Most cognitive scientists nowadays tend to think that at least some of the mind’s capacities are the product of biological evolution, yet important conceptual problems remain for all scientists in order to be able to speak coherently of mental or cognitive systems as having evolved naturally. Two of these important problems concern the articulation of adequate, interesting, and empirically useful concepts of homology and variation as applied to cognitive systems. However, systems in cognitive science are usually understood as functional (...) systems of some sort. Thus, to be able to talk about functional systems being homologous requires having a solid, adequate, and empirically articulated concept of functional homology—and the same is true about functional variation. Here I construct an original concept of functional homology that, in my view, adequately systematizes a number of actual uses of the word “functional homology” in a variety of biological disciplines and in ethology. I also propose a number of criteria for the empirical application of the concept that are analogous to the criteria that are currently used in comparative biology, ethology, and molecular developmental genetics. Then I construct a concept of functional variation on the basis of this concept of homology. (shrink)

The Mind-Brain Identity Theory lived a short life as a respectable philosophical position in the late 1950s, until Hilary Putnam developed his famous argument on the multiple realizability of mental states. The argument was, and still is, taken as the definitive demonstration of the falsity of Identity Theory and the foundation on which contemporary functionalist computational cognitive science was to be grounded. In this paper, in the wake of some contemporary philosophers, we reopen the case for Identity Theory and offer (...) a solution to the problem of multiple realizabilty. The solution is based on the necessity, at the time of establishing identity relations, of appealing to the notions of “homology” and “analogy” developed in the nineteenth century by Richard Owen. We also suggest that these notions are useful in order to correct certain shortcomings of some recent attempts at rebutting the Multiple Realizability argument. (shrink)

Although the quantum probability (QP) can be useful to model the context effect, it is not relevant to the order effect, conjunction fallacy, and other related biases. Although the issue of potentiality, which is the intuition behind QP, is involved in the context effect, it is not involved in the other biases.

Planctomycetes, Verrucomicrobia and Chlamydia are prokaryotic phyla, sometimes grouped together as the PVC superphylum of eubacteria. Some PVC species possess interesting attributes, in particular, internal membranes that superficially resemble eukaryotic endomembranes. Some biologists now claim that PVC bacteria are nucleus‐bearing prokaryotes and are considered evolutionary intermediates in the transition from prokaryote to eukaryote. PVC prokaryotes do not possess a nucleus and are not intermediates in the prokaryote‐to‐eukaryote transition. Here we summarise the evidence that shows why all of the PVC traits (...) that are currently cited as evidence for aspiring eukaryoticity are either analogous (the result of convergent evolution), not homologous, to eukaryotic traits; or else they are the result of horizontal gene transfers. (shrink)

In this paper, I take up the conciliatory-steadfast debate occurring within social epistemology in regards to the phenomenon of peer disagreement. I will argue, because the conciliatory perspective al-lows us to understand argumentation pragmatically—as a method of problem-solving within a community rather than as a method for obtaining the truth—that in most cases, we should not simply agree to disagree.

In the last 10 years, several authors including Griffiths and Matthen have employed classificatory principles from biology to argue for a radical revision in the way that we individuate psychological traits. Arguing that the fundamental basis for classification of traits in biology is that of ‘homology’ (similarity due to common descent) rather than ‘analogy’, or ‘shared function’, and that psychological traits are a special case of biological traits, they maintain that psychological categories should be individuated primarily by relations (...) of homology rather than in terms of shared function. This poses a direct challenge to the dominant philosophical view of how to define psychological categories, viz., ‘functionalism’. Although the implications of this position extend to all psychological traits, the debate has centered around ‘emotion’ as an example of a psychological category ripe for reinterpretation within this new framework of classification. I address arguments by Griffiths that emotions should be divided into at least two distinct classes, basic emotions and higher cognitive emotions, and that these two classes require radically different theories to explain them. Griffiths argues that while basic emotions in humans are homologous to the corresponding states in other animals, higher cognitive emotions are dependent on mental capacities unique to humans, and are therefore not homologous to basic emotions. Using the example of shame, I argue that (a) many emotions that are commonly classified as being higher cognitive emotions actually correspond to certain basic emotions, and that (b) the “higher cognitive forms” of these emotions are best seen as being homologous to their basic forms. (shrink)

After a few considerations on the limited value of reasoning by analogy, the author distinguishes between analogy, homology and model, as illustrated by electro‐pneumatic, electro‐mechanical and electro‐thermic homologies. On the other hand, there exist numerous models of a same process: mathematical and symbolic models, graphic models, analogic and numeric models. The paper ends with remarks on the limits and the applications of models, namely in adaptative systems, as well as on their philosophical scope.

Homology is a central concept of comparative and evolutionary biology, referring to the presence of the same bodily parts (e.g., morphological structures) in different species. The existence of homologies is explained by common ancestry, and according to modern definitions of homology, two structures in different species are homologous if they are derived from the same structure in the common ancestor. Homology has traditionally been contrasted with analogy, the presence of similar traits in different species not necessarily (...) due to common ancestry but due to a similar function or convergent evolution resulting from similar selective pressure in different species. (A more recent contrastive notion is homoplasy, the presence of similar traits in different species without common ancestry, i.e., as an instance of parallel evolution.) This sounds straightforward, but in fact the homology concept has a rich history and currently is the subject of extensive theoretical reflection, resulting in different contemporary approaches to homology. (shrink)

This paper explores an important type of biological explanation called ‘homology thinking.’ Homology thinking explains the properties of a homologue by citing the history of a homologue. Homology thinking is significant in several ways. First, it offers more detailed explanations of biological phenomena than corresponding analogy explanations. Second, it provides an important explanation of character similarity and difference. Third, homology thinking offers a promising account of multiple realizability in biology.

Over the past decade, it has been discovered that disparate aspects of morphology – often of distantly related groups of organisms – are regulated by the same genetic regulatory mechanisms. Those discoveries provide a new perspective on morphological evolutionary change. A conceptual framework for exploring these research findings is termed ‘deep homology’. A comparative framework for morphological relations of homology is provided that distinguishes analogy, homoplasy, plesiomorphy and synapomorphy. Four examples – three from plants and one from (...) animals – demonstrate that homologous developmental mechanisms can regulate a range of morphological relations including analogy, homoplasy and examples of uncertain homology. Deep homology is part of a much wider range of phenomena in which biological (genes, regulatory mechanisms, morphological traits) and phylogenetic levels of homology can both be disassociated. Therefore, to understand homology, precise, comparative, independent statements of both biological and phylogenetic levels of homology are necessary. (shrink)

Despite the burgeoning research in recent years on what is called analogical reasoning and transfer, the problem of how similarity or invariant relations are fundamentally accessed is typically either unrecognized, or ignored in componential and computational analyses. The access problematic is not a new one, being outlined by the paradox found in Plato’s Meno. In order to understand the analogical-access problematic, it is suggested that the concepts of analogical relations including the lexical concept metaphor, isomorphic relation in mathematics, homology (...) in biology, stimulus generalization in psychology, transfer of learning in education, and transposition phenomena in perception, be reconceptualized as subsets of a higher-order domain as all share the problem of how invariance relations are generated and accessed. A solution is suggested based on two specific evolutionary and neurological models, coupled with findings regarding the cognitive importance of knowledge-base. The paper constitutes a reciprocal complementarity analysis of a previous paper on metaphor. A higher-order form of analogical reasoning called analogical progression is introduced. Implications for research are discussed that indicate the need for a paradigm shift. The paper concludes with a four-stage model of analogical access. (shrink)

Serial homology is widespread in organismal design, but the origin and individuation of these repeated structures appears to differ with the different types of serial homologues, and remains an intriguing and exciting topic of research. Here I focus on the evolution of the serially repeated eyespots that decorate the margin of the wings of nymphalid butterflies. In this system, unresolved questions relate to the evolutionary steps that lead to the appearance of these serial homologues and how their separate identities (...) evolved. I present and discuss two alternative hypotheses. The first proposes that eyespots first appeared as a row of undifferentiated repeated modules, one per wing compartment, that later become individuated. This individuation allowed eyespots to appear and disappear from specific wing compartments and also allowed eyespots to acquire different morphologies. The second hypothesis proposes that eyespots first appeared as individuated single units, or groups of units, that over evolutionary time were co‐opted into new compartments on the wing. I discuss the merits of each of these alternate hypotheses by finding analogies to other systems and propose research avenues for addressing these issues in the future. BioEssays 30:358–366, 2008. © 2008 Wiley Periodicals, Inc. (shrink)

A number of authors have pointed to “convergent evolution” as evidence for the central role of natural selection in shaping predictable trajectories of macroevolution. However, there are numerous conceptual and empirical difficulties that arise in broadly appealing to the frequency of homoplasy as evidence for a non-contingently constrained adaptational design space. Most important is the need to distinguish between convergent (externally constrained) and parallel (internally constrained) evolution, and to consider how the respective frequencies of these significantly different sources of homoplasy (...) affect a strong adaptationist view of life. In this paper, I critically evaluate Simon Conway Morris’s use of the homoplasy literature to support his argument for a non-contingent, counterfactually stable account of macroevolutionary pattern. In so doing, I offer a conception of parallelism which avoids the charge that it differs from convergence merely in degree and not in kind. I argue that although organisms sharing a homoplastic trait will also share varying degrees of homology, it is the underlying developmental homology with respect to the generators directly causally responsible for the homoplastic event that defines parallel evolution and non-arbitrarily distinguishes it from convergence. The notion of “screening-off” is used to distinguish the proximal generators of a homoplastic trait from its more distal genetic causes (such as a master control gene). (shrink)

Tetrapods have two distinct nasal chemosensory systems, the main olfactory system and the vomeronasal system (VNS). Defined by certain morphological components, the main olfactory system is present in all groups of vertebrates, while the VNS is found only in tetrapods. Previous attempts to identify a VNS precursor in teleost fish were limited by functional and morphological characters that could not clearly distinguish between homologous and analogous systems. In the past decade, several genes that specifically function in the VNS have been (...) discovered. Here we first describe recent evolutionary studies of mammalian VNS‐specific genes. We then review evidence showing the presence and tissue‐specific expression of the VNS‐specific genes in teleosts, as well as co‐expression patterns of these genes in specific regions of the teleost olfactory epithelium. We propose that a VNS precursor exists in teleosts and that its evolutionary origin predated the separation between teleosts and tetrapods. BioEssays 28: 709–718, 2006. © 2006 Wiley Periodicals, Inc. (shrink)

The problem of animal consciousness has profound implications on our concept of nature and of our place in the natural world. In philosophy of mind and cognitive neuroscience the problem of animal consciousness raises two main questions (Velmans, 2007): the distribution question (“are there conscious animals beside humans?”) and the phenomenological question (“what is it like to be a non-human animal?”). In order to answer these questions, many approaches take into account similarities and dissimilarities in animal and human behavior, e.g. (...) the use of language or tools and mirror self-recognition (Allen and Bekoff, 2007), however behavioral arguments don’t seem to be conclusive (Baars, 2005). Cognitive neuroscience is providing comparative data on structural and functional similarities, respectively called “homologies” and “analogies”. Many experimental results suggest that the thalamocortical system is essential for consciousness (Edelman and Tononi, 2000; Tononi, 2008). The argument from homology states that the general structure of thalamocortical system remained the same in the last 100-200 million years, for it is neuroanatomically similar in all the present and past mammals and it didn’t change much during phylogeny (Allen and Bekoff, 2007). The argument from analogy states that the key functional processes correlated with consciousness in humans are still present in all other mammals and many other animals (Baars, 2005). These processes are information integration through effective cortical connectivity (Massimini et al., 2005; Rosanova et al., 2012) and elaboration of information at a global level (Dehaene and Changeux, 2011). On this basis, the Cambridge Declaration on Consciousness states that all mammals, birds, and many other animals (such as octopuses) possess the neurological substrates of consciousness (Low et al., 2012). Conscious experience is private (Chalmers, 1995; Nagel, 1974) therefore the answer to the phenomenological question may be impossible. Nevertheless, cognitive neuroscience may provide an answer to the distribution question, showing that conscious experience is not limited to humans since it is a major biological adaptation going back millions of years. (shrink)

Work on analogy has been done from a number of disciplinary perspectives throughout the history of Western thought. This work is a multidisciplinary guide to theorizing about analogy. It contains 1,406 references, primarily to journal articles and monographs, and primarily to English language material. classical through to contemporary sources are included. The work is classified into eight different sections (with a number of subsections). A brief introduction to each section is provided. Keywords and key expressions of importance to (...) research on analogy are discussed in the introductory material. Electronic resources for conducting research on analogy are listed as well. (shrink)

Thomas Henry Huxley and Charles Darwin discovered in 1857 that they had a fundamental disagreement about biological classification. Darwin believed that the natural system should express genealogy while Huxley insisted that classification must stand on its own basis, independent of evolution. Darwin used human races as a model for his view. This private and long-forgotten dispute exposes important divisions within Victorian biology. Huxley, trained in physiology and anatomy, was a professional biologist while Darwin was a gentleman naturalist. Huxley agreed with (...) John Stuart Mill's rejection of William Whewell's sympathy for Linnaeus. The naturalists William Sharp Macleay, Hugh Strickland, and George Waterhouse worked to distinguish two kinds of relationship, affinity and analogy. Darwin believed that his theory could explain the difference. Richard Owen introduced the distinction between homology and analogy to anatomists, but the word homology did not enter Darwin's vocabulary until 1848, when he used the morphological concept of archetype in his work on Cirripedia. Huxley dropped the word archetype when Richard Owen linked it to Plato's ideal forms, replacing it with common plan. When Darwin wrote in the Origin of Species that the word plan gives no explanation, he may have had Huxley in mind. Darwin's preposterous story in the Origin about a bear giving birth to a kangaroo, which he dropped in the second edition, was in fact aimed at Huxley. (shrink)

We focus attention on the “resilience” property of republican liberty —a property that, at least in some formulations, is among those features that distinguish republican liberty from its more familiar “liberal” counterpart. Our analysis suggests, and builds on, an analogy between resilience and risk aversion. After a brief description of what we take republican liberty to be, we turn to the question of how to conceptualise resilience and how the notion might most plausibly be formulated. Examining alternative possible formulations (...) serves to suggest the analogy between resilience and risk aversion. In Section III, we exploit that analogy to develop some implications that resilience carries for republican institutional design. Section IV offers a brief summary. (shrink)

Classifying is a fundamental operation in the acquisition of knowledge. Taxonomic theory can help students of cognition, evolutionary psychology, ethology, anatomy, and sociobiology to avoid serious mistakes, both practical and theoretical. More positively, it helps in generating hypotheses useful to a wide range of disciplines. Composite wholes, such as species and societies, are “individuals” in the logical sense, and should not be treated as if they were classes. A group of analogous features is a natural kind, but a group of (...) homologous features is not. Imposing hypotheses justified only on the basis of nominalist, realist, phenomenalist, or conceptualist metaphysics upon the neurophysiology of organisms or upon the causes of behavior exemplifies the “psychologist's fallacy” of William James. Levels should be distinguished from their members and from classes of levels, and the ontological status of entities ranked at levels should be made clear. It is important not to confuse such categories as substance and process with one another. Several genetical terms, such as “gene” and chromosome,” are even more equivocal than has been realized. Discussions about units of selection, behavior, and thinking suffer from the ambiguity of a “unit of” an entity. An important source of misunderstanding about natural selection is the habit of treating it as an “agent”: in an important sense, natural selection does not “act” at all. (shrink)

Natural Sciences and the Social Sciences contains a series of explorations of the different ways in which the social sciences have interacted with the natural sciences. Usually, such interactions are considered to go only `one way': from the natural to the social sciences. But there are several important essays in this volume which show how developments in the social sciences have affected the natural sciences - even the `hard' science of physics. Other essays deal with various types of interaction since (...) the Scientific Revolution. In his general introductory chapter, Cohen sets some general themes concerning analogies and homologies and the use of metaphors, drawing specific examples from the use of concepts of physics by marginalist economists and of developments in the life sciences by organismic sociologists. The remaining chapters, which explore the different ways in which the social sciences and the natural sciences have actually interacted, are written by leaders in the field of history of science, drawn from a wide range of countries and disciplines. The book will be of great interest to all historians of science, philosophers interested in questions of methodology, economists and sociologists, and all social scientists concerned with the history of their subject and its foundations. (shrink)

The evolutionary embryologist Gavin Rylands de Beer can be viewed as one of the forerunners of modern evolutionary developmental biology in that he posed crucial questions and proposed relevant answers about the causal relationship between ontogeny and phylogeny. In his developmental approach to the phylogenetic phenomenon of homology, he emphasized that homology of morphological structures is to be identified neither with the sameness of the underlying developmental processes nor with the homology of the genes that are in (...) involved in the development of the structures. De Beer’s work on developmental evolution focused on the notion of heterochrony, arguing that paedomorphosis increases morphological evolvability and is thereby an important mode of evolution that accounts for the origin of many taxa, including higher taxa. (shrink)

This paper responds to the essay reviews by David Haig, Alan Love and Rachel Brown of my recently published book “Homology, Genes and Evolutionary Innovation”. The issues addressed here relate to: the notion of classes and individuals, issues of explanatory value of adaptive and structuralist explanations in evolutionary biology, the role of homology in evolutionary theory, the limits of a pluralist stance vis a vis alternative explanations of homology, as well as the question whether and to what (...) extend the perspective laid out in HGEI can be or should be transferred to other branches of study, like comparative behavioral biology. (shrink)

“Functional homology” appears regularly in different areas of biological research and yet it is apparently a contradiction in terms—homology concerns identity of structure regardless of form and function. I argue that despite this conceptual tension there is a legitimate conception of ‘homology of function’, which can be recovered by utilizing a distinction from pre-Darwinian physiology (use versus activity) to identify an appropriate meaning of ‘function’. This account is directly applicable to molecular developmental biology and shares a connection (...) to the theme of hierarchy in homology. I situate ‘homology of function’ within existing definitions and criteria for structural assessments of homology, and introduce a criterion of ‘organization’ for judging function homologues, which focuses on hierarchically interconnected interdependencies (similar to relative position and connection for skeletal elements in structural homology). This analysis of biological concepts has at least three broad philosophical consequences: (1) it provides the grounds for the study of behavior and psychological categories as homologues; (2) it demonstrates that philosophers who take selected effect function as primary effectively ignore large portions of comparative, structural, and experimental research, thereby misconstruing biological reasoning and knowledge; and, (3) it underwrites causal generalizations, which illuminates inferences made from model organisms in experimental biology. (shrink)

Homology is a natural kind term and a precise account of what homology is has to come out of theories about the role of homologues in evolution and development. Definitions of homology are discussed with respect to the question as to whether they are able to give a non-circular account of the correspondence or sameness referred to by homology. It is argued that standard accounts tie homology to operational criteria or specific research projects, but are (...) not yet able to offer a concept of homology that does not presuppose a version of homology or a comparable notion of sameness. This is the case for phylogenetic definitions that trace structures back to the common ancestor as well as for developmental approaches such as Wagner's biological homology concept. In contrast, molecular homology is able to offer a definition of homology in genes and proteins that explicates homology by reference to more basic notions. Molecular correspondence originates by means of specific features of causal processes. It is speculated that further understanding of morphogenesis might enable biologists to give a theoretically deeper definition of homology along similar lines: an account which makes reference to the concrete mechanisms that operate in organisms. (shrink)

I defend the view that many biological categories are defined by homology against a series of arguments designed to show that all biological categories are defined, at least in part, by selected function. I show that categories of homology are `abnormality inclusive'—something often alleged to be unique to selected function categories. I show that classifications by selected function are logically dependent on classifications by homology, but not vice-versa. Finally, I reject the view that biologists must use considerations (...) of selected function to abstract away from variation and pathology to form a canonical description of a class of biological systems. (shrink)

This paper investigates conceptions of explanation, teleology, and analogy in the works of Immanuel Kant (1724-1804) and Georges Cuvier (1769-1832). Richards (2000, 2002) and Zammito (2006, 2012, 2018) have argued that Kant’s philosophy provided an obstacle for the project of establishing biology as a proper science around 1800. By contrast, Russell (1916), Outram (1986), and Huneman (2006, 2008) have argued, similar to suggestions from Lenoir (1989), that Kant’s philosophy influenced the influential naturalist Georges Cuvier. In this article, I wish (...) to expand on and further the work of Russell, Outram, and Huneman by adopting a novel perspective on Cuvier and considering (a) the similar conceptions of proper science and explanation of Kant and Cuvier, and (b) the similar conceptions of the role of teleology and analogy in the works of Kant and Cuvier. The similarities between Kant and Cuvier show, contrary to the interpretation of Richards and Zammito, that some of Kant’s philosophical ideas, whether they derived from him or not, were fruitfully applied by some life scientists who wished to transform life sciences into proper sciences around 1800. However, I also show that Cuvier, in contrast to Kant, had a workable strategy for transforming the life sciences into proper sciences, and that he departed from Kant’s philosophy of science in crucial respects. (shrink)

In this article, I examine the issue of the alleged circularity in the determination of homologies within cladistic analysis. More specifically, I focus on the claims made by the proponents of the dynamic homology approach, regarding the distinction (sometimes made in the literature) between primary and secondary homology. This distinction is sometimes invoked to dissolve the circularity issue, by upholding that characters in a cladistic data matrix have to be only primarily homologous, and thus can be determined independently (...) of phylogenetic hypotheses, by using the classical Owenian criteria (for morphological characters) or via multiple sequence alignment (for sequence data). However, since in the dynamic approach, sequence data can be analyzed without being pre-aligned, proponents have claimed that the distinction between primary and secondary homology has no place within cladistics. I will argue that this is not the case, since cladistic practice within the dynamic framework does presuppose primary homology statements at a higher level. (shrink)

By linking the concepts of homology and morphological organization to evolvability, this paper attempts to (1) bridge the gap between developmental and phylogenetic approaches to homology and to (2) show that developmental constraints and natural selection are compatible and in fact complementary. I conceive of a homologue as a unit of morphological evolvability, i.e., as a part of an organism that can exhibit heritable phenotypic variation independently of the organism’s other homologues. An account of homology therefore consists (...) in explaining how an organism’s developmental constitution results in different homologues/characters as units that can evolve independently of each other. The explanans of an account of homology is developmental, yet the very explanandum is an evolutionary phenomenon: evolvability in a character-by-character fashion, which manifests itself in phylogenetic patterns as recognized by phylogenetic approaches to homology. While developmental constraints and selection have often been viewed as antagonistic forces, I argue that both are complementary as they concern different parts of the evolutionary process. Developmental constraints, conceived of as the presence of the same set of homologues across phenotypic change, pertain to how heritable variation can be generated in the first place (evolvability), while natural selection operates subsequently on the produced variation. (shrink)

Confirmation theorists seek to define a function that will take into account the various factors relevant in determining the degree to which an hypothesis is confirmed by its evidence. Among confirmation theorists, only Rudolf Carnap has constructed a system which purports to consider factors in addition to the number of instances, viz. the variety manifested by the instances and the amount of analogy between the instances. It is the purpose of this paper to examine the problem which these additional (...) factors raise for confirmation theory, and to prove that, despite Carnap's claim, no confirmation function satisfying the requirements he has specified can take account of variety and analogy. This result is first proved for a special case, and then, in a subsequent section, is generalized through the introduction of a theorem (the proof of which is given in Appendix I). In the final section of the paper it is shown that, contrary to a claim which Carnap has made, not even the concept of the "logical width" of a predicate will enable confirmation functions satisfying his requirements to take adequate account of analogies between instances. (shrink)

This paper commences from the critical observation that the Turing Test (TT) might not be best read as providing a definition or a genuine test of intelligence by proxy of a simulation of conversational behaviour. Firstly, the idea of a machine producing likenesses of this kind served a different purpose in Turing, namely providing a demonstrative simulation to elucidate the force and scope of his computational method, whose primary theoretical import lies within the realm of mathematics rather than cognitive modelling. (...) Secondly, it is argued that a certain bias in Turing’s computational reasoning towards formalism and methodological individualism contributed to systematically unwarranted interpretations of the role of the TT as a simulation of cognitive processes. On the basis of the conceptual distinction in biology between structural homology vs. functional analogy, a view towards alternate versions of the TT is presented that could function as investigative simulations into the emergence of communicative patterns oriented towards shared goals. Unlike the original TT, the purpose of these alternate versions would be co-ordinative rather than deceptive. On this level, genuine functional analogies between human and machine behaviour could arise in quasi-evolutionary fashion. (shrink)

"The book's major parts, one on polarity and the other on analogy, introduce the reader to the patterns of thinking that are fundamental not only to Greek philosophy but also to classical civilization as a whole. As a leading classicist in his own right, Lloyd is an impeccable guide. His sophistication in adducing anthropological parallels to Greek models of polarity and analogy broadens his perspective, making him a forerunner in the study of what we are now used to (...) calling semiotics. A striking example of Lloyd's approach is his re-examination of the dichotomy of Olympian and chthonian gods in ancient Greek world view, which surpasses the reductionist and pseudo-historical models of sky-gods and earth-goddesses that are still commonly invoked to account for polarities in Greek pantheon. "In the second part, dealing with analogy, three crucial metaphorical models for the universe turn out to be basis for a dazzlingly wide variety of scientific and philosophical perspectives. Each model is tested in the whole spectrum of Greek artistic, philosophical and scientific thought. This work is a treasure-house of insights for experts and non experts alike." --Gregory Nagy, Harvard University. (shrink)

Homology is the similarity between organisms due to common ancestry. Introduced by Richard Owen in 1843 in a paper entitled “Lectures on comparative anatomy and physiology of the invertebrate animals”, the concept of homology predates Darwin's “Origin of Species” and has been very influential throughout the history of evolutionary biology. Although homology is the central concept of all comparative biology and provides a logical basis for it, the definition of the term and the criteria of its application (...) remain controversial. Here, I will discuss homology in the context of the hierarchy of biological organization. I will provide insights gained from an exemplary case study in evolutionary developmental biology that indicates the uncoupling of homology at different levels of biological organization. I argue that continuity and hierarchy are separate but equally important issues of homology. BioEssays 30:653–658, 2008. © 2008 Wiley Periodicals, Inc. (shrink)

This paper studies the role of faces in animal life to gain insight into Merleau-Ponty’s philosophy, especially his later ontology. The relation between animal faces and moving, animal bodies involves a peculiar, expressive logic. This logic echoes the physiognomic structure of perception that Merleau-Ponty detects in his earlier philosophy, and exemplifies and clarifies a logic elemental to his later ontology, especially to his concept of an invisible that is of the visible. The question why the logic of the face can (...) manifest this analogy or homology with the logic of perception and ontology is treated through a study of embryology, which suggests that the logic of the face ramifies a deeper logic of being. Methodologically, the face is taken as something like a lens into the onto-logic of being. This lens suggests that what underlies Merleau-Ponty’s later ontology is a logic of animality. (shrink)

The expressivist account of knowledge attributions, while claiming that these attributions are nonfactual, also typically holds that they retain a factual component. This factual component involves the attribution of a belief. The aim of this work is to show that considerations analogous to those motivating an expressivist account of knowledge attributions can be applied to belief attributions. As a consequence, we claim that expressivists should not treat the so-called factual component as such. The phenomenon we focus on to claim that (...) belief attributions are non-factual is that of normative doxastic disagreement. We show through several examples that this kind of disagreement is analogous to that of the epistemic kind. The result will be a doxastic expressivism. Finally, we answer some objections that our doxastic expressivism could seem to face. (shrink)

The concept of homology is the most solid theoretical basis elaborated by the morphological thinking during its history. The enucleation of some general criteria for the interpretation of homology is today a fundamental tool for life sciences, and for restoring their own opening to the question of qualitative innovation that arose so powerfully in the original Darwinian project. The aim of this paper is to verify the possible uses of the concept of compositional homology in order to (...) provide of an adequate understanding of the dynamics of creative thinking. (shrink)

With his 1951 publication of “Two Dogmas of Empiricism”, W.V.O. Quine launched a series of arguments against the idea that analyticity – “truth in virtue of meaning alone” – could be a philosophically explanatory notion. While his rejection represents a significant philosophical stride in its own right, to which many in the contemporary philosophical scene pay verbal respects, the revolutionary consequences of this insight often go ignored today. Much of current professional philosophy in virtually every sub-discipline carries on as though (...) analyticity were a viable notion, because much of it aims at conceptual analysis – the “discovery” of the meanings of philosophical concepts, such as ‘mind’, ‘truth’, ‘meaning’, ‘person’, and ‘right’. Rejecting analyticity as a viable philosophical notion undermines such efforts insofar as they aim at conceptual analysis. If philosophers give up the notion of analyticity, as they should, they are left with the questions of what goals and methods are viable for the analysis of concepts. One option is to concentrate effort on explication of familiar concepts; explication is an alternative to conceptual analysis in that it does not aim to dig out analytic truths about given concepts. Rather, it identifies what is interesting about a certain vague concept, and generates a new, more rigorous and precise concept to replace the old one. The justification for the replacement, in the most appealing cases, is in the possibilities for understanding that are introduced by the new explication. Examples of explication in my sense are the replacement of ordinary grammatical terms by the operators of first order logic, replacement of ‘game’ with a decision theoretic notion of games in game theory, and replacement of ‘true’ with ‘true-in-L’ in Tarskian semantics. Advances of this sort depart consciously in some ways from ordinary usage of the terms they focus on, but in so departing, they develop new possibilities and perspectives for rigorously understanding the world. In the dissertation that follows, I not only recommend explication as a method, I also put it into practice. I develop an explication of the sameness and difference relations that relies solely on the relation of denotation between a predicate and objects of which it is true. Two things are the same with respect to R just in case there is at least one R-predicate that denotes them in common. I used this explication to develop related explications of similarity and analogy. These latter explications, I use to critique the current fashion of research on similarity and analogy in cognitive psychology. These studies have produced an immense body of interesting and promising work in the past several decades; however, much of the research design and data interpretation harbors philosophical errors and so often imports unjustified prejudices from the researchers themselves. My explication offers alternative formulations of the most salient aspects of these research traditions, formulations that avoid the errors of past research and, more importantly, suggest new research questions and possibilities that would not occur under the previous, philosophically muddled paradigm. The project closes with an application of my explication of analogy to a discussion and critique of the philosophical literature on analogical arguments. While philosophers and logicians have developed workable theories for deductive and inductive reasoning, very little work of promise has been done on analogical arguments. My explication of analogy is used to diagnose the problems of past attempts by philosophers to develop logics for analogical arguments and suggest, in light of the psychological research on analogy and the use of analogies in scientific thought, that philosophers should focus on analogical arguments as creative, heuristic devices, rather than as truth-preserving inference structures. (shrink)

Homology continues to be a concept of central importance in the study of phylogenetic relations, but its relation to ontogenetic processes remains problematical. A definition of homology in terms of equivalent morphogenetic processes is defined and applied to the comparative study of tetrapod limbs. This allows for a consistent treatment of relations of similarity and difference of appendage structure in vertebrates, and the distinction between fishes fins and tetrapod limbs in terms of the concept of equivalence is described. (...) The role of genes can also be clarified in this context, in particular the influence of the Hox 4 complex in determining digit character and the homeotic transformations that arise from changes in their expression patterns. It is argued that these observations are not compatible with the notion of homology between individual digits (I, II, III, etc.) across the tetrapods, and that homology cannot be consistently identified with gene action. The relations between homology and the properties of the morphogenetic limb field are discussed. (shrink)