Online research in philosophy

This paper aims to identify the key characteristics of model organisms that make them a specific type of model within the contemporary life sciences: in particular, we argue that the term “model organism” does not apply to all organisms used for the purposes of experimental research. We explore the differences between experimental and model organisms in terms of their material and epistemic features, and argue that it is essential to distinguish between their representational (...) scope and representational target. We also examine the characteristics of the communities who use these two types of models, including their research goals, disciplinary affiliations, and preferred practices to show how these have contributed to the conceptualization of a model organism. We conclude that model organisms are a specific subgroup of organisms that have been standardized to fit an integrative and comparative mode of research, and that it must be clearly distinguished from the broader class of experimental organisms. In addition, we argue that model organisms are the key components of a unique and distinctively biological way of doing research using models. (shrink)

Through an examination of the actual research strategies and assumptions underlying the Human Genome Project (HGP), it is argued that the epistemic basis of the initial model organism programs is not best understood as reasoning via causal analog models (CAMs). In order to answer a series of questions about what is being modeled and what claims about the models are warranted, a descriptive epistemological method is employed that uses historical techniques to develop detailed accounts which, in turn, help to (...) reveal forms of reasoning that are explicit, or more often implicit, in the practice of a particular field of scientific study. It is suggested that a more valid characterization of the reasoning structure at work here is a form of case-based reasoning. This conceptualization of the role of model organisms can guide our understanding and assessment of these research programs, their knowledge claims and progress, and their limitations, as well as how we educate the public about this type of biomedical research. (shrink)

In this rejoinder to the three preceding comments, I provide some additional philosophical warrant for the biomedical sciences' focus on model organisms. I then relate the inquiries on model systems to the concept of 'deep homology', and indicate that the issues that appear to divide my commentators and myself are in part empirical ones. I cite recent work on model organisms, and especially C. elegans that supports my views. Finally, I briefly readdress some of the (...) issues raised by Developmental Systems Theory. (shrink)

Robert Rosen has proposed several characteristics to distinguish “simple” physical systems (or “mechanisms”) from “complex” systems, such as living systems, which he calls “organisms”. The Memory Evolutive Systems (MES) introduced by the authors in preceding papers are shown to provide a mathematical model, based on category theory, which satisfies his characteristics of organisms, in particular the merger of the Aristotelian causes. Moreover they identify the condition for the emergence of objects and systems of increasing complexity. As an (...) application, the cognitive system of an animal is modeled by the “MES of cat-neurons” obtained by successive complexifications of his neural system, in which the emergence of higher order cognitive processes gives support to Mario Bunge’s “emergentist monism.”. (shrink)

Model organisms are central to contemporary biology and studies of embryogenesis in particular. Biologists utilize only a small number of species to experimentally elucidate the phenomena and mechanisms of development. Critics have questioned whether these experimental models are good representatives of their targets because of the inherent biases involved in their selection (e.g., rapid development and short generation time). A standard response is that the manipulative molecular techniques available for experimental analysis mitigate, if not counterbalance, this concern. But (...) the most powerful investigative techniques and molecular methods are applicable to single-celled organisms (‘microbes’). Why not use unicellular rather than multicellular model organisms, which are the standard for developmental biology? To claim that microbes are not good representatives takes us back to the original criticism leveled against model organisms. Using empirical case studies of microbes modeling ontogeny, we break out of this circle of reasoning by showing: (a) that the criterion of representation is more complex than earlier discussions have emphasized; and, (b) that different aspects of manipulability are comparable in importance to representation when deciding if a model organism is a good model. These aspects of manipulability harbor the prospect of enhancing representation. The result is a better understanding of how developmental biologists conceptualize research using experimental models and suggestions for underappreciated avenues of inquiry using microbes. More generally, it demonstrates how the practical aspects of experimental biology must be scrutinized in order to understand the associated scientific reasoning. (shrink)

How to use a model organism to study phenotypic integration and constraints on evolution.

Selection operates at many levels. Robert Brandon has distinguished the question of the level of selection from the unit of selection, arguing that the phenotype is commonly the target of selection, whatever the unit of selection might be. He uses "screening off" as a criterion for distinguishing the level of selection. Cave animals show a common morphological pattern which includes hypertrophy of some structures and reduction or loss of others. In a study of a cave dwelling crustacean, Gammarus minus, (...) we find evidence for selection for both increased antennal size and reduction of eyes. The genetic structure of the population does not support the view that the phenotype screens off the genotype in explaining the differences in fitness. Nonetheless, the results do indicate that the level of selection is at least at the level of the phenotype in both cases. (shrink)

Managing ethical behavior is a one of the most pervasive and complex problems facing business organizations today. Employees' decisions to behave ethically or unethically are influenced by a myriad of individual and situational factors. Background, personality, decision history, managerial philosophy, and reinforcement are but a few of the factors which have been identified by researchers as determinants of employees' behavior when faced with ethical dilemmas. The literature related to ethical behavior is reviewed in this article, and a model for (...) understanding ethical behavior in business organizations is proposed. It is concluded that managing ethics in business organizations requires that managers engage in a concentrated effort which involves espousing ethics, behaving ethically, developing screening mechanisms, providing ethical training, creating ethics units and reinforcing ethical behavior. (shrink)

The purpose of this paper is to analyze the relationship between national culture and ethical decision making. Established theories of ethics and moral development are reviewed and a culture-based model of ethical decision making in organizations is derived. Although the body of knowledge in both cross-cultural management and ethics is well documented, researchers have failed to integrate the influence of cultural values into the ethical decision-making paradigm. A conceptual understanding of how managers from different nations make decisions about highly (...) ethical issues will provide business ethics researchers with a sound theoretical foundation upon which future empirical inquiry can be based. (shrink)

This article answers several calls—coming as well from corporate governance practitioners as from corporate governance researchers—concerning the possibility of complying simultaneously with requirements of innovation and ethics. Revealing the long-term orientation as the variable which permits us to link the principal goal of organization, being “survival,” with innovation and ethic, the article devises a framework for incorporating ethics into a company’s processes and strategies for innovation. With the principal goal of organizations being “survival” in the long-term, it is assumed that (...) innovation is necessary in order to realize a going concern. Firms that do not innovate and adapt to rapidly changing business environments are less likely to be sustainable. Thus, it is in a business’ best interests to adopt an innovation process for long-term success. We posit that there are two simultaneous sources of innovation and change that are unavoidable and embedded in the corporate landscape. First, we argue for genetically embedded, Darwinian explanations for adaptations that enable an entity’s survival. This view is combined with more conventional, social science explanations for change. Our new, comprehensive model of the governance of innovation processes hinges on the one hand on an organization’s long-term orientation, which we argue, is not possible without a consideration of an ethical dimension. On the other hand, the model employs, for the first time, the concept of duality, in order to make the positive coexistence of innovation and ethic analytically visible. Guided by this concept the roots of the ethic within innovation are traced from both natural science forces for change, and cultural pressures operating on members of an organization. We present our Integrated Causal Model of Innovation and propose theoretical relationships that will generate numerous avenues for future research in the field, and help managers to reorient their governance strategies. (shrink)

This paper emphasizes the crucial role of variation, at several different levels, for a detailed historical understanding of the development of the biomedical sciences. Going beyond valuable recent studies that focus on model organisms, experimental systems and instruments, we argue that all of these categories can be accommodated within our approach, which pays special attention to organismal and cultural variation. Our empirical examples are drawn in particular from recent historical studies of nineteenth- and early twentieth-century genetics and physiology. (...) Based on the quasi-paradoxical conclusion that biological and cultural variation both constrains and enables innovation in the biomedical sciences, we argue that more attention should be paid to variation as an analytical category in the historiography of the life sciences. (shrink)

This paper examines the idea, commonly presupposed but seldom explicitly stated in discussions of certain philosophical problems, that the objects and phenomena of the world are structured in a hierarchy of "levels", from the bottom level of microparticles to the levels of cells and biological organisms and then to the levels of creatures with mentality and social groups of such creatures. Parallel to this "layered model" of the natural world is an ordering of the sciences, with physics as (...) our "basic" science and the "special sciences" forming a ladder-like hierarchy, from chemistry to biology to psychology and the social sciences, all grounded in basic physics. Focusing on two formulations of this model, the emergentist model of C. Lloyd Morgan and the reductionist model due to Paul Oppenheim and Hilary Putnam, the paper discusses such questions as these:What makes a given level of objects "higher" or "lower" than another? What makes a given property "higher" or "lower" than another property. Are objects and properties always comparable with respect to "higher" and "lower"? Can an overarching hierarchy of entities and properties be developed that comprehends the entire natural order? The issues turn out to be quite complex, and no definitive general conclusions are reached. (shrink)

The paper proposes a process-based model for an ontology that encompasses the emergence of process systems generated by increasingly complex levels of organization. Starting with a division of processes into those that are persistent and those that are fleeting, the model builds through a series of exclusive and exhaustive disjunctions. The crucial distinction is between those persistent and cohesive systems that are energy wells, and those that are far-from-equilibrium. The latter are necessarily open; they can persist only by (...) interaction with their environments. Further distinctions, developed by means of the notions of self-maintenance and error detection, lead to the identification of complex biological organisms that are flexible learners, some of which are self-conscious and form themselves into social institutions. This model provides a non-reductive model for understanding human beings as both embodied and yet emergent. In particular, it provides a way of characterizing action as ‘metaphysically deep’, not an ontological embarrassment within an otherwise physicalist world. (shrink)

The increased interactivity and connectivity of computational devices along with the spreading of computational tools and computational thinking across the fields, has changed our understanding of the nature of computing. In the course of this development computing models have been extended from the initial abstract symbol manipulating mechanisms of stand-alone, discrete sequential machines, to the models of natural computing in the physical world, generally concurrent asynchronous processes capable of modelling living systems, their informational structures and dynamics on both symbolic and (...) sub-symbolic information processing levels. Present account of models of computation highlights several topics of importance for the development of new understanding of computing and its role: natural computation and the relationship between the model and physical implementation, interactivity as fundamental for computational modelling of concurrent information processing systems such as living organisms and their networks, and the new developments in logic needed to support this generalized framework. Computing understood as information processing is closely related to natural sciences; it helps us recognize connections between sciences, and provides a unified approach for modeling and simulating of both living and non-living systems. (shrink)

Despite the existence of a large number of models to explain the ethical decision-making process, rarely have the models been tested. This research validated the use of such models by showing that both issue-contingent variables and individual characteristics affect two commonly-proposed model components: i.e., moral judgment and moral intent. As proposed by Jones' (1991) ethical decision-making model and elaborated on by the author, the main effect of an issue-contingent variable, social consensus, and a closely-related variable, seriousness of consequences, (...) influenced both moral judgment and moral intent.Many ethical decision-making models also argue for the inclusion of individual characteristics in the decision-making process. This study proposed and found that the individual characteristics of rule orientation and denial of responsibility influenced moral judgment and moral intent, respectively. However, contrary to some models, interactions between issue-contingent variables and individual characteristics were insignificant relative to the main effects variables. The relationships found have implications for future model testing, as well as for practising managers. (shrink)

While a large amount of work has been done to understand public good and to construct conceptual models explaining the antecedents of collective action, current literature is flawed in that most of them only examine the lower-level public good and attribute people's participation in collective action to external variables. It pays little to the developmental nature of collective action. Utilizing Ken Wilber's theory of integral psychology, this paper proposes a holistic definition of public good, emphasizing its different levels of development. (...) The paper also introduces an integral model of collective action that explains the antecedents of collective action in terms of not only the external individual behavior and social factors but also the internal aspects of individuals, organization, and society. (shrink)

Despite a strong sensitization to the corruption problem and a large body of interdisciplinary research, scientists have only rarely investigated which motivational, volitional, emotional, and cognitive components make decision makers in companies act corruptly. Thus, we examined how their interrelation leads to corruption by proposing an action model. We tested the model using a business simulation game with students as participants. Results of the PLS structural equation modeling showed that both an attitude and subjective norm favoring corruption led (...) to a desire to act corruptly. Given high perceived behavioral control, this desire was transformed into an intention that finally resulted in corrupt action. Components related to general private and professional goals did not allow for any prediction. Based on these results, we discuss preventative measures and methods for combating intra- and inter-organizational corruption. (shrink)

Background : The prenatal migration of gonadotropin-releasing hormone (GnRH) neurosecretory neurons allows nutrients and human pheromones to alter GnRH pulsatility, which modulates the concurrent maturation of the neuroendocrine, reproductive, and central nervous systems, thus influencing the development of ingestive behavior, reproductive sexual behavior, and other behaviors. Methods : This model details how chemical ecology drives adaptive evolution via: (1) ecological niche construction, (2) social niche construction, (3) neurogenic niche construction, and (4) socio-cognitive niche construction. This model exemplifies the (...) epigenetic effects of olfactory/pheromonal conditioning, which alters genetically predisposed, nutrient-dependent, hormone-driven mammalian behavior and choices for pheromones that control reproduction via their effects on luteinizing hormone (LH) and systems biology. Results : Nutrients are metabolized to pheromones that condition behavior in the same way that food odors condition behavior associated with food preferences. The epigenetic effects of olfactory/pheromonal input calibrate and standardize molecular mechanisms for genetically predisposed receptor-mediated changes in intracellular signaling and stochastic gene expression in GnRH neurosecretory neurons of brain tissue. For example, glucose and pheromones alter the hypothalamic secretion of GnRH and LH. A form of GnRH associated with sexual orientation in yeasts links control of the feedback loops and developmental processes required for nutrient acquisition, movement, reproduction, and the diversification of species from microbes to man. Conclusion : An environmental drive evolved from that of nutrient ingestion in unicellular organisms to that of pheromone-controlled socialization in insects. In mammals, food odors and pheromones cause changes in hormones such as LH, which has developmental affects on pheromone-controlled sexual behavior in nutrientdependent reproductively fit individuals across species of vertebrates. Keywords : nutrition; metabolism; odors; adaptation; evolve (Published: 14 June 2013) Citation: Socioaffective Neuroscience & Psychology 2013, 3 : 20553 - http://dx.doi.org/10.3402/snp.v3i0.20553. (shrink)

I argue that everyday folk-psychological skill might best be explained in terms of the deployment of something like a model, in a specific sense drawn from recent philosophy of science. Theoretical models in this sense do not make definite commitments about the systems they are used to understand; they are employed with a particular kind of flexibility. This analysis is used to dissolve the eliminativism debate of the 1980s, and to transform a number of other questions about the status (...) and role of folk psychology. (shrink)

I compare Frith and colleagues’ influential comparator account of how the sense of agency is elicited to the multifactorial weighting model advocated by Synofzik and colleagues. I defend the comparator model from the common objection that the actual sensory consequences of action are not needed to elicit the sense of agency. I examine the comparator model’s ability to explain the performance of healthy subjects and those suffering from delusions of alien control on various self-attribution tasks. It transpires (...) that the comparator model needs case-by-case adjustment to deal with problematic data. In response to this, the multifactorial weighting model of Synofzik and colleagues is introduced. Although this model is incomplete, it is more naturally constrained by the cases that are problematic for the comparator model. However, this model may be untestable. I conclude that currently the comparator model approach has stronger support than the multifactorial weighting model approach. (shrink)

"New wave" reductionism aims at advancing a kind of reduction that is stronger than unilateral dependency of the mental on the physical. It revolves around the idea that reduction between theoretical levels is a matter of degree, and can be laid out on a continuum between a "smooth" pole (theoretical identity) and a "bumpy" pole (extremely revisionary). It also entails that both higher and lower levels of the reductive relationship sustain some degree of explanatory autonomy. The new wave predicts that (...) reductions of folk psychology to neuroscience will be located in the middle of this continuum; as neuroscientific evidence about mental states checks in, theoretical folk psychology will therefore be moderately revised. However, the model has conceptual problems which preclude its success in reviving reductionism, and its commitment to a syntactic approach wrecks its attempt to rescue folk psychology. Moreover, the architecture of the continuum operates on a category mistake that sneaks in an eliminativist conclusion. I argue that new wave reductionism therefore tends to be eliminativism in disguise. (shrink)

Abstract of “Reason and the structure of Davidson’s ‘Desire-Belief-Model’ ” by Henk bij de Weg -/- In the present discussion in the analytic theory of action, broadly two models for the explanation or justification of actions can be distinguished: the internalist and the externalist model. Against this background, I discuss Davidson’s version of the internalist Desire-Belief Model (DBM). First, I show that what Davidson calls “pro attitude” (a main element of his concept of reason) has two distinct (...) meanings. An implication of this is that Davidson’s DBM actually comprises two different models: the “classical” DBM and a model that has an extra premise, the “nonclassical” model. However, from another point of view one can say that the classical DBM is the nonclassical model in which a premise is missing. In order to determine which viewpoint is correct, I introduce Schütz’s distinction between “because-motives” and “in-order-to-motives”. With the help of this distinction, I can show that the classical DBM is an incomplete version of the nonclassical model. Besides of the premise that refers to the agent’s pro attitude, we need this extra premise in order to refer to the occasion as experienced by the agent that makes him or her act. Only then can we fully explain or justify an action. (shrink)

Thomas Morris and Richard Swinburne have recently defended what they call the ‘two-minds’ model of the Incarnation. This model, which I refer to as the ‘inclusion model’ or ‘inclusionism’, claims that Christ had two consciousnesses, a human and a divine consciousness, with the former consciousness contained within the latter one. I begin by exploring the motivation for, and structure of, inclusionism. I then develop a variety of objections to it: some philosophical, others theological in nature. Finally, I (...) sketch a variant of inclusionism which I call ‘restricted inclusionism’ (RI); RI can evade many, but not all, of the objections to standard inclusionism. (shrink)

Central to Spinoza’s ethical theory is a model of human nature: the model of the free man. In this paper I argue that the idea of the free man is an inadequate idea when this is understood as the idea of a perfectly free finite thing. But when properly understood--that is, when the idea of the free man is understood as the idea of the perfection of our nature and power--the idea of the free man is a way (...) of conceiving God and is, as such, an adequate idea. (shrink)

Borrett, Kelly, and Kwan follow the lead of Merleau-Ponty and develop a theory of neural-network modeling that emerges out of what they find wrong with current approaches to thought and action. Specifically, they take issue with "cognitivism" and its tendency to model cognitive agents as controlling, representational systems. While attempting to make the point that pre-predicative experience/action/place (i.e. grasping) involves neither representation nor control, the authors imply that control-theoretic concepts and representationalism necessarily go hand-in-hand. The purpose of the present (...) paper is to demonstrate that this is not the case. Rather, it will be argued that such necessity is only assumed because the authors attempt to apply the control theory of servo-mechanisms to the behavior of organisms. By adopting this engineering control-theoretic perspective, the authors are led, as are most of the cognitivists with whom they disagree, to overlook critical aspects of how it is that biological systems do what they do. It is the ignoring of these critical aspects of biological control, due to the acceptance of an engineering approach to control, that makes it appear as though control theory and representationalism necessarily go hand-in-hand. (shrink)

The success of particle detection in high energy physics colliders critically depends on the criteria for selecting a small number of interactions from an overwhelming number that occur in the detector. It also depends on the selection of the exact data to be analyzed and the techniques of analysis. The introduction of automation into the detection process has traded the direct involvement of the physicist at each stage of selection and analysis for the efficient handling of vast amounts of data. (...) This tradeoff, in combination with the organizational changes in laboratories of increasing size and complexity, has resulted in automated and semi-automated systems of detection. Various aspects of the semi-automated regime were greatly diminished in more generic automated systems, but turned out to be essential to a number of surprising discoveries of anomalous processes that led to theoretical breakthroughs, notably the establishment of the Standard Model of particle physics. The automated systems are much more efficient in confirming specific hypothesis in narrow energy domains than in performing broad exploratory searches. Thus, in the main, detection processes relying excessively on automation are more likely to miss potential anomalies and impede potential theoretical advances. I suggest that putting substantially more effort into the study of electron–positron colliders and increasing its funding could minimize the likelihood of missing potential anomalies, because detection in such an environment can be handled by the semi-automated regime—unlike detection in hadron colliders. Despite virtually unavoidable excessive reliance on automated detection in hadron colliders, their development has been deemed a priority because they can operate at currently highest energy levels. I suggest, however, that a focus on collisions at the highest achievable energy levels diverts funds from searches for potential anomalies overlooked due to tradeoffs at the previous energy thresholds. I also note that even in the same collision environment, different research strategies will opt for different tradeoffs and thus achieve different experimental outcomes. Finally, I briefly discuss current searches for anomalous process in the context of the previous analysis. (shrink)

Therefore, the text is divided into three parts: an introduction into mathematical logic (Chapter 1), model theory (Chapters 2 and 3), and the model theoretic ...

The biological sciences have become increasingly reliant on so-called 'model organisms'. I argue that in this domain, the concept of a descriptive model is essential for understanding scientific practice. Using a case study, I show how such a model was formulated in a preexplanatory context for subsequent use as a prototype from which explanations ultimately may be generated both within the immediate domain of the original model and in additional, related domains. To develop this concept (...) of a descriptive model, I focus on use of the nematode worm Caenorhabditis elegans and the wiring diagrams that were developed as models of its neural structure. In addition, implications of the concept of a descriptive model, particularly its relevance for the data-phenomena distinction as well as its relation to long-standing debates on realism, are briefly examined. (shrink)

This paper contrasts and compares strategies of model-building in condensed matter physics and biology, with respect to their alleged unequal susceptibility to trade-offs between different theoretical desiderata. It challenges the view, often expressed in the philosophical literature on trade-offs in population biology, that the existence of systematic trade-offs is a feature that is specific to biological models, since unlike physics, biology studies evolved systems that exhibit considerable natural variability. By contrast, I argue that the development of ever more sophisticated (...) experimental, theoretical, and computational methods in physics is beginning to erode this contrast, since condensed matter physics is now in a position to measure, describe, model, and manipulate sample-specific features of individual systems – for example at the mesoscopic level – in a way that accounts for their contingency and heterogeneity. Model-building in certain areas of physics thus turns out to be more akin to modeling in biology than has been supposed and, indeed, has traditionally been the case. (shrink)

The present paper draws on climate science and the philosophy of science in order to evaluate climate-model-based approaches to assessing climate projections. We analyze the difficulties that arise in such assessment and outline criteria of adequacy for approaches to it. In addition, we offer a critical overview of the approaches used in the IPCC working group one fourth report, including the confidence building, Bayesian and likelihood approaches. Finally, we consider approaches that do not feature in the IPCC reports, including (...) three approaches drawn from the philosophy of science. We find that all available approaches face substantial challenges, with IPCC approaches having as a primary source of difficulty their goal of providing probabilistic assessments. (shrink)

Aspects of the history of behavioural science are reviewed, pointing to its fragmented and faction-ridden nature. The emergence of evolutionary psychology (EP) is viewed in this context. With the help of a dual-layered model of behavioural control, the case is made for a more integrative perspective towards EP. The model's application to both behaviour and complex human information processing is described. Similarities in their control are noted. It is suggested that one layer of control (‘on-line’) corresponds to the (...) encapsulated modules of EP whereas the off-line controls provide the plasticity and flexibility suggested by its critics. (shrink)

The traditional model of human cognition (TMHC) postulates an ontological and/or structural gap between conscious and unconscious mental representations. By and large, it sees higher-level mental processes as commonly conceptual or symbolic in nature and therefore conscious, whereas unconscious, lower-level representations are conceived as non-conceptual or sub-symbolic. However, experimental evidence belies this model, suggesting that higher-level mental processes can be, and often are, carried out in a wholly unconscious way and/or without conceptual representations, and that these can be (...) processed unconsciously. This entails that the TMHC, as well as the theories on mental representation it motivates and that in turn support it, is wrong. (shrink)

CONTINUOUS MODEL THEORY CHAPTER I TOPOLOGICAL PRELIMINARIES. Notation Throughout the monograph our mathematical notation does not differ drastically from ...

The ESR model proposes a new theoretical perspective which incorporates the mathematical formalism of standard (Hilbert space) quantum mechanics (QM) in a noncontextual framework, reinterpreting quantum probabilities as conditional on detection instead of absolute. We have provided in some previous papers mathematical representations of the physical entities introduced by the ESR model, namely observables, properties, pure states, proper and improper mixtures, together with rules for calculating conditional and overall probabilities, and for describing transformations of states induced by measurements. (...) We study in this paper the relevant physical case of the quantum harmonic oscillator in our mathematical formalism. We reinterpret the standard quantum rules for probabilities, provide new expressions for absolute probabilities, and show how the standard state transformations must be modified according to the ESR model. (shrink)

I show that words with indefinite implicit complements occasion a dilemma for their model theory. There has been only two previous attempts to address this problem, one by Fodor and Fodor (1980) and one by Dowty (1981). Each requires that any word tolerating an implicit complement be treated as ambiguous between two different lexical entries and that a meaning postulate or lexical rule be given to constrain suitably the meanings of the various entries for the word. I show that (...) the positing of such an ambiguity runs counter to the facts and propose an alternative solution which does not appeal to ambiguity, meaning postulates or lexical rules. Indeed, I show that the dilemma posed by indefinite implicit complements is posed by all implicit complements and that a general solution to the problem of implicit complements follows from an independently motivated, single treatment of five other problems, that of subcategorization, that of phrasal projections of words, that of defining a model theoretic structure for phrase structure grammars, that of complement polyvalence and that of complement polyadicity. (shrink)

We introduce a new framework for classifying logics on finite structures and studying their expressive power. This framework is based on the concept of almost everywhere equivalence of logics, that is to say, two logics having the same expressive power on a class of asymptotic measure 1. More precisely, if L, L ′ are two logics and μ is an asymptotic measure on finite structures, then $\scr{L}\equiv _{\text{a.e.}}\scr{L}^{\prime}(\mu)$ means that there is a class C of finite structures with μ (C)=1 (...) and such that L and L ′ define the same queries on C. We carry out a systematic investigation of $\equiv _{\text{a.e.}}$ with respect to the uniform measure and analyze the $\equiv _{\text{a.e.}}$ -equivalence classes of several logics that have been studied extensively in finite model theory. Moreover, we explore connections with descriptive complexity theory and examine the status of certain classical results of model theory in the context of this new framework. (shrink)

The purpose of this paper is to outline some recent progress in descriptive inner model theory, a branch of set theory which studies descriptive set theoretic and inner model theoretic objects using tools from both areas. There are several interlaced problems that lie on the border of these two areas of set theory, but one that has been rather central for almost two decades is the conjecture known as the Mouse Set Conjecture (MSC). One particular motivation for resolving (...) MSC is that it provides grounds for solving the inner model problem which dates back to 1960s. There have been some new partial results on MSC and the methods used to prove the new instances suggest a general program for solving the full conjecture. It is then our goal to communicate the ideas of this program to the community at large. (shrink)

Model RB is a model of random constraint satisfaction problems, which exhibits exact satisfiability phase transition and many hard instances, both experimentally and theoretically. Benchmarks based on Model RB have been successfully used by various international algorithm competitions and many research papers. In a previous work, Xu and Li defined two notions called i-constraint assignment tuple and flawed i-constraint assignment tuple to show an exponential resolution complexity of Model RB. These two notions are similar to some (...) kind of consistency in constraint satisfaction problems, but seem different from all kinds of consistency so far known in literatures. In this paper, we explicitly define this kind of consistency, called variable-centered consistency, and show an upper bound on a parameter in Model RB, such that up to this bound the typical instances of Model RB are variable-centered consistent. (shrink)

The main objective of the paper is to propose a frequentist interpretation of probability in the context of model-based induction, anchored on the Strong Law of Large Numbers (SLLN) and justifiable on empirical grounds. It is argued that the prevailing views in philosophy of science concerning induction and the frequentist interpretation of probability are unduly influenced by enumerative induction, and the von Mises rendering, both of which are at odds with frequentist model-based induction that dominates current practice. The (...) differences between the two perspectives are brought out with a view to defend the model-based frequentist interpretation of probability against certain well-known charges, including [i] the circularity of its definition, [ii] its inability to assign ‘single event’ probabilities, and [iii] its reliance on ‘random samples’. It is argued that charges [i]–[ii] stem from misidentifying the frequentist ‘long-run’ with the von Mises collective. In contrast, the defining characteristic of the long-run metaphor associated with model-based induction is neither its temporal nor its physical dimension, but its repeatability (in principle); an attribute that renders it operational in practice. It is also argued that the notion of a statistical model can easily accommodate non-IID samples, rendering charge [iii] simply misinformed. (shrink)

The phenomenon of synesthesia has undergone an invigoration of research interest and empirical progress over the past decade. Studies investigating the cognitive mechanisms underlying synesthesia have yielded insight into neural processes behind such cognitive operations as attention, memory, spatial phenomenology and inter-modal processes. However, the structural and functional mechanisms underlying synesthesia still remain contentious and hypothetical. The first section of the present paper reviews recent research on grapheme-color synesthesia, one of the most common forms of synesthesia, and addresses the ongoing (...) debate concerning the role of selective attention in eliciting synesthetic experience. Drawing on conclusions of the first half, the paper’s second half examines the various models proposed to explain the cognitive mechanisms behind grapheme-color synesthesia, and discusses the explanatory virtues of a new model suggesting that grapheme-color synesthesia is grounded in memory. The last section offers an examination of some of the broader philosophical implications of synesthesia. (shrink)

Despite the recent surge in research on, and interest in, synesthesia, the mechanism underlying this condition is still unknown. Feedforward mechanisms involving overlapping receptive fields of sensory neurons as well as feedback mechanisms involving a lack of signal disinhibition have been proposed. Here I show that a broad range of studies of developmental synesthesia indicate that the mechanism underlying the phenomenon may involve reinstatement of brain activity in different sensory or cognitive streams in a way that is similar to what (...) happens during memory retrieval of semantically associated items. In the paper’s final sections I look at the relevance of synesthesia research, given the memory model, to our understanding of multisensory perception and common mapping patterns. (shrink)

We here make preliminary investigations into the model theory of DeMorgan logics. We demonstrate that Łoś's Theorem holds with respect to these logics and make some remarks about standard model-theoretic properties in such contexts. More concretely, as a case study we examine the fate of Cantor's Theorem that the classical theory of dense linear orderings without endpoints is $\aleph_{0}$-categorical, and we show that the taking of ultraproducts commutes with respect to previously established methods of constructing nonclassical structures, namely, (...) Priest's Collapsing Lemma and Dunn's Theorem in 3-Valued Logic. (shrink)

This book models and simulates metaphysics by presenting the metaphysics of a model.

This book contains the material for a first course in pure model theory with applications to differentially closed fields.

In this paper we develop an abstract theory of adequacy. In the same way as the theory of consequence operations is a general theory of logic, this theory of adequacy is a general theory of the interactions and connections between consequence operations and its sound and complete semantics. Addition of axioms for the connectives of propositional logic to the basic axioms of consequence operations yields a unifying framework for different systems of classical propositional logic. We present an abstract model-theoretical (...) semantics based on model mappings and theory mappings. Between the classes of models and theories, i.e., the set of sentences verified by a model, it obtains a connection that is well-known within algebra as Galois correspondence. Many basic semantical properties can be derived from this observation. A sentence A is a semantical consequence of T if every model of T is also a model of A. A model mapping is adequate for a consequence operation if its semantical inference operation is identical with the consequence operation. We study how properties of an adequate model mapping reflect the properties of the consequence operation and vice versa. In particular, we show how every concept of the theory of consequence operations can be formulated semantically. (shrink)

This book gives a comprehensive overview of central themes of finite model theory – expressive power, descriptive complexity, and zero-one laws – together with selected applications relating to database theory and artificial intelligence, especially constraint databases and constraint satisfaction problems. The final chapter provides a concise modern introduction to modal logic, emphasizing the continuity in spirit and technique with finite model theory. This underlying spirit involves the use of various fragments of and hierarchies within first-order, second-order, fixed-point, and (...) infinitary logics to gain insight into phenomena in complexity theory and combinatorics. The book emphasizes the use of combinatorial games, such as extensions and refinements of the Ehrenfeucht-Fraissé pebble game, as a powerful way to analyze the expressive power of such logics, and illustrates how deep notions from model theory and combinatorics, such as o-minimality and treewidth, arise naturally in the application of finite model theory to database theory and AI. Students of logic and computer science will find here the tools necessary to embark on research into finite model theory, and all readers will experience the excitement of a vibrant area of the application of logic to computer science. (shrink)

In this paper we build a prey–predator model with discrete weight structure for the predator. This model will conserve the number of individuals and the biomass and both growth and reproduction of the predator will depend on the food ingested. Moreover the model allows cannibalism which means that the predator can eat the prey but also other predators. We will focus on a simple version with two weight classes or stage (larvae and adults) and present some general (...) mathematical results. In the last part, we will assume that the dynamics of the prey is fast compared to the predator’s one to go further in the results and eventually conclude that under some conditions, cannibalism can stabilize the system: more precisely, an unstable equilibrium without cannibalism will become almost globally stable with some cannibalism. Some numerical simulations are done to illustrate this result. (shrink)

Bayesian model selection has frequently been the focus of philosophical inquiry (e.g., Forster, Br J Philos Sci 46:399–424, 1995; Bandyopadhyay and Boik, Philos Sci 66:S390–S402, 1999; Dowe et al., Br J Philos Sci 58:709–754, 2007). This paper argues that Bayesian model selection procedures are very diverse in their inferential target and their justification, and substantiates this claim by means of case studies on three selected procedures: MML, BIC and DIC. Hence, there is no tight link between Bayesian (...) class='Hi'>model selection and Bayesian philosophy. Consequently, arguments for or against Bayesian reasoning based on properties of Bayesian model selection procedures should be treated with great caution. (shrink)

A model is developed which identifies and describes various factors which affect ethical and unethical behavior in organizations, including a decision-maker's social, government and legal, work, professional and personal environments. The effect of individual decision maker attributes on the decision process is also discussed. The model links these influences with ethical and unethical behavior via the mediating structure of the individual's decision-making process.

There have been suggestions that the unity of consciousness may be related to the kind of holism depicted only in quantum physics. This argument will be clarified and strengthened. It requires the brain to contain a quantum system with the right properties — a Bose-Einstein condensate. It probably does contain one such system, as both theory and experiment have indicated. In fact, we cannot pay full attention to a quantum whole and its parts simultaneously, though we may oscillate between the (...) two. In a quantum theory of consciousness, emergent meanings arise as an inevitable consequence of Heisenberg''s Uncertainty Principle. (shrink)

In recent years, there has much attention given by philosophers to the ubiquitous role of models and modeling in the biological sciences. Philosophical debates has focused on several areas of discussion. First, what are models in the biological sciences? The term ‘model’ is applied to mathematical structures, graphical displays, computer simulations, and even concrete organisms. Is there an account which unifies these disparate structures? Second, scientists routinely distinguish between theories and models; however, this distinction is more difficult to (...) draw in the biological sciences since biologists often only have a variety of models and rarely have something like a fundamental theory. What then is a theory in biology? Third, how are models related to empirical or “target” systems? (shrink)

This article considers claims that biology should seek general theories similar to those found in physics but argues for an alternative framework for biological theories as collections of prototypical interlevel models that can be extrapolated by analogy to different organisms. This position is exemplified in the development of the Hodgkin‐Huxley giant squid model for action potentials, which uses equations in specialized ways. This model is viewed as an “emergent unifier.” Such unifiers, which require various simplifications, involve the (...) types of heuristics discussed in Wimsatt’s writings on reduction, but with a twist. Here, the heuristics are used to generate emergent rather than reductive explanations. †To contact the author, please write to: Department of History and Philosophy of Science, University of Pittsburgh, 1017 Cathedral of Learning, Pittsburgh, PA 15260; e‐mail: kfs@pitt.edu. (shrink)

We develop a model of ethical decision making that integrates the decision-making process and the content variables considered by individuals facing ethical dilemmas. The process described in the model is drawn from Janis and Mann’s [1977, Decision Making: A Psychological Analysis of Conflict Choice and Commitment (The Free Press, New York)] work describing the decision process in an environment of conflict, choice and commitment. The model is enhanced by the inclusion of content variables derived from the ethics (...) literature. The resulting integrated model aids in understanding the complexity of the decision process used by individuals facing ethical dilemmas and suggests variable interactions that could be field-tested. A better understanding of the process will help managers develop policies that enhance the likelihood of ethical behavior in their organizations. (shrink)

Robert Cummins [(1996) Representations, targets and attitudes, Cambridge, MA: Bradford/MIT, p. 1] has characterized the vexed problem of mental representation as "the topic in the philosophy of mind for some time now." This remark is something of an understatement. The same topic was central to the famous controversy between Nicolas Malebranche and Antoine Arnauld in the 17th century and remained central to the entire philosophical tradition of "ideas" in the writings of Locke, Berkeley, Hume, Reid and Kant. However, the scholarly, (...) exegetical literature has almost no overlap with that of contemporary cognitive science. I show that the recurrence of certain deep perplexities about the mind is a systematic and pervasive pattern arising not only throughout history, but also in a number of independent domains today such as debates over visual imagery, symbolic systems and others. Such historical and contemporary convergences suggest that the fundamental issues cannot arise essentially from the theoretical guise they take in any particular case. (shrink)

Not all research in machine consciousness aims to instantiate phenomenal states in artefacts. For example, one can use artefacts that do not themselves have phenomenal states, merely to simulate or model organisms that do. Nevertheless, one might refer to all of these pursuits -- instantiating, simulating or modelling phenomenal states in an artefact -- as 'synthetic phenomenality'. But there is another way in which artificial agents (be they simulated or real) may play a crucial role in understanding or (...) creating consciousness: 'synthetic phenomenology'. Explanations involving specific experiential events require a means of specifying the contents of experience; not all of them can be specified linguistically. One alternative, at least for the case of visual experience, is to use depictions that either evoke or refer to the content of the experience. Practical considerations concerning the generation and integration of such depictions argue in favour of a synthetic approach: the generation of depictions through the use of an embodied, perceiving and acting agent, either virtual or real. Synthetic phenomenology, then, is the attempt to use the states, interactions and capacities of an artificial agent for the purpose of specifying the contents of conscious experience. This paper takes the first steps toward seeing how one might use a robot to specify the non- conceptual content of the visual experience of an (hypothetical) organism that the robot models. (shrink)

We contrast person-centered categories with objective categories related to physics: consciousness vs. mechanism, observer vs. observed, agency vs. event causation. semantics vs. syntax, beliefs and desires vs. dispositions. How are these two sets of categories related? This talk will discuss just one such dichotomy: consciousness vs. mechanism. Two extreme views are dualism and reductionism. An intermediate view is emergence. Here, consciousness is part of the natural order (as against dualism), but consciousness is not definable only in terms of physical mass, (...) length, and time (as against reductionism). There are several detailed theories of emergence. One is based on the Great Chain of Being and on organic evolutionary hierarchy. The theory here is based instead on the concept of relational holism in quantum mechanics. The resulting brain model has two interacting systems: a computational system and a quantum system (a Bose-Einstein condensate), perhaps interacting via EEG waves. Thus, we need both person-centered and matter-centered categories to describe human beings. Some possible experimental tests are discussed. (shrink)

CHAPTER Structure and function In physical systems made by a large number of basic constituents one can observe collective properties which find their ...

“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)

: Iran has had a program of compensated kidney donation from living unrelated (LUR) donors since 1997. The aim of the program was to address the increasing demand for kidney transplantation in a morally sound manner. The program was successful in terms of increasing the number of kidneys available for transplantation. This paper presents a critical review of the program and its ethical status. Denying organ donors legitimate compensation because of the understandable fear of an organ trade is not morally (...) justifiable, and the Iranian model of compensated LUR kidney donation offers substantial benefits that overcome these concerns. Despite its benefits, the program lacks secure measures to prevent the risk of a direct monetary relationship between donors and recipients, and it must be revised in order to be morally justifiable. (shrink)

In the present paper I develop a model of the evolutionary process associated to the widespread although controversial notion of a prevailing trend of increasing complexity over time. The model builds on a coupling of evolution to individual developmental programs and introduces an integrated view of evolution implying that human culture and science form a continuous extension of organic evolution. It is formed as a mathematical model that has made possible a quantitative estimation in relative terms of (...) the growth of complexity. This estimation is accomplished by means of computer simulations the result of which indicates a strong acceleration of complexity all the way from the appearance of multicellular organisms up to modern man. (shrink)

This paper distinguishes between causal isolation robustness analysis and independent determination robustness analysis and suggests that the triangulation of the results of different epistemic means or activities serves different functions in them. Circadian clock research is presented as a case of causal isolation robustness analysis: in this field researchers made use of the notion of robustness to isolate the assumed mechanism behind the circadian rhythm. However, in contrast to the earlier philosophical case studies on causal isolation robustness analysis (Weisberg and (...) Reisman in Philos Sci 75:106–131, 2008 ; Kuorikoski et al. in Br J Philos Sci 61:541–567, 2010 ), robustness analysis in the circadian clock research did not remain in the level of mathematical modeling, but it combined it with experimentation on model organisms and a new type of model, a synthetic model. (shrink)

Explanation of why things happen is one of humans’ most important cognitive operations. In everyday life, people are continually generating explanations of why other people behave the way they do, why they get sick, why computers or cars are not working properly, and of many other puzzling occurrences. More systematically, scientists develop theories to provide general explanations of physical phenomena such as why objects fall to earth, chemical phenomena such as why elements combine, biological phenomena such as why species evolve, (...) medical phenomena such as why organisms develop diseases, and psychological phenomena such as why people sometimes make mental errors. This chapter reviews computational models of the cognitive processes that underlie these kinds of explanations of why events happen. It is not concerned with another sense of explanation that just means clarification, as when someone explains the U. S. constitution. The focus will be on scientific explanations, but more mundane examples will occasionally be used, on the grounds that the cognitive processes for explaining why events happen are much the same in everyday life and in science, although scientific explanations tend tobe more systematic and rigorous than everyday ones. In addition to providing a concise review of previous computational models of explanation, this chapter describes a new neural network model that shows how explanations can be performed by multimodal distributed representations. (shrink)

The key problem in the controversy over group selection is that of defining a criterion of group selection that identifies a distinct causal process that is irreducible to the causal process of individual selection. We aim to clarify this problem and to formulate an adequate model of irreducible group selection. We distinguish two types of group selection models, labeling them type I and type II models. Type I models are invoked to explain differences among groups in their respective rates (...) of production of contained individuals. Type II models are invoked to explain differences among groups in their respective rates of production of distinct new groups. Taking Elliott Sober's model as an exemplar, we argue that although type I models have some biological importance--they force biologists to consider the role of group properties in influencing the fitness of organisms--they fail to identify a distinct group-level causal selection process. Type II models if properly framed, however, do identify a group-level causal selection process that is not reducible to individual selection. We propose such a type II model and apply it to some of the major candidates for group selection. (shrink)

The art of interpretation has traditionally been an integral part of medical practice, but little attention has been devoted to its theory. Hermeneutics or the study of interpretation has grown as a methodological interest primarily within the humanities. Borrowing from the medieval fourfold sense of scripture, which organizes interpretive activity both logically and comprehensively, I propose a hermeneutical model of clinical decision-making. According to the model, a patient is analogous to a literary text which may be interpreted on (...) four levels: (1) the literal facts of the patient's body and the literal story told by the patient, (2) the diagnostic meaning of the literal data, (3) the praxis (prognosis and therapeutic decisions) emanating from the diagnosis, and (4) the change effected by the clinical encounter in both the patient's and clinician's life-worlds. The model is illustrated through application to a medical case. (shrink)

The scientific methodology underlying model-building is critically investigated. The modeling views of Popper and Samuelson and their prototypes are critically examined in the light of the theme of the moral law of unity of knowledge and unity of the world-system configured by the meta-epistemology of organic unity of knowledge. Upon such critical examination of received methodology of model-building in economics, the extended perspective?namely of integrating the moral law derived from the divine roots as the meta-epistemology?is rigorously studied. The (...) example of the Islamic prerogative in interpreting the holistic world-system through model-building in economics is highlighted. A religio-philosophical approach is adopted to exemplify some approaches in Islamic model-building. An especial focus is placed here on grassroots types of financing and activities. The critique of these models within the existing Islamic scholarship is carried out. The result is new dimensions of macroeconomic analysis that emanate in a logical way from the meta-epistemological approach, and oppose the mainstream ideas, both in received and Islamic economic thinking as of now. (shrink)

Because the propaganda model challenges basic premises and suggests that the media serve antidemocratic ends, it is commonly excluded from mainstream debates on media bias. Such debates typically include conservatives, who criticize the media for excessive liberalism and an adversarial stance toward government and business, and centrists and liberals, who deny the charge of adversarialism and contend that the media behave fairly and responsibly. The exclusion of the propaganda model perspective is noteworthy, for one reason, because that perspective (...) is consistent with long standing and widely held elite views that 'the masses are notoriously short-sighted' (Bailey 1948: 13) and are 'often poor judges of their own interests' (Lasswell 1933: 527), so that 'our statesmen must deceive them' (Bailey 1948: 13); and they 'can be managed only by a specialized class whose personal interests reach beyond the locality' (Walter Lippmann 1921: 310). In Lippmann's view, the 'manufacture of consent' by an elite class had already become 'a self-conscious art and a regular organ of popular government' by the 1920s (Lippman 1921: 248). (shrink)

Provability, Computability and Reflection.

This study examines the use of a modified form of the theory of planned behavior in understanding the decisions of undergraduate students in engineering and humanities to engage in cheating. We surveyed 527 randomly selected students from three academic institutions. Results supported the use of the model in predicting ethical decision-making regarding cheating. In particular, the model demonstrated how certain variables (gender, discipline, high school cheating, education level, international student status, participation in Greek organizations or other clubs) and (...) moral constructs related to intention to cheat, attitudes toward cheating, perceptions of norms with respect to cheating, and ultimately cheating behaviors. Further the relative importance of the theory of planned behavior constructs was consistent regardless of context, whereas the contributions of variables included in the study that were outside the theory varied by context. Of particular note were findings suggesting that the extent of cheating in high school was a strong predictor of cheating in college and that engineering students reported cheating more frequently than students in the humanities, even when controlling for the number of opportunities to do so. (shrink)

Ethical sensitivity triggers the entire ethical decision-making process (i.e., recognition of ethical content in work situations). In this article, five factors are examined that affect tax practitioners' professional ethical sensitivity. The five factors that were examined include role conflict, role ambiguity, job satisfaction, professional commitment, and ethical orientation. Ethical content in work situations is examined in relation to professional ethics as enumerated by the American Institute of Certified Public Accountant's (AICPA) Statements on Responsibilities in Tax Practice (SRTP). Utilizing Hunt and (...) Vitell's (1986, 1993) General Theory of Ethics, a model of ethical sensitivity was constructed and empirically tested. Role conflict negatively and job satisfaction positively influenced tax practitioners' ethical sensitivity. Also, the covariates of the tax practitioner's professional risk level and type of employer were found to be significant. The significant factors are job specific. The tax firm may have the best opportunity to positively change a tax practitioner's ethical recognition abilities. Professional accounting organizations may need to evaluate if resources should be used to formulate, maintain, and publicize codes of conduct because of the lack of significance of professional commitment. (shrink)

Inter-organizational models are both a well-documented phenomena and a well-established domain in management and business ethics. Those models rest on collaborative capabilities. However, mainstream theories and practices aimed at developing these capabilities are based on a narrow set of assumptions and ethical principles about human nature and relationships, which constrain the very development of capabilities sought by them. This article presents an Aristotelic–Thomistic approach to collaborative entrepreneurship within and across communities of firms operating in complementary markets. Adopting a scholarship of (...) integration approach and evaluating the six studies of communities of organizations, we contribute an inter-organizational network model based on the assumptions about human motives and choice offered by Aristotle. We argue that the sustainability of inter-organizational communities depends on how rich is the set of assumptions about human nature upon which they are based. In order to develop and sustain collaborative capabilities in inter-organizational communities, a set of assumptions that takes both self-regarding and others’-regarding preferences as ends is required to avoid any kind of instrumentalization of collaboration, which is an end in itself. Implications for theory and practice are discussed. (shrink)

If we are to develop efficient, reliable and secure means for sharing information across healthcare systems and organizations, then a careful analysis of human actions will be needed. To address this need, the HL7 organization has proposed its Reference Information Model (RIM), which is designed to provide a comprehensive representation of the entire domain of healthcare centered around the phenomenon of human action. Taking the Basic Formal Ontology as our starting point, we examine the RIM from an ontological point (...) of view, describing how it fails to provide a representation of the healthcare domain which would enjoy the sort of clarity, coherence, rigor and completeness that is claimed on its behalf. (shrink)

Homology has been one of, if not the most, fecund concepts which has been used towards the understanding of the genomes of the model organisms. The evidence for this claim can be supported best with an examination of current research in comparative genomics. In comparative genomics, the information of genes or segments of the genome, and their location and sequence, are used to search for genes similar to them, known as 'homologues'. Homologues can be either within that same (...) organism (paralogues), or among different species (orthologues). The importance in finding homologous genes within organisms or across species is that these similarities indicate the possibility of ascribing functions, mechanisms or structures which are required by a variety of species which present the same homology. The interest in structures and functions of genes and proteins common to multiple species is one of the main foci of comparative genomics. Because of this, research into the conservation of genes has been the basis of comparison with regards to homologous genes among diverse organisms. Different causal processes are involved in genetic pathways and mechanisms. Explanations of these depend upon which pathway, structure or mechanism is picked out. Each process has a different causal network to which different explanations refer. What comparative genomics explains are the different causal mechanisms which occur in processes such as differentiation, protein synthesis, and gene regulation. How these processes interact within the organism can only be understood when compared with organisms which possess homologous genes, gene sequences, similar developmental mechanisms, or those whose mechanisms for gene regulation are similar. Explanations which result from comparative genomics contribute to a more comprehensive understanding of both the complex structures and the diverse functions within the genomes of different organisms. There are two related problems which have plagued attempts to define the concept of homology. The first problem arises in clarifying what kind of similarity is involved in a homological comparison. A second problem occurs if more than one concept of homology is needed to pick out the kinds of similarity in different contexts of homological comparison. Homology is usually understood as picking out what counts as 'the same' between two or more organisms. Many of the attempts which have been made to define the concept of homology focus on which criteria are used to restrict the kinds of similarity which exist between two or more organisms or parts being compared. These are criteria which can be used reliably to infer shared ancestry. However, there have been many different attempts to define similarity which have produced a profusion of homology concepts. This profusion has led both to the conflation of what counts as 'the same' in different contexts and has also muddled the relations of comparison which various concepts use to identify homologues. (shrink)

Model organismism—the over-reliance on model organisms without sufficient attention to the adequacy of the models—continues to hobble our understanding of human brains and behaviors. I outline the problem of model organismism in contemporary biology and biomedicine, and discuss the virtues of a genuinely comparative biology for understanding ourselves, our evolutionary history, and our place in nature.

An exploratory model is presented as a heuristic to indicate how individual perceptions of corporate reputation (before joining) and corporate ethical values (after joining) generate specific individual organizational senses of fit. The paper suggests that an ethical dimension of person-organization fit may go some way in explaining superior acquisition and retention of staff by those who are attracted to specific organizations by levels of corporate social performance consonant with their ethical expectations, or who remain with them by virtue of (...) better personal ethical fits with extant organizational ethical values. Specifically, the model suggests that individual misfits that arise from ethical expectations that either exceed or fall short of perceived organizational ethical performances lead to problematic acquisition and retention behavioural outcomes. (shrink)

This reply to Gash’s (Found Sci 2013) commentary on Nescolarde-Selva and Usó-Doménech (Found Sci 2013) answers the three questions raised and at the same time opens up new questions.

Realizing a comprehensive approach to evidence-based practice in psychology requires the collaboration of academic researchers and practicing clinicians. Increased collaboration is likely to contribute to the growing trend of multi-investigator projects, multiple-authored publications, and the subsequent conflicts regarding authorship credit and order. Recommendations and guidance on determining authorship credit and order are available in the literature; however, few concrete tools are available to assist in determining authorship credit and order. A model policy on authorship is presented. The model (...) policy was derived from recommendations published in the literature, in ethical standards, and in the editorial policies of both psychological and the biomedical fields. The model policy can be adopted by academic and clinical organizations, and is a useful tool for preventing authorship conflicts and encouraging collaboration in clinical research. (shrink)

Corporate social responsibility (CSR) is increasingly important in the global environment. Businesses that want to be socially responsible, but do not have the resources of multinational corporations, can partner with non-governmental (NGO), not-for-profit (NFP), and religious organizations to access information about the culture, customs, and needs of the people in areas where they wish to do business. Without such information, CSR projects can have unintended consequences that are not beneficial for the community. Suggesting that local farmers sell corn to ethanol (...) producers may increase the farmers' income but also increase the cost of a food staple to the community. Providing food aid may result in local farmers being unable to sell their crops for enough money to buy seed for the next harvest. Donating cheaper cinder blocks instead of adobe bricks may result in more available housing, but the housing may be unlivable in the summer heat. This paper presents a three-part model for businesses to follow to develop socially responsible projects. The first strategy is to use electronic sources of information about a country and area for background information. The second strategy is to gather on-the-ground information about important issues from the people who are already operating in a community as part of NGO, NFP and missionary initiatives. The third strategy is to develop scenarios that will help identify possible negative consequences of socially responsible projects so that the project implementation can be monitored for such consequences and interventions designed to decrease or counter the impact of negative consequences. (shrink)

Provability, Computability and Reflection.

A multitude of techno-natures emerge through discourses and practices of the new technosciences. While some philosophers and science studies scholars argue that model organisms and artefacts are getting more and more disembodied and decontextualised in the laboratory, I want to show how ontic dimensions of model organisms and artefacts are made invisible as well as visible in different practices of technosciences like Artificial Life and robotics.This analysis opens up possibilities for an understanding of how ontic dimensions (...) of non-human actors are made visible and invisible in technoscientific practices. At the same time it allows the development of a concept of nonhuman actors beyond reifying, velontriquist practices of representation as well as a critical intervention in the co-construction of our technoculture. German Mannigfaltige Techno-Naturen an der Schnittstelle von Sozialem, Technischem und Natürlichem entstehen in den und durch die Diskurse und Praktiken der neuen Technowissenschaften. Entgegen der verbreiteten These von der Entkörperung und Dekontextualisierung von Modellorganismen im Labor zeige ich in meinem Beitrag auf, wie auf je unterschiedliche Weise ontische Dimensionen von Modellorganismen und Technofakten in der Artificial Life-Forschung und Robotik sichtbar bzw. unsichtbar gemacht werden.Gerade die Untersuchung der Konstruktion der ontischen Dimension nichtmenschlicher Akteure in unterschiedlichen Forschungspraktiken eröffnet Möglichkeiten, nichtmenschliche Akteure ernst zu nehmen, erlaubt ein genaueres Verständnis des Un/Sichtbarmachens von spezifischen ontischen Dimensionen nichtmenschlicher Akteure und zeigt Wege für kritische Interventionen in unsere Technowissenschaftskultur auf. Sie vermeidet jene bauchrednerischen Erzählpraktiken, die mit der Stimme aus dem Off den nichtmenschlichen Akteuren Eigenschaften verordnen und sie damit einmal mehr zum Verstummen bringen. (shrink)

Are living organisms--as Descartes argued--just machines? Or is the nature of life such that it can never be fully explained by mechanistic models? In this thought-provoking and controversial book, eminent geophysicist Walter M. Elsasser argues that the behavior of living organisms cannot be reduced to physico-chemical causality. Suggesting that molecular biology today is at the same point as Newtonian physics on the eve of the quantum revolution, Elsasser lays the foundation for a theoretical biology that points the way (...) toward a natural philosophy of organic life. Explicitly repudiating "vitalism" (the notion that the laws of nature need to be modified when applied to living organisms), Elsasser argues instead that the structural complexity of even a single living cell is "transcomputational"--that is, beyond the power of any imaginable system to compute. Beginning from this insight, Elsasser leads the reader through a step-by-step process that ultimately arrives at the conclusion that living and non-living matter are separated by "a no-man's land of irrationality." Trained in Germany as a physicist, Elsasser first pondered the implications of quantum mechanics for biology as early as 1951. The more closely he studied the inherent complexity of life, the more skeptical he became of the reductionist view of organisms as tiny machines. "An organism," he concluded, "is a source of causal chains which cannot be traced beyond a terminal point because they are lost in the unfathomable complexity of the organism." Like the physicist who works within the bounds of an unfathomable universe, Elsasser argues, the biologist must seek answers within a system that is no less unfathomable. (shrink)