This paper explores the functional role of noise in synthetic biology and its relation to the concept of randomness. Ongoing developments in the field of synthetic biology are pursuing the re-organisation and control of biological components to make functional devices. This paper addresses the distinction between noise and randomness in reference to the functional relationships that each may play in the evolution of living and/or synthetic systems. The differentiation between noise and randomness in its constructive role, that is, between noise (...) as a perturbation in routine behaviours and noise as a source of variability that cells may exploit, indicates the need for a clarification and rectification of the conflicting uses of the notion of noise in the studies of the so-called noise biology. (shrink)

Progress in neuroscience has left a central question of psychism unanswered: what is consciousness? Modeling the psyche from a computational perspective has helped to develop cognitive neurosciences, but it has also shown their limits, of which the definition, description and functioning of consciousness remain essential. From Rene Descartes, who tackled the issue of psychism as the brain-mind dualism, to Chambers, who defined qualia as the tough, difficult problem of research in neuroscience, many hypotheses and theories have been issued to encompass (...) the phenomenon of consciousness. Neuroscience specialists, such as Giulio Tononi or David Eagleman, consider consciousness as a phenomenon of emergence of all processes that take place in the brain. This hypothesis has the advantage of being supported by progress made in the study of complex systems in which the issue of emergence can be mathematically formalized and analyzed by physical-mathematical models. The current tendency to associate neural networks within the broad scope of network science also allows for a physical-mathematical formalization of phenomenology in neural networks and the construction of information-symbolic models. The extrapolation of emergence at the level of physical systems, biological systems and psychic systems can bring new models that can also be applied to the concept of consciousness. The meaning and significance that seem to structure the nature of consciousness is found as direction of evolution and teleological finality, of integration in the whole system and in any complex system at all scales. Starting from the wave-corpuscle duality in quantum physics, we can propose a model for structuring reality, based on the emergence of systems that contribute to the integration and coherence of the entire reality. Physical-mathematical models based mainly on topology can provide a mathematical formalization path, and the paradigm of information could allow the development of a pattern of emergence, that is common to all systems, including the psychic system, the difference being given only by the degree of information complexity. Thus, the mind-brain duality, which has been dominating the representation on psychism for a few centuries, could be solved by an informational approach, describing the connection between object and subject, reality and human consciousness, between mind and brain, thus unifying the perspective on natural sciences and humanities. (shrink)

The central claim of this thesis is that concepts, the components from which cognitively significant truth evaluable content (thought) is composed, are unstructured entities an account of whose individuation makes no essential reference to other concepts in the possession of the thinking subject or to any particular means by which the reference of the concept is identified by the thinking subject. This position is called Conceptual Atomism and contrasts with Inferential Role Semantics, according to which concepts are individuated by their (...) inferential roles or their conditions of warranted application. The structure of the argument is as follows. Firstly, a principle called the Transparency Principle is developed. This places constraints on the individuation of concepts across differing contexts. The Transparency Principle is then used to show that Inferential Role Semantics is false because it cannot provide a satisfactory account of cognitive dynamics; that is, of the conditions under which a concept is retained through changes in the epistemic state of the subject over a period of time. A version of Conceptual Atomism is then defended and it is shown that this theory yields the correct individuation of concepts. According to this theory the concepts of an individual subject are individuated in terms of referential episodes, episodes of ongoing reference to an object or property during which it is diachronically transparent to the subject that the same thing is being referred to. The more general notion of a referential practice is then used to account for the sharing of concepts by more than one person. Finally, a novel account of the thoughts expressed using indexical terms is defended in order to show that indexicals present no counterexample to Conceptual Atomism. This account of indexical thoughts is of some consequence in its own right. (shrink)

This thesis develops methods for representing how the contents of theories of meaning become conceived by their users. These contents are treated as the range of systematically elicited conceptions afforded by a designated corpus of key texts. The approach being taken involves first detailing a formal scheme for the components of situations attributed to various entities. This scheme is then applied as a framing device to form a template which accounts for the shared structure between the mental spaces which embody (...) how people conceive different theories of meaning. For the purposes of this task, cognition is treated as embodied in the sense that both the form and content of personal conceptualisations are largely dependent on what both bodily and ecological factors afford. The purpose of this approach is to help understand how theories operate when viewed as worldly entities within a materialist framework. The significance of such understanding lies in enabling analyses and comparisons which account for the effects of material restrictions such as how a theory’s presentation must necessarily be selective and how human cognition operates on models set by precedent. The framework being provided here allows the conceptions each individual theory of meaning elicits to be reduced to formal, commensurate models which account for differences between typical influences on the conceptions characteristic of different demographics such as experts of related fields. Approaching theories of meaning from this angle also reveals new avenues of comparison concerning otherwise implicit details. One involves theory-internal conditions on the full material identity of meaning-instantiating entities. The other concerns the extent of the domains for aggregating applicable influences for which a theory accounts and the range of those it may accommodate. (shrink)

I develop a rate-distortion analysis of signaling games with imperfect common interest. Sender and receiver should be seen as jointly managing a communication channel with the objective of minimizing two independent distortion measures. I use this analysis to identify a problem with 'functional' theories of deception, and in particular Brian Skyrms's: there are perfectly cooperative, non-exploitative instances of channel management that come out as manipulative and deceptive according to those theories.

In this paper we propose a narrative hypothesis on the nature of language and a proto-discursive hypothesis on the origin of our communicative abilities. Our proposal is based on two assumptions. The first assumption, concerning the properties of language, is tied to the idea that global discourse coherence governs the origin of our communicative abilities as well the functioning of these abilities. The second assumption, concerning processing devices, is connected to the idea that the systems of spatial and temporal navigation (...) are implicated in discourse coherence processing. Analysis of the relationship between these two assumptions allows us to integrate the model of language based on clues proposed by Sperber and Wilson with Relevance Theory with the discursive foundation of human communication. In this respect, our proposal can be considered as a tentative extension of Relevance Theory. (shrink)

The consolidation of the informational paradigm in molecular biology research concluded on a system to convert the epistemic object into an operational technological object and a stable epistemic product. However, the acceptance of the informational properties of genetic acids failed to clarify the meaning of the concept of information. The “information”’ as a property of the genetic molecules remained as an informal notion that allows the description of the mechanism of inheritance, but it was not specified in a logic–semantic structure. (...) The metaphorical implications associated with the idea of genes as molecules with meaning, questioned the linguistics that seemed too foreign to molecular biology. A reformulation of the concept of information in molecular biology was developed upon the theory of Claude Shannon. The node for the structural coupling between biology, physics and information theory was the identification of an analog structure between the coded messages of Shannon’s theory. (shrink)

Information plays an important role not only in evolution—genetics can be seen as a mechanism to transfer information from one generation to the next—but also in ecology: virtually all organisms use information about their environment to adjust their behavior and life histories. Indeed, being adapted to something can be defined as having the right information to solve the life-history problems that this creates. It then becomes irrelevant precisely where this information came from (genetics, experience, culture, etc.) but rather becomes an (...) issue of how to assess the fitness value of this information. Here I will explore in some detail the conceptual consequences of the information-based view of evolution. In particular, I will focus on how individuals are actually associations of smaller units that depend on each other’s genetic information and on information from multiple external sources. An important and fundamental problem arises when these different sources of information do not suggest the same adaptations. Conflicting information may thus give new insight into the causes of stress. (shrink)

In noun phrase coordinate constructions, there is a strong tendency for the syntactic structure of the second conjunct to match that of the first; the second conjunct in such constructions is therefore low in syntactic information. The theory of uniform information density predicts that low-information syntactic constructions will be counterbalanced by high information in other aspects of that part of the sentence, and high-information constructions will be counterbalanced by other low-information components. Three predictions follow: lexical probabilities will be lower in (...) second conjuncts than first conjuncts; lexical probabilities will be lower in matching second conjuncts than nonmatching ones; and syntactic repetition should be especially common for low-frequency NP expansions. Corpus analysis provides support for all three of these predictions. (shrink)

The article discusses semantic change and lexical replacement processes in the color domain, based on color naming studies in seven Germanic languages and from different generations of speakers in a single language. Change in the color domain often begins and ends in conceptual peripheries, and I argue that this perspective is suitable for other semantic domains as well.

In this paper we discuss the process of building a joint probability distribution from an input set of low-dimensional probability distributions. Since the solution of the problem for a consistent input set of probability distributions is known we concentrate on a setup where the input probability distributions are inconsistent. In this case the iterative proportional fitting procedure, which converges in the consistent case, tends to come to cycles. We propose a new algorithm that converges even in inconsistent case. The important (...) property of the algorithm is that it can be efficiently implemented exploiting decomposability of considered distributions. (shrink)

En este artículo pretendo evaluar las bases conceptuales y interpretativas de las ‘paradojas info-térmicas’ subyacentes a las aproximaciones informacionales a la física térmica, por las cuales nuestra información epistémica sobre un sistema molecular aumenta y disminuye simultáneamente cuando este se aproxima al equilibrio térmico. Defiendo que el contenido paradójico de nuestra tesis persiste incluso cuando se distinguen distintos tipos de información, debido a la conexión robusta entre la parte del incremento y la parte de la disminución informacional de la tesis. (...) Concluiré defendiendo que dicha paradoja muestra las inconsistencias conceptuales de las aproximaciones informacionales de la física térmica. (shrink)

The Modern Synthesis has received criticism for its purported gene-centrism. That criticism relies on a concept of the gene as a unit of instructional information. In this paper I discuss information concepts and endorse one, developed from Floridi, that sees information as a functional relationship between data and context. I use this concept to inspect developmental criticisms of the Modern Synthesis and argue that the instructional gene arose as an idealization practice when evolutionary biologists made comment on development. However, a (...) closer inspection of key claims shows that at least some associated with the Modern Synthesis were in fact adopting the data led definition I favour and made clear arguments for the role of developmental processes beyond genetic input. There was no instructional gene. (shrink)

The interrelation between two theories, theory of complexity and theory of systems, is analyzed by using the chemical graph-theoretical concept. The idea of complexity is systemized through three components: diachronic, synchronic, and combinatorial complexity. The relationships between entropy and complexity, as well as the problem of function are also discussed.

Although results of many psychology studies have shown that sharing emotion achieves dyadic interaction, no report has explained a study of the transmission of authentic information from emotional expressions that can strengthen perceivers. For this study, we used computational modeling, which is a multinomial processing tree, for formal quantification of the process of sharing emotion that emphasizes the perception of authentic information for expressers’ feeling states from facial expressions. Results indicated that the ability to perceive authentic information of feeling states (...) from a happy expression has a higher probability than the probability of judging authentic information from anger expressions. Next, happy facial expressions can activate both emotional elicitation and sharing emotion in perceivers, where emotional elicitation alone is working rather than sharing emotion for angry facial expressions. Third, parameters to detect anger experiences were found to be correlated positively with those of happiness. No robust correlation was found between the parameters extracted from this experiment task and questionnaire-measured emotional contagion, empathy, and social anxiety. Results of this study revealed the possibility that a new computational approach contributes to description of emotion sharing processes. (shrink)

In this paper we discuss, under a critical point of view, the current Information Science landscape and some future prospects regarding contemporary information phenomena. We present thoughts about the process of thematic deflation of Information Science, through the analysis of the research objects currently under development in this field. In addition to this, we look at the process of absorption of these and other relevant objects in distinguished knowledge fields. We seek to challenge the emphasis and the volume of interdisciplinary (...) research within the field, and present some comments about what might be the results of such processes for the future of Information Science. Subsequently, we analyze the impact in the Information Science field due to phenomena like information boom, the consolidation of the social networks as interactive spaces, cloud computing, as well as other key elements. (shrink)

In a series of works, different models have shed light on the acoustic properties of air sacs, an organ located in the laryngeal region that is present in all great apes with the exception of humans. These works have shown how the loss of air sacs expands the number of possible digits but not the amount of signals per se. The number of signals in human language increased when the codifying property known as duality of patterning became characteristic of the (...) codifying system, allowing digits to be combined in order for new signals to be codified. A direct relationship between air sacs and duality is presently being plotted, integrating linguistic theory and data from computational models into an evolutionary and developmental perspective of the evolution of modern speech. (shrink)

Biomedical signals are frequently noisy and incomplete. They produce complex and high-dimensional data sets. In these mentioned cases, the results of traditional methods of signal processing can be skewed by noise or interference present in the signal. Information entropy, as a measure of disorder or uncertainty in the data, was introduced by Shannon. To date, many different types of entropy methods have appeared with many different application areas. The purpose of this paper is to present a short overview of some (...) methods of entropy analysis and to discuss their suitability for use in the analysis of biomedical signals. (shrink)

Recently, Horsman et al. have proposed a new framework, Abstraction/Representation theory, for understanding and evaluating claims about unconventional or non-standard computation. Among its attractive features, the theory in particular implies a novel account of what is means to be a computer. After expounding on this account, I compare it with other accounts of concrete computation, finding that it does not quite fit in the standard categorization: while it is most similar to some semantic accounts, it is not itself a semantic (...) account. Then I evaluate it according to the six desiderata for accounts of concrete computation proposed by Piccinini. Finding that it does not clearly satisfy some of them, I propose a modification, which I call Agential AR theory, that does, yielding an account that could be a serious competitor to other leading account of concrete computation. (shrink)

The rise of learning analytics, the application of complex metrics developed to exploit the proliferation of ‘Big Data’ in educational work, raises important moral questions about the nature of what is measurable in education. Teachers, schools and nations are increasingly held to account based on metrics, exacerbating the tendency for fine-grained measurement of learning experiences. In this article, the origins of learning analytics ontology are explored, drawing upon core ideas in the philosophy of computing, such as the general definition of (...) information and the information-theoretic account of knowledge. Drawing upon a reading of Descartes Meditatio II, which extends the phenomenology of Jean-Luc Marion into a pedagogy of intentionality, the article identifies a fundamental incompatibility between the subjective experience of learning and the information-theoretic account of knowledge. Human subjects experience and value their own information incommensurably with the ways in which computers measure and quantify information. The consequences of this finding for the design of online learning environments, and the necessary limitations of learning analytics and measurement are explored. (shrink)

Purpose – This paper aims to explore whether philosophical insights from Plato's dialogue “Parmenides” on the complex and often paradoxical nature of change can illuminate the nature of information retrieval (IR). IR is modelled as a dialectic process involving mutually dependent yet conflicting forces between the subjective and the objective. These forces operate to produce change in the subjective experience of users (becoming informed) through facilitating a relationship with objective documents. Accurately modelling, predicting and enabling this process remains a persistent (...) problem for IR and this paper seeks to examine the extent to which this is because of the nature of change. Design/methodology/approach – The paper is a conceptual analysis and literature review. Findings – The problem of change (what it is, how it happens and how we can know it has happened) is essential to our understanding of information as information normally implies some kind of change in knowledge state. Any process of change, however, on examination of its qualities, appears to necessitate the combination of irreconcilable and conflicting forces. The apparent contradictions within the existence of change as discussed in “Parmenides” also exist in IR on both a theoretical and a technical level. Research limitations/implications – Change is a central concept for information in general and IR in particular. A deeper understanding of the paradoxical nature of change can provide new insights into IR theory and practice. Originality/value – The paper presents a new historical philosophical perspective on the nature of change and applies it to current IR problems. (shrink)

This paper proposes a new interpretation of mutual information (MI). We examine three extant interpretations of MI by reduction in doubt, by reduction in uncertainty, and by divergence. We argue that the first two are inconsistent with the epistemic value of information (EVI) assumed in many applications of MI: the greater is the amount of information we acquire, the better is our epistemic position, other things being equal. The third interpretation is consistent with EVI, but it is faced with the (...) problem of measure sensitivity and fails to justify the use of MI in giving definitive answers to questions of information. We propose a fourth interpretation of MI by reduction in expected inaccuracy, where inaccuracy is measured by a strictly proper monotonic scoring rule. It is shown that the answers to questions of information given by MI are definitive whenever this interpretation is appropriate, and that it is appropriate in a wide range of applications with epistemic implications. (shrink)

Body movements, autonomic arousal, and electroencephalograms of group members are often coordinated or synchronized with those of other group members. Linear and nonlinear measures of synchronization have been developed for pairs of individuals, but little work has been done on measures of synchronization for groups. We define a new synchronization coefficient, SE, for a group based on pairwise correlations in time series data and employing the notions of a group driver, who most drives the group’s responses, and empath, who is (...) most driven by the group. SE is developed here in the context of emotional synchronization based on galvanic skin response time series. A simulation study explores its properties, the balance between strong versus weak autocorrelational effects, transfer, group size, and direct versus oscillatory functions. Distributions of SE are not affected by group size up to 16 members. Norms for interpreting the coefficient are presented along with directions for new research. (shrink)

The idea that natural selection acts on many levels—and not only at the level of organisms or individual genes—is increasingly accepted among biologists. However, it is not easy to reconcile this idea with the strictly “individualistic” conception of the evolutionary process that has always characterized Darwinian thought. Moreover, the individuality of some forms of life is a vague concept and therefore controversial. This is the case of Candidatus Magnetoglobus multicellularis, whose discovery immediately inspired the following question: Does the concept of (...) individuality have degrees? Alternatively, how far is this structure of prokaryotic cells from deserving to be called an organism? In this article, we propose a new conceptual scheme based on an idea of individuality that is not limited to organisms and that makes sense in terms of Darwinian evolution. In this conceptual scheme, selection at levels above that of the individual organism is interpreted as the evolutionary emergence of higher-level individuality. This proposal may serve as a basis on which to construct a promising hierarchical evolutionary theory. (shrink)