There is a branch of modern medicine that relies on information rather than on biochemical substances to maintain health and cure disease. Known as information medicine, it offers an important complement to the dominant biochemical approach of mainstream medicine. This note offers a few reflections on the potentials of information medicine in reference to what is currently known regarding the role of information in the universe, and in the living organism.

Based on Kolchinsky and Wolpert’s work on the semantics of autonomous agents, I propose an application of Mathematical Logic and Probability to model cognitive processes. In this work, I will follow Bateson’s insights on the hierarchy of learning in complex organisms and formalize his idea of applying Russell’s Type Theory. Following Weaver’s three levels for the communication problem, I link the Kolchinsky–Wolpert model to Bateson’s insights, and I reach a semantic and conceptual hierarchy in living systems as an explicative model (...) of some adaptive constraints. Due to the generality of Kolchinsky and Wolpert’s hypotheses, I highlight some fundamental gaps between the results in current Artificial Intelligence and the semantic structures in human beings. In light of the consequences of my model, I conclude the paper by proposing a general definition of knowledge in probabilistic terms, overturning de Finetti’s Subjectivist Definition of Probability. (shrink)

This article examines the comparison between a reductionist mechanistic paradigm and the Goethean paradigm, that provides a vision of an informed universe.

This paper argues that the Extended Synthesis, ecological information, and biosemiotics are complementary approaches whose engagement will help us explain the organism-environment interaction at the cognitive level. The Extended Synthesis, through niche construction theory, can explain the organism-environment interaction at an evolutionary level because niche construction is a process guided by information. We believe that the best account that defines information at this level is the one offered by biosemiotics and, within all kinds of biosemiotic information available, we (...) believe that ecological information is the best candidate for making sense of the organism-environment relation at the cognitive level. This entanglement of biosemiotics, ecological information and the Extended Synthesis is promising for understanding the multidimensional character of the organism-environment reciprocity as well as the relation between evolution, cognition, and meaning. (shrink)

Historians and philosophers of twentieth-century life sciences have demonstrated that the choice of experimental organism can profoundly influence research fields, in ways that sometimes undermined the scientists’ original intentions. The present paper aims to enrich and broaden the scope of this literature by analysing the career of unicellular green algae of the genus Chlorella. They were introduced for the study of photosynthesis in 1919 by the German cell physiologist Otto H. Warburg, and they became the favourite research objects in (...) this field up to the 1960s. The paper argues that dealing with Chlorella’s high metabolic flexibility was crucial for the emergence of a new conception of photosynthesis, as a plastic, integrated system of pathways. At the same time, it led to new collaborations between physiologists and phycologists, both of whom started to re-orient their studies in ecologically informed directions. Following Chlorella’s trail, hence, not only elucidates how experimental organisms forced scientists to change their conceptual approaches and techniques, but also provides insight into the interaction of different lines of research of mid-twentieth century plant sciences. (shrink)

Many commentators have analyzed the Papal Encyclical on the care of the environment entitled “Laudato Si’” from various angles but relatively few have written on the philosophical presuppositions that inform the overall stance of the encyclical. It is becoming increasingly evident that, to appreciate the full impact of this work, we need to uncover its ontological and epistemological commitments. This paper makes a contribution in this neglected area by focusing on the nature of life. Two main points are explored: the (...) way all lifeforms depend on other lifeforms, implying that the biosphere often functions like one single unit of life, and the issue of the intrinsic value of each living thing. By situating the encyclical’s arguments within the history of ideas on the nature of life, the environment, and ecology, this research helps to better appreciate the originality of this document. (shrink)

Information is a basic structure of the world, while computation is a process of the dynamic change of information. This book provides a cutting-edge view of world's leading authorities in fields where information and computation play a central role. It sketches the contours of the future landscape for the development of our understanding of information and computation, their mutual relationship and the role in cognition, informatics, biology, artificial intelligence, and information technology. -/- This book is an utterly enjoyable and engaging (...) read which gives readers an opportunity to understand and relate phenomena seemingly unrelated in a completely new light — especially the connections between information, computation, cognition and life. -/- Contents: Cybersemiotics and the Question of Knowledge (Søren Brier) Information Dynamics in a Categorical Setting (Mark Burgin) Mathematics as a Biological Process (G J Chaitin) Information, Causation and Computation (John Collier) From Descartes to Turing: The Computational Content of Supervenience (S Barry Cooper) A Dialogue Concerning Two World Systems: Info-Computational vs Mechanistic (Gordana Dodig-Crnkovic & Vincent C Müller) Does Computing Embrace Self-Organization? (Wolfgang Hofkirchner) Analysis of Information and Computation in Physics Explains Cognitive Paradigms: From Full Cognition to Laplace Determinism to Statistical Determinism to Modern Approach (Vladik Kreinovich, Roberto Araiza & Juan Ferret) Bodies — Both Informed and Transformed Embodied Computation and Information Processing (Bruce J MacLennan) Computation on Information, Meaning and Representations: An Evolutionary Approach (Christophe Menant) Interior Grounding, Reflection, and Self-Consciousness (Marvin Minsky) A Molecular Dynamic Network: Minimal Properties and Evolutionary Implications (Walter Riofrio) Super-recursive Features of Evolutionary Processes and the Models for Computational Evolution (Darko Roglic) Towards a Modeling View of Computing (Oron Shagrir) What's Information, for an Organism or Intelligent Machine? How can a Machine or Organism Mean? (Aaron Sloman) Inconsistent Knowledge as a Natural Phenomenon: The Ranking of Reasonable Inferences as a Computational Approach to Naturally Inconsistent (Legal) Theories (Kees (CNJ) de Vey Mestdagh & Jaap Henk (JH) Hoepman) On the Algorithmic Nature of the World (Hector Zenil & Jean-Paul Delahaye) . (shrink)

The present article is an attempt to give - in the frame of the theory of the organism - environment system - a new interpretation to the role of efferent influences on receptor activity and to the functions of senses in the formation of knowledge. It is argued, on the basis of experimental evidence and theoretical considerations, that the senses are not transmitters of environmental information, but they create a direct connection between the organism and the environment, which (...) makes the development of a dynamic living system, the organism - environment system, possible. In this connection process the efferent influences on receptor activity are of particular significance, because with their help the receptors may be adjusted in relation to the parts of the environment which are most important in the achievement of behavioral results. Perception is the process of joining of new parts of the environment to the organism - environment system ; thus, the formation of knowledge by perception is based on reorganization of the organism - environment system, and not on transmission of information from the environment. With the help of the efferent influences on receptors each organism creates its own peculiar world which is simultaneously subjective and objective. The present considerations have far reaching influences as well on experimental work in neurophysiology and psychology of perception as on philosophical considerations of knowledge formation. (shrink)

Information was a frequently used concept in many fields of investigation. However, this concept is still not really understood, when it is referred for instance to consciousness and its informational structure. In this paper it is followed the concept of information from philosophical to physics perspective, showing especially how this concept could be extended to matter in general and to the living in particular, as a result of the intimate interaction between matter and information, the human body appearing as (...) a bipolar informed-matter structure. It is detailed on this way how this concept could be referred to consciousness, and an informational modeling of consciousness as an informational system of the human body is presented. Based on the anatomic architecture of the organism and on the inference of the specific information concepts, it is shown that the informational system of the human body could be described by seven informational subsystems, which are reflected in consciousness as corresponding cognitive centers. These results are able to explain the main properties of consciousness, both the cognitive and extra-cognitive properties of the mind, like that observed during the near-death experiences and other similar phenomena. Moreover, the results of such a modeling are compared with the existing empirical concepts and models on the energetic architecture of the organism, showing their relevance for the understanding of consciousness. (shrink)

The concept of information has acquired a strikingly prominent role in contemporary biology. This trend is especially marked within genetics, but it has also become important in other areas, such as evolutionary theory and developmental biology, particularly where these fields border on genetics. The most distinctive biological role for informational concepts, and the one that has generated the most discussion, is in the description of the relations between genes and the various structures and processes that genes play a role (...) in causing. For many biologists, the causal role of genes should be understood in terms of their carrying information about their various products. That information might require the cooperation of various environmental factors before it can be "expressed," but the same can be said of other kinds of message. An initial response might be to think that this mode of description is entirely anchored in a set of well-established facts about the role of DNA and RNA within protein synthesis, summarized in the familiar chart representing the "genetic code," mapping DNA base triplets to amino acids. However, informational enthusiasm in biology predates even a rudimentary understanding of these mechanisms (Schrodinger 1944). And more importantly, current applications of informational concepts extend far beyond anything that can receive an obvious justification in terms of the familiar facts about the specification of protein molecules by DNA. This includes: 1 (i) The description of whole-organism phenotypic traits (including complex behavioral traits) as specified or coded for by information contained in the genes, (ii) The treatment of many causal processes within cells, and perhaps of the wholeorganism developmental sequence, in terms of the execution of a program stored in the genes, (iii) The idea that genes themselves, for the purpose of evolutionary theorizing, should be seen as, in some sense, "made" of information.. (shrink)

The recent discovery and translation of Herman Bavinck’s Reformed Ethics and the ongoing work on the sources and contours of his organic ontology create the impetus to relate these two trajectories together. The twin questions this article will be asking, precisely, are these: what is the logical relationship between Bavinck’s organic whole federalism, where ethical ties are ontologically constitutive, with his claim in the Reformed Ethics that sin’s organizing principle is the prioritization of the ego above all else? Further, how (...) does that organic whole anthropology inform his vision of renewal and the subsequent ethical imperative that flow from the Spirit’s regenerative work? This article traces Bavinck’s logic through the Ethics on these twin questions, while being cognizant of the rest of his oeuvre. With this exposition in hand, this article then relates Bavinck’s outlook to current discussions in Protestant theological ethics. (shrink)

The recent discovery and translation of Herman Bavinck’s (1854–1921) Reformed Ethics and the ongoing work on the sources and contours of his organic ontology create the impetus to relate these two trajectories together. The twin questions this article will be asking, precisely, are these: what is the logical relationship between Bavinck’s organic whole federalism, where ethical ties are ontologically constitutive, with his claim in the Reformed Ethics that sin’s organizing principle is the prioritization of the ego above all else? Further, (...) how does that organic whole anthropology inform his vision of renewal and the subsequent ethical imperative that flow from the Spirit’s regenerative work? This article traces Bavinck’s logic through the Ethics on these twin questions, while being cognizant of the rest of his oeuvre. With this exposition in hand, this article then relates Bavinck’s outlook to current discussions in Protestant theological ethics. (shrink)

Developmental systems theory is an attempt to sum up the ideas of a research tradition in developmental psychobiology that goes back at least to Daniel Lehrman’s work in the 1950s. It yields a representation of evolution that is quite capable of accommodating the traditional themes of natural selection and also the new results that are emerging from evolutionary developmental biology. But it adds something else - a framework for thinking about development and evolution without the distorting dichotomization of biological processes (...) into gene and non-gene and the vestiges of the ‘black-boxing’ of developmental processes in the modern synthesis, such as the asymmetric use of the concept of information. Phenomena that are marginalized in current gene-centric conceptions, such as extra-genetic inheritance, niche construction and phenotypic plasticity are placed center stage. (shrink)

Most psychology begins with a distinction between organism and environment, where the two are implicitly (and sometimes explicitly) conceptualized as flipsides of a skin-severed space. This paper examines that conceptualization. Dewey and Bentley's (1949) account of firm naming is used to show that psychologists have, in general, (1) employed the skin as a morphological criterion for distinguishing organisms from backgrounds, and (2) equated background with environment. This two-step procedure, which in this article is named the morphological conception of (...) class='Hi'>organism, is shown to inform the writings of the well-known psychologist B. F. Skinner. A review of difficulties with the morphological conception is followed with a review and preliminary integration of four attempts at an alternative conception of organism, and thus environment. Together, these four attempts converge on an analysis of living systems as transdermal (through and across skin) processes only within which organism and environment are distinguishable as complementary phases. The notion of a biological total process, or bioprocess, is employed to clarify this alternative analysis, in which an organism is an ongoing organization rather than a skin-bound body. (shrink)

In lieu of an abstract, here is a brief excerpt of the content:Reviewed by:Pragmatism's Evolution: Organism and Environment in American Philosophy by Trevor PearceAlexander KleinTrevor Pearce. Pragmatism's Evolution: Organism and Environment in American Philosophy. Chicago: The University of Chicago Press, 2020. Pp. 384. Paperback, $35.00.Pragmatist pioneers were young lions in the days of Darwin. Evolutionary-biological thinking infused this philosophical movement from the start. And yet the last time a major monograph appeared on classic pragmatism and evolutionary biology—Philip Wiener's (...) Evolution and the Founders of Pragmatism (New York: Harper Torchbooks, 1949)—the author could personally thank Ralph Barton Perry, William James's junior colleague and eventual biographer. John Dewey himself wrote the foreword.Almost seventy-five years later, we have Trevor Pearce's painstakingly researched Pragmatism's Evolution. The author has graduate training in both biology and philosophy and is a former student of William Wimsatt and Robert Richards's (343). The book offers an intricate portrait of how debates about evolutionary biology informed the thinking of a loose-knit group of pragmatists between the years 1860 and 1910. While a remarkable variety of figures are discussed, ten pragmatists command the most attention: Chauncey Wright, C. S. Peirce, Francis Ellingwood Abbot, John Fiske, William James, Josiah Royce, John Dewey, Jane Addams, G. H. Mead, and W. E. B. Du Bois (18). Call them "the American Ten."Without downplaying Darwin, an overarching theme is the special significance of Herbert Spencer. Despite many specific disagreements with him (see e.g. 74, 207–8, 253–54, 281), the American Ten all accepted something more fundamental from Spencer: an intellectual framework that explains mind and morality in terms of functional relationships between organism and environment.After an introduction outlining what Pearce identifies as four chronological "cohorts" of pragmatists (more on this concept below), he examines the 1860s and 1870s reception of Darwin (chapter 1) and Spencer (chapter 2), showing how senior pragmatists like Wright, Peirce, and James defended evolution during this period. In chapter 2, we meet the Metaphysical Club's arch Spencerian, John Fiske, and we get a reading of James's critique of Spencer's psychology and sociology. Chapter 3 gives a highly detailed, reference-work-like portrait of the second cohort's training in evolutionary biology during the 1880s—chiefly Royce, Dewey, Addams, Mead, and Du Bois. In chapter 4, we learn that in the 1880s and 1890s, idealists like Edward Caird, Samuel Alexander, David George Ritchie, and Josiah Royce all co-opted ideas from evolutionary biology, which they apparently thought compatible with Hegelian dialectics. Chapter 5 shows that central planks of Peirce's metaphysics and Dewey's ethics are responsive to an 1890s dispute over the causes of the biological variation upon which selection acts (the so-called "factors" debate). The final two chapters show how pragmatist ethics (chapter 6) and epistemology (chapter 7) were infused with substantive ideas about evolution and about scientific experiment more generally.The depth and use of historical scholarship on offer here are both remarkable. On depth, Pearce draws from nineteen special collections and archives housed at institutions from California to Manchester, UK. The reference list (published on Pearce's website) runs [End Page 160] to 118 pages and was apparently too long for inclusion in the book. Archival research and lengthy bibliographies are to be expected in today's history of philosophy. But the sheer range of sources Pearce draws from is, by any measure, impressive.The use to which he puts those sources is provocative. Close reading, and in particular argument reconstruction, is usually the stock in trade for historians of philosophy. Pearce takes a different approach (7), seeking interpretive insight through a kind of philosophical network analysis. The nodes are mainly philosophers, scientists, and social critics. Unlike digital network analyses, Pearce connects his nodes by hand, via a great multiplicity of social, educational, and intellectual relations. We learn who studied evolution where, with whom, and when; what specific texts were assigned in classes taken, in classes taught; who attacked whom, who sided with whom; and so on.The resulting networks are rich, though they can be difficult to track due to their complexity. At its best, the book uses networks to produce genuine insights that... (shrink)

Based on a conference on the nature and origin of biological information held at Cornell University in 2011, this edited volume presents new research by experts in information theory, computer science, numerical simulation, thermodynamics, evolutionary theory, whole organism biology, developmental biology, molecular biology, genetics, physics, biophysics, mathematics, and linguistics.

The sequence of nucleotide bases occurring in an organism’s DNA is often regarded as a codescript for its construction. However, information in a DNA sequence can only be regarded as a codescript relative to an operational biochemical machine, which the information constrains in such a way as to direct the process of construction. In reality, any biochemical machine for which a DNA codescript is efficacious is itself produced through the mechanical interpretation of an identical or very similar codescript. In (...) these terms the origin of life can be described as a bootstrap process involving the simultaneous accumulation of genetic information and the generation of a machine that interprets it as instructions for its own construction. This problem is discussed within the theoretical frameworks of thermodynamics, informatics and self-reproducing automata, paying special attention to the physico-chemical origin of genetic coding and the conditions, both thermodynamic and informatic, that a system must fulfil in order for it to sustain semiosis. The origin of life is equated with biosemiosis. (shrink)

Sceptics of informational terminology argue that by attributing content to signals, we fail to address nonhuman animal communication on its own terms. Primarily, we ignore that communication is sender driven: i.e. driven by the intrinsic physical properties of signals, themselves the result of selection pressures acting on signals to influence receivers in ways beneficial for senders. In contrast, information proponents argue that this ignores the degree to which communication is, in fact, receiver driven. The latter argue that an exclusive (...) focus on the intrinsic mechanical properties of signals cannot explain why receivers respond as they do. This is because receivers are not prisoners of sender influence. They possess response flexibility, and so we can only explain why receivers respond to signals as they do by positing that receivers ‘derive information’ from signals. I argue that, while basically true, this response flexibility can take one of two forms depending on the causal-explanatory role of information in understanding the response of the receiver: diachronic, on the one hand; and synchronic, on the other. In species with diachronic response flexibility only, information is derived by receivers from signals in a minimal sense. In such cases, information is an ultimate explanatory construct: one underpinned by historical facts at the population level. Alternatively, in species with synchronic response flexibility, information is derived by receivers from signals in a richer sense. Here, information is a proximate explanatory construct: one underpinned by cognitive-mechanistic facts at the level of the individual organism. Without recognising the different ways information can be derived from signals, and the different causal-explanatory roles information can play in understanding alternate kinds of receiver flexibility, proponents of information leave themselves open to the charge of anthropomorphising some signalling systems. (shrink)

Within theoretical and empirical enquiries, many different meanings associated with consciousness have appeared, leaving the term itself quite vague. This makes formulating an abstract and unifying version of the concept of consciousness – the main aim of this article –into an urgent theoretical imperative. It is argued that consciousness, characterized as dually accessible (cognized from the inside and the outside), hierarchically referential (semantically ordered), bodily determined (embedded in the working structures of an organism or conscious system), and useful in (...) action (pragmatically functional), is a graded rather than an all-or-none phenomenon. A gradational approach, however, despite its explanatory advantages, can lead to some counterintuitive consequences and theoretical problems. In most such conceptions consciousness is extended globally (attached to primitive organisms or artificial systems), but also locally (connected to certain lower-level neuronal and bodily processes). For example, according to information integration theory (as introduced recently by Tononi and Koch, 2014), even such simple artificial systems as photodiodes possess miniscule amounts of consciousness. The major challenge for this article, then, is to establish reasonable, empirically justified constraints on how extended the range of a graded consciousness could be. It is argued that conscious systems are limited globally by the ability to individuate information (where individuated information is understood as evolutionarily embedded, socially altered, and private), whereas local limitations should be determined on the basis of a hypothesis about the action-oriented nature of the processes that select states of consciousness. Using these constraints, an abstract concept of consciousness is arrived at, hopefully contributing to a more unified state of play within consciousness studies itself. (shrink)

Community databases have become crucial to the collection, ordering and retrieval of data gathered on model organisms, as well as to the ways in which these data are interpreted and used across a range of research contexts. This paper analyses the impact of community databases on research practices in model organism biology by focusing on the history and current use of four community databases: FlyBase, Mouse Genome Informatics, WormBase and The Arabidopsis Information Resource. We discuss the standards used by (...) the curators of these databases for what counts as reliable evidence, acceptable terminology, appropriate experimental set-ups and adequate materials (e.g., specimens). On the one hand, these choices are informed by the collaborative research ethos characterising most model organism communities. On the other hand, the deployment of these standards in databases reinforces this ethos and gives it concrete and precise instantiations by shaping the skills, practices, values and background knowledge required of the database users. We conclude that the increasing reliance on community databases as vehicles to circulate data is having a major impact on how researchers conduct and communicate their research, which affects how they understand the biology of model organisms and its relation to the biology of other species. (shrink)

The outlines of a novel, fully naturalistic theory of perception are provided, that can explain perception of an object X by organism Z in terms of reflexive causality. On the reflexive view proposed, organism Z perceives object or property X just in case X causes Z to acquire causal dispositions reflexively directed back upon X itself. This broadly functionalist theory is potentially capable of explaining both perceptual representation and perceptual content in purely causal terms, making no use of (...) informational concepts. However, such a reflexive, naturalistic causal theory must compete with well entrenched, supposedly equally naturalistic theories of perception that are based on some concept of information, so the paper also includes some basic logical, naturalistic and explanatory criticisms of such informational views. (shrink)

This study focuses on the concept of a 'model organism' in the biomedical sciences through an historical and philosophical examination of research with the nematode Caenorhabditis elegans. I explore the choice of C. elegans in the mid-1960s, showing a rich context existed within which the organism was selected as the focus for a molecular biological research program, including an experimental life prior to Sydney Brenner's work. I argue that this choice can be seen as an obvious outcome of (...) what was a complex search procedure, and that the success of the 'worm project' depended not only on organismal choice but also on the conceptual and institutional framework at the Laboratory of Molecular Biology in Cambridge within which it was pursued. Examination of C. elegans work in the late 1960s through the early 1980s illuminates several additional theses. Although development and behavior were the general areas of interest for the project, the original goals and proposed methodology were extremely vague. As the project evolved, which investigations proved to be tractable using the worm depended not only on which methodologies were fruitful but also on the interests and skills of early workers. Much of the power of C. elegans as a model organism can be traced historically to the investment of resources which resulted in an unprecedented, complete description of the organism, and represented a return to a more naturalistic biological tradition. In light of the historical study, I develop a philosophical analysis of C. elegans as a model organism through exploration of the three kinds of modeling with the worm: modeling of structures, processes, and information. I expand the notion of a descriptive model, arguing that C. elegans is best understood as a prototype of the metazoa, and that C. elegans as a model organism has been not only heuristically valuable, but also essential to this research project particularly in its pre-explanatory stages. I conclude by suggesting that more investigation of descriptive prototypes such as those in the worm project must be done to capture important aspects of the biomedical sciences that will be neglected if explanatory models are the sole focus in the philosophy of science. (shrink)

Information medicine is a new application and development of an age-old method of healing. It re-creates and re-discovers a method that has proved its merits for thousands of years through a synthesis with new developments in new-paradigm physics and biology. The basic premise of information medicine is the use of information to correct faulty or blocked information-flows in the organism. As the latest discoveries, among others by Dr. Biava, show, even cancerous cells can be reprogrammed through the introduction of (...) substances that provide the correct information. Also, electromagnetic information can produce corrective re-programming, introducing an era of soft, information-based healing not as a substitute for, but as a complement to, the current biochemical substance and physical intervention-based methods. The information-based method I have developed is the one created by the Austrian scientist Erich Koerbler, called New Homeopathy. It harmonizes the electromagnetic field in the body through the use o... (shrink)

The scientific community believes in the theory of evolution with a passion that rivals that of any religious belief. This passion extends beyond the irrefutable evidence of the fossil record to the familiar claims of 'survival of the fittest 'and random mutation. Yet the theory of natural selection has,to the knowledge of the present author,never been tested against the alternative hypothesis that evolution is, in fact, the ongoing development of a single, world-spanning super-organism. Just what kind of evidence would (...) settle this question is not clear, so this paper is intended to begin the discussion. It does so by suggesting how a new, quantitative theory of 'pragmatic information' could analyze the widespread temporal and inter-species connections that a developmental view of evolution would imply. (shrink)

Providing a new conceptual scaffold for further research in biology and cognition, this book introduces the new field of cognitive biology, a systems biology approach showing that further progress in this field will depend on a deep recognition of developmental processes, as well as on the consideration of the developed organism as an agent able to modify and control its surrounding environment. The role of cognition, the means through which the organism is able to cope with its environment, (...) cannot be underestimated. In particular, it is shown that this activity is grounded on a theory of information based on Bayesian probabilities. The organism is considered as a cybernetic system able to integrate a processor as a source of variety (the genetic system), a regulator of its own homeostasis (the metabolic system), and a selecting system separating the self from the non-self (the membrane in unicellular organisms). Any organism is a complex system that can survive only if it is able to maintain its internal order against the spontaneous tendency towards disruption. Therefore, it is forced to monitor and control its environment and so to establish feedback circuits resulting in co-adaptation. Cognitive and biological processes are shown to be inseparable. (shrink)

Genes are often described by biologists using metaphors derived from computa- tional science: they are thought of as carriers of information, as being the equivalent of ‘‘blueprints’’ for the construction of organisms. Likewise, cells are often characterized as ‘‘factories’’ and organisms themselves become analogous to machines. Accordingly, when the human genome project was initially announced, the promise was that we would soon know how a human being is made, just as we know how to make airplanes and buildings. Impor- tantly, (...) modern proponents of Intelligent Design, the latest version of creationism, have exploited biologists’ use of the language of information and blueprints to make their spurious case, based on pseudoscientific concepts such as ‘‘irreducible complexity’’ and on flawed analogies between living cells and mechanical factories. However, the living organ- ism = machine analogy was criticized already by David Hume in his Dialogues Concerning Natural Religion. In line with Hume’s criticism, over the past several years a more nuanced and accurate understanding of what genes are and how they operate has emerged, ironically in part from the work of computational scientists who take biology, and in particular developmental biology, more seriously than some biologists seem to do. In this article we connect Hume’s original criticism of the living organism = machine analogy with the modern ID movement, and illustrate how the use of misleading and outdated metaphors in science can play into the hands of pseudoscientists. Thus, we argue that dropping the blueprint and similar metaphors will improve both the science of biology and its understanding by the general public. (shrink)

Fodor has argued that observation is theory neutral, since the perceptual systems are modular, that is, they are domain‐specific, encapsulated, mandatory, fast, hard‐wired in the organism, and have a fixed neural architecture. Churchland attacks the theoretical neutrality of observation on the grounds that (a) the abundant top‐down pathways in the brain suggest the cognitive penetration of perception and (b) perceptual learning can change in the wiring of the perceptual systems. In this paper I introduce a distinction between sensation, perception, (...) and observation and I argue that although Churchland is right that observation involves top‐down processes, there is also a substantial amount of information in perception which is theory‐neutral. I argue that perceptual learning does not threaten the cognitive impenetrability of perception, and that the neuropsychological research does not provide evidence in favor of the top‐down character of perception. Finally, I discuss the possibility of an off‐line cognitive penetrability of perception. (shrink)

Explanations in behavioural neuroscience are often said to be mechanistic in the sense that they explain an organism’s behaviour by describing the activities and organisation of the organism’s parts that are “constitutively relevant” to organism behaviour. Much has been said about the constitutive relevance of working parts (in debates about the so-called “mutual manipulability criterion”), but relatively little has been said about the constitutive relevance of the organising relations between working parts. Some New Mechanists seem to endorse (...) a simple causal-linking account: organising relations are constitutively relevant to organism behaviour if and only if (and because) they are causal relations that link the working parts that are constitutively relevant to organism behaviour. In this paper, I argue that the causal-linking account is inadequate because it neglects the constitutive relevance of anatomical relations that organise the working parts of a behaving organism. I demonstrate this by considering a case study where the anatomical organisation of the barn owl (Tyto alba) is constitutively relevant to their mechanism for sound localization. The anatomical organisation of this mechanism is best understood as the back-and-forth flow of task information across 7 “levels of anatomy” (a notion that I distinguish from levels of mechanism). A further implication, I conclude, is that at least some of the interlevel structure of neuroscientific explanation is accounted for by levels of anatomy, not levels of mechanism. (shrink)

Elsasser outlines in an informal but meticulous fashion an organismic biology which promises, in his opinion, to combine the best features of epigenetic vitalism and preformationist mechanism. Mechanistic reductionism is for Elsasser an unverifiable metaphysical hypothesis; i.e., if the postulate of infinite homogenous classes is dropped from the axiomatics of Van Neumann's proof that the state of any system is, in principle, Quantum Mechanically determinable, it becomes combinatorically obvious that biological systems and classes are radically inhomogenous [[sic]], a fact which (...) operationally bars the way to any complete reductionism. The door is thus opened to an open-ended theoretical biology in which all questions do not have a truth-functional equivalent answer according to the axioms and laws of the science, and prediction in the science becomes statistical in a nonabsolute way. Elsasser is a physicist with more than a casual acquaintance with biology and his argument benefits by his obvious expertise in both of these areas. Philosophically, however, he is a lightweight and relies, in particular, too much on the ontological ice that might be cut by operationalism. Theories are not verified in the stringent operational sense; they are confirmed in a way which is not logically tied to the requirement that all laws be inductively established. Elsasser, however, has so much to say on the problem of reductionism in biology that is of obvious value that the book is easily recommended over these caveats.—E. A. R. (shrink)

In this book the editors invited prominent researchers with different perspectives and deep insights into the various facets of the relationship between reality and representation in the following three classes of agent: in humans, in other living beings, and in machines. -/- The book enriches our views on representation and deepens our understanding of its different aspects, a question that connects philosophy, computer science, logic, anthropology, psychology, sociology, neuroscience, linguistics, information and communication science, systems theory and engineering, computability, cybernetics, synthetic (...) biology, and bioinformatics biosemiotics. This book will be relevant to researchers in these fields. (shrink)

The success of a piece of behaviour is often explained by its being caused by a true representation (similarly, failure falsity). In some simple organisms, success is just survival and reproduction. Scientists explain why a piece of behaviour helped the organism to survive and reproduce by adverting to the behaviour’s having been caused by a true representation. That usage should, if possible, be vindicated by an adequate naturalistic theory of content. Teleosemantics cannot do so, when it is applied to (...) simple representing systems (Godfrey-Smith 1996). Here it is argued that the teleosemantic approach to content should therefore be modified, not abandoned, at least for simple representing systems. The new ‘infotel-semantics’ adds an input condition to the output condition offered by teleosemantics, recognising that it is constitutive of content in a simple representing system that the tokening of a representation should correlate probabilistically with the obtaining of its specific evolutionary success condition. (shrink)

The brain is often taken to be a paradigmatic example of a signaling system with semantic and representational properties, in which neurons are senders and receivers of information carried in action potentials. A closer look at this picture shows that it is not as appealing as it might initially seem in explaining the function of the brain. Working from several sender-receiver models within the teleosemantic framework, I will first argue that two requirements must be met for a system to support (...) genuine semantic information: 1. The receiver must be competent —that is, it must be able to extract rewards from its environment on the basis of the signals that it receives. 2. The receiver must have some flexibility of response relative to the signal received. In the second part of the paper, this initial framework will be applied to neural processes, pointing to the surprising conclusion that signaling at the single-neuron level is only weakly semantic at best. Contrary to received views, neurons will have little or no access to semantic information (though their patterns of activity may carry plenty of quantitative, correlational information) about the world outside the organism. Genuine representation of the world requires an organism - level receiver of semantic information, to which any particular set of neurons makes only a small contribution. (shrink)

There are two related points at which J.J. Gibson’s ecological theory of visual perception remains remarkably underspecified: Firstly, the notion of information for perception is not explicated in much detail beyond the claim that it “specifies” the environment for perception, and, thus being an objective affair, enables an organism to perceive action possibilities or “affordances.” Secondly, misperceptions of affordances and perceptual illusions are not clearly distinguished from each other. Although the first claim seems to suggest that any perceptual illusion (...) amounts to the misperception of affordances, there might be some relevant differences between various ways of getting things wrong. In this essay, Gibson’s notion of “specifying” information shall be reconstructed along the lines of Fred Dretske’s relational theory of information. This refined notion of information for perception will then be used to carve out the distinction between perceptual illusions and the misperception of affordances, with some help from the “Empirical Strategy” (developed by Purves et al.). It will be maintained that there are cases where perceptual illusions actually help an organism to correctly perceive an affordance. In such cases, the prima facie misrendered informational relations involved are kept intact by a set of appropriate transformation rules. Two of Gibson’s intuitions shall thus be preserved: the objectivity of informational relations and the empowerment of the organism as an active perceiver who uses those objective relations to his specific ends. (shrink)

This paper explores the problem of knowledge in computational informational organisms, i.e. organisms that include a computing machinery at the artifact side. Although information can be understood in many ways, from the second half of the past century information is getting more and more digitised, von Neumann machines becoming dominant. Computational information is a challenge for the act of measuring, as neither purely quantitative nor totally qualitative approaches satisfy the need to explain the interplay among the agents producing and (...) managing computational information. In this paper, Floridi’s method of levels of abstraction is applied to the analysis of computational information, with a chief interest in the concepts of information measure, quantification and quality. (shrink)

We contend that if efficiency and reliability are important factors in neural information processing then distributed, not localist, representations are “evolution's best bet.” We note that distributed codes are the most efficient method for representing information, and that this efficiency minimizes metabolic costs, providing adaptive advantage to an organism.

This article explores the usefulness of interdisciplinarity as method of enquiry by proposing an investigation of the concept of information in the light of semiotics. This is because, as Kull, Deacon, Emmeche, Hoffmeyer and Stjernfelt state, information is an implicitly semiotic term (Biological Theory 4(2):167–173, 2009: 169), but the logical relation between semiosis and information has not been sufficiently clarified yet. Across the history of cybernetics, the concept of information undergoes an uneven development; that is, information is an ‘objective’ entity (...) in first order cybernetics, and becomes a ‘subjective’ entity in second order cybernetics. This contradiction relegates the status of information to that of a ‘true’ or ‘false’ formal logic problem. The present study proposes that a solution to this contradiction can be found in Deely’s reconfiguration of Peirce’s ‘object’ (as found in his triadic model of semiosis) into ‘thing’ and ‘object’ (Deely 1981). This ontology allows one to argue that information is neither ‘true’ nor ‘false’, and to suggest that, when considered in light of its workability, information can be both true and false, and as such it constitutes an organism’s purely objective reality (Deely 2009b). It is stated that in the process of building such a reality, information is ‘motivated’ by environmental, physiological, emotional (including past feelings and expectations) constraints which are, in turn, framed by observership. Information is therefore found in the irreducible cybersemiotic process that links at once all these conditions and that is simultaneously constrained by them. The integration of cybernetics’ and semiotics’ understanding of information shows that history is the analytical principle that grants scientific rigour to interdisciplinary investigations. As such, in any attempt to clarify its epistemological stance (e.g. the semiotic aspect of information), it is argued that biosemiotics does not need only to acknowledge semiotics (as it does), but also cybernetics in its interdisciplinary heritage. (shrink)

Biology as a scientific discipline has relied heavily upon advances in chemistry and physics. An inherent danger in this relationship is the reduction of living phenomena to physico-chemical terms. Whitehead's Philosophy of Organism is utilized to examine current methodologies within biology and to evaluate their appropriateness for future research. Hemostatic regulation is employed to illustrate the applications of organistic concepts to biological research. It is concluded that understanding of living entities and their properties as well as possibly life itself (...) will require synthesis of the many analytical elements as informational structures. (shrink)

The key assumption behind evolutionary epistemology is that animals are active learners or ‘knowers’. In the present study, I updated the concept of natural learning, developed by Henry Plotkin and John Odling-Smee, by expanding it from the animal-only territory to the biosphere-as-a-whole territory. In the new interpretation of natural learning the concept of biological information, guided by Peter Corning’s concept of “control information”, becomes the ‘glue’ holding the organism–environment interactions together. The control information guides biological systems, from bacteria to (...) ecosystems, in the process of natural learning executed by the universal algorithm. This algorithm, summarized by the acronym IGPT (information-gain-process-translate) incorporates natural cognitive methods including sensing/perception, memory, communication, and decision-making. Finally, the biosphere becomes the distributed network of communicative interactions between biological systems termed the interactome. The concept of interactome is based on Gregory Bateson’s natural epistemology known as the “ecology of mind”. Mimicking Bateson’s approach, the interactome may also be designated “physiology of mind”—the principle behind regulating the biosphere homeostasis. (shrink)

In the history of genetics, the information-theoretical description of the gene, beginning in the early 1960s, had a significant effect on the concept of the gene. Information is a highly complex metaphor which is applicable in view of the description of substances, processes, and spatio-temporal organisation. Thus, information can be understood as a functional particle of many different language games (some of them belonging to subdisciplines of genetics, as the biochemical language game, some of them belonging to linguistics and informatics). (...) It is this wide covering of different language games that justifies the common description of genes x, y, z as containing information for the phenotypic traits X, Y, Z (or the genome as storage for the information of a whole organism). However, if information is taken as the explanans and phenotypic traits or organisms as the explananda, then a description of the explanandum is of prior importance before the explanans can be characterised. This way of thinking could be useful for future discussions on the strikingly dominant information -metaphor, and the different gene concepts as well. The article illustrates this in two steps. First, a condensed overview on the history of genetics is given, which can be divided into three parts: (1) genetics without genes, (2) genetics with genes, but without information, (3) genetics with genes and information. It is assumed that this provides not only some historical knowledge about the origin of genetics and the introduction of technical terms, but offers at least preliminary insight into the methodological structure of genetic descriptions. In a second step, we redraw Spemann’s disturbation experiments to discuss our thesis that genetic information is not a natural entity, but part of a causality-language game which is secondarily added to the descriptions of interventionalistic practices, viz. experimental approaches. (shrink)

We survey concepts at the frontier of research connecting artificial, animal, and human cognition to computation and information processing—from the Turing test to Searle’s Chinese room argument, from integrated information theory to computational and algorithmic complexity. We start by arguing that passing the Turing test is a trivial computational problem and that its pragmatic difficulty sheds light on the computational nature of the human mind more than it does on the challenge of artificial intelligence. We then review our proposed algorithmic (...) information-theoretic measures for quantifying and characterizing cognition in various forms. These are capable of accounting for known biases in human behavior, thus vindicating a computational algorithmic view of cognition as first suggested by Turing, but this time rooted in the concept of algorithmic probability, which in turn is based on computational universality while being independent of computational model, and which has the virtue of being predictive and testable as a model theory of cognitive behavior. (shrink)

Motivation: Classical definitions of information, such as the Shannon information, are designed for open loop systems because they define information on a channel which has an input and an output. The main motivation of this paper is to present a closed loop information measure which is compatible with constructivist thinking. Design: Our information measure for a closed loop system reflects how additional sensor inputs are utilised to establish additional sensor-motor loops during learning. Our information measure is based on the assumption (...) that it is not optimal to stay reactive and that it is beneficial to become proactive through increased learning about the environment. Consequently our information measure gauges the utilisation of new sensor inputs to generate anticipatory actions. We call this information measure "predictive information" (PI). Findings: Our PI is zero if the organism uses only its reflex reactions. It grows when the organism is able to use other sensor inputs to preempt reflex reactions and is able to replace reflexes by anticipatory reactions. This has been demonstrated with a real robot that had to learn to avoid obstacles. Conclusion: PI is a new measure which is able to quantify anticipatory learning and, in contrast to the Shannon information, is calculated only at the inputs of an agent. This information measure has been successfully applied to a simple robot task but its application is neither limited to a certain task nor to a certain learning rule. (shrink)

Genes and messages have a long association in biology, dating back at least to Weismann. But, through most of this history, even with the dramatic concreteness that molecular biology lent to this association, the image dominating most thinking about messages was drawn from the nineteenth-century technology of the telegraph. In the mid-twentieth century, a new technology, the computer, arrived to displace the telegraph. With that displacement, the meanings of many terms—of “message,” “information,” “organization,” indeed, “organism” —have, over the past (...) few decades, all been transformed. In this article, I explore the computer’s impact on biological representation of the organism in two disciplines: molecular biology and developmental biology. (shrink)

The idea that innateness can be understood in terms of genetic coding or genetic programming is discussed. I argue that biology does not provide any support for the view that the whole-organism features of interest to nativists in psychology and linguistics are genetically coded for. This provides some support for recent critical and deflationary treatments of the concept of innateness.

In recent years, there has been an escalation in cases of cyber violence, which has had a chilling effect on users' behavior toward social media sites. This article explores the causes behind cyber violence and provides empirical data for developing means for effective prevention. Using elements of the stimulus–organism–response theory, we constructed a model of cyber-violence behavior. A closed-ended questionnaire was administered to collect data through an online survey, which results in 531 valid responses. A proposed model was tested (...) using partial least squares structural equation modeling using SmartPLS 3.0, v. Research findings show that information inequality is a strong external stimulus with a significant positive impact on digital distrust and negative emotion. However, the effects of information overload on digital distrust and the adverse effects of communication overload on negative emotions should not be ignored. Both digital distrust and negative emotions have significant positive impacts on cyber violence and cumulatively represent 11.5% changes in cyber violence. Furthermore, information overload, communication overload, information inequality, and digital distrust show a 27.1% change in negative emotions. This study also presents evidence for competitive mediation of digital distrust by information overload, information inequality, and cyber violence. The results of this study have implications for individual practitioners and scholars, for organizations, and at the governmental level regarding cyber-violence behavior. To test our hypotheses, we have constructed an empirical, multidimensional model, including the role of specific mediators in creating relationships. (shrink)

Controversies about optimality models and adaptationist methodologies have animated the discussions of evolutionary theory in recent years. The sociobiologists, following the lead of E. O. Wilson, have argued that if Darwinian natural selection can be reliably expected to produce the best possible type of organism - one that optimizes the value of its genetic contribution to future generations - then evolution becomes a powerfully predictive theory as well as an explanatory one. The enthusiastic claims of the sociobiologists for the (...) predictability and applicability that the optimalist approach engenders have been met with severe criticism by Richard C. Lewontin, Stephen Jay Gould, and other biologists and philosophers of biology. These original essays take up both sides of the controversy over the role of optimality models in evolutionary biology, providing a refreshingly insightful and balanced discussion of optimality issues by an interdisciplinary group of leading philosophers of biology, biologists, psychologists, anthropologists, and an economist. They focus on the current state of adaptationist and optimalist methodology in evolutionary theory, and on the possibility of extending such methodology to the human sciences, especially those of psychology and anthropology. Introduction / John Dupre -- Part 1. Methodological questions. Simple models of complex phenomena: the case of cultural evolution / Peter J. Richerson and Robert Boyd -- Natural selection and the null hypothesis / John Beatty -- Why not the best? / Philip Kitcher -- Part 2. Evolution and optimality. What is adaptationism? / Elliot Sober -- How to model evolution / John Maynard Smith -- Comments on Maynard Smith’s "How to Model Evolution" / Elliot Sober -- Reply to Sober / John Maynard Smith -- The shape of optimality / Richard C. Lewontin -- Part 3. Applications. Evolutionary ecology and the optimality assumption / John M. Emlen -- Optimality theory and behavior / John E.R. Staddon -- Part 4. Applications to human behavior. Optimization theory in anthropology: applications and critiques / Eric Alden Smith -- Evolution of a mesh between principles of the mind and regularities of the world / Roger N. Shepard -- From evolution to behavior: evolutionary psychology as the missing link / Leda Cosmides and John Tooby -- On the emotions as guarantors of threats and promises / Jack Hirschleifer -- Human kinds / John Dupre. (shrink)

Konrad Lorenz does not view behaviors as innate; he does not even regard differences among behaviors (of different species) as innate. Rather, he construes information (about the environment to which the behavior is adapted) as the innate component of (some) behavior. His noted deprivation experiments are intended to withhold environmental sources of that information from the organism: should the organism nevertheless exhibit behavior evidencing possession of such information, then that information must be innate. Lorenz interprets this conclusion to (...) mean that the information is transmitted to the organism genetically, by way of a sort of blueprint in the genome.D.S. Lehrman quarrels with the figure of a blueprint:A blueprint is isomorphic with the structure that it represents…. It is not true that each structure and character in the phenotype is “represented” in a single gene or well defined groups of genes; it is not the case that each gene refers solely or even primarily, to a single structure or character; and it is not the case that the topographical or topological relationships among the genes are isomorphic with the structural or topographical relationships among phenotypic structures to which the genes refer. (Lehrman 1970, p. 34). (shrink)

Evolutionary theory has recently been applied to language. The aim of this paper is to contribute to such an evolutionary approach to language. I argue that Kripke’s causal account of proper names, from an ecological point of view, captures the information carried by uses of a proper name, which is that a certain object is referred to. My argument appeals to Millikan’s concept of local information, which captures information about the environment useful for an organism.

In many texts on evolution the reader will find a characteristic depiction of inheritance and evolution, one showing the generations of an evolving population linked only by a causal flow from genotype to genotype. On this view, the genotype of each organism in this population plays a dual role as both the motor of individual development and as the sole causal channel across the generations. This picture is known to be literally false. In many species, parents exert direct causal (...) influence on their offspring, and some of those influences cause the offspring to resemble the parent. For example, a butterfly that lays her eggs on the same plant host on which she hatched thereby exerts a causal influence on her offspring, and one apt to cause them to resemble her more than they would, had she chosen a plant of a different species. None of this is at all controversial, but it poses a puzzle. If the “Weissmanian” conception is literally false, why is it seen as a perspicacious representation of evolution? (shrink)

Functional information means an encoded network of functions in living organisms from molecular signaling pathways to an organism’s behavior. It is represented by two components: code and an interpretation system, which together form a self-sustaining semantic closure. Semantic closure allows some freedom between components because small variations of the code are still interpretable. The interpretation system consists of inference rules that control the correspondence between the code and the function (phenotype) and determines the shape of the fitness landscape. The (...) utility factor operates at multiple time scales: short-term selection drives evolution towards higher survival and reproduction rate within a given fitness landscape, and long-term selection favors those fitness landscapes that support adaptability and lead to evolutionary expansion of certain lineages. Inference rules make short-term selection possible by shaping the fitness landscape and defining possible directions of evolution, but they are under control of the long-term selection of lineages. Communication normally occurs within a set of agents with compatible interpretation systems, which I call communication system. Functional information cannot be directly transferred between communication systems with incompatible inference rules. Each biological species is a genetic communication system that carries unique functional information together with inference rules that determine evolutionary directions and constraints. This view of the relation between utility and inference can resolve the conflict between realism/positivism and pragmatism. Realism overemphasizes the role of inference in evolution of human knowledge because it assumes that logic is embedded in reality. Pragmatism substitutes usefulness for truth and therefore ignores the advantage of inference. The proposed concept of evolutionary pragmatism rejects the idea that logic is embedded in reality; instead, inference rules are constructed within each communication system to represent reality, and they evolve towards higher adaptability on a long time scale. (shrink)