accounts of the relationships between the physical world and mathematical structures. The paper argues that the use of idealizations in physical theorizing poses serious difficulties for such mapping accounts. A new approach to the applicability of mathematics is proposed.

This paper argues that in some explanations mathematics are playing an explanatory rather than a representational role, and that this feature unifies many types of non-causal or non-mechanistic explanations that some philosophers of science have been recently exploring under various names. After showing how mathematics can play either a representational or an explanatory role by considering two alternative explanations of a same biological pattern—“Bergmann’s rule”—I offer an example of an explanation where the bulk of the explanatory job is done by (...) a mathematical theorem, and where mechanisms involved in the target systems are not explanatorily relevant. Then I account for the way mathematical properties may function in an explanatory way within an explanation by arguing that some mathematical propositions involving variables non directly referring to the target system features constitute constraints to which a whole class of systems should comply, provided they are describable by a mathematical object concerned by those propositions. According to such “constraint account”, those mathematical facts are directly entailing the explanandum, as a consequence of such constraints. I call those explanations “structural”, because here properties of mathematical structures are accounting for the explanandum; various kinds of mathematical structures thereby define various types of structural explanations. (shrink)

Besides mechanistic explanations of phenomena, which have been seriously investigated in the last decade, biology and ecology also include explanations that pinpoint specific mathematical properties as explanatory of the explanandum under focus. Among these structural explanations, one finds topological explanations, and recent science pervasively relies on them. This reliance is especially due to the necessity to model large sets of data with no practical possibility to track the proper activities of all the numerous entities. The paper first defines topological explanations (...) and then explains why topological explanations and mechanisms are different in principle. Then it shows that they are pervasive both in the study of networks—whose importance has been increasingly acknowledged at each level of the biological hierarchy—and in contexts where the notion of selective neutrality is crucial; this allows me to capture the difference between mechanisms and topological explanations in terms of practical modelling practices. The rest of the paper investigates how in practice mechanisms and topologies are combined. They may be articulated in theoretical structures and explanatory strategies, first through a relation of constraint, second in interlevel theories, or they may condition each other. Finally, I explore how a particular model can integrate mechanistic informations, by focusing on the recent practice of merging networks in ecology and its consequences upon multiscale modelling. (shrink)

We reassess Woodward’s counterfactual account of explanation in relation to regularity explananda. Woodward presents an account of causal explanation. We argue, by using an explanation of Kleiber’s law to illustrate, that the account can also cover some noncausal explanations. This leads to a tension between the two key aspects of Woodward’s account: the counterfactual aspect and the causal aspect. We explore this tension and make a case for jettisoning the causal aspect as constitutive of explanatory power in connection with regularity (...) explananda. (shrink)

Proponents of mechanistic explanation all acknowledge the importance of organization. But they have also tended to emphasize specificity with respect to parts and operations in mechanisms. We argue that in understanding one important mode of organization—patterns of causal connectivity—a successful explanatory strategy abstracts from the specifics of the mechanism and invokes tools such as those of graph theory to explain how mechanisms with a particular mode of connectivity will behave. We discuss the connection between organization, abstraction, and mechanistic explanation and (...) illustrate our claims by looking at an example from recent research on so-called network motifs. (shrink)

Not all scientific explanations work by describing causal connections between events or the world's overall causal structure. In addition, mathematicians regard some proofs as explaining why the theorems being proved do in fact hold. This book proposes new philosophical accounts of many kinds of non-causal explanations in science and mathematics.