In his late years, Thomas Kuhn became interested in the process of scientific specialization, which does not seem to possess the destructive element that is characteristic of scientific revolutions. It therefore makes sense to investigate whether and how Kuhn’s insights about specialization are consistent with, and actually fit, his model of scientific progress through revolutions. In this paper, I argue that the transition toward a new specialty corresponds to a revolutionary change for the group of scientists involved in such a (...) transition. I will clarify the role of the scientific community in revolutionary changes and characterize the incommensurability across specialties as possessing both semantic and methodological aspects. The discussion of the discovery of the structure of DNA will serve both as an illustration of my main argument and as reply to one criticism raised against Kuhn—namely, that his model cannot capture cases of revolutionary yet non-disruptive episodes of scientific progress. Revisiting Kuhn’s ideas on specialization will shed new light on some often overlooked features of scientific change. (shrink)

Diagrams by Connor Camburn -/- The relationship between axiomatization, mechanization, creative individuation, and virtual/physical individuation presents a fascinating interplay of concepts that have significantly influenced various fields, including mathematics, physics, philosophy, and art. This essay explores these relationships by drawing insights from André Weil's "From Metaphysics to Mathematics," Gilles Châtelet's works, and Schmid's discussion on Gnostic Futurism. -/- Axiomatization: Weil and Grothendieck -/- Axiomatization, as discussed in André Weil's "From Metaphysics to Mathematics," represents the transformation of metaphysical concepts into formal (...) mathematical structures. Weil's document highlights the progression from vague metaphysical ideas to concrete mathematical theories. This process is evident in the works of mathematicians like Lagrange and Galois, where initial metaphysical notions eventually crystallized into the formal structures of modern algebra. Similarly, Alexander Grothendieck's work in algebraic geometry involved the creation of an abstract framework that could unify various mathematical concepts, demonstrating the power of axiomatization in providing a foundational structure for complex ideas. -/- Mechanization: Oppenheimer, Watson-Crick, and Von Neumann -/- Mechanization, in the context of scientific development, refers to the application of mechanical principles to solve problems and the automation of processes. Figures like Oppenheimer in physics, Watson and Crick in biology, and Von Neumann in computing and mathematics, represent the pinnacle of mechanization in their respective fields. Their work exemplifies how mechanization has enabled the simplification and automation of complex processes, leading to alienating discoveries such as the atomic bomb, the structure of DNA, and the development of modern computers. -/- Creative Individuation: Gnostic Futurism -/- Eric Schmid's discussion on Gnostic Futurism, as found in his document, offers a perspective on creative individuation. Gnostic Futurism, rooted in Kantian-Hegelian transcendental universalism, represents a departure from conventional realism, emphasizing a transcendental nature and integration of mythopoeia. This movement in art and philosophy underscores the role of creativity and individual expression in transcending traditional forms and norms. It embodies the idea of creative individuation, where individual creativity leads to the formation of new, often revolutionary, artistic and philosophical expressions. -/- Virtual/Physical Individuation: Châtelet's Perspective -/- Gilles Châtelet's works, particularly "Figuring Space: Philosophy, Mathematics, and Physics," delve into the concept of virtual/physical individuation. Châtelet discusses the configuration of space in mathematics and physics, emphasizing the role of diagrams in scientific discovery. This exploration of space, both virtual (as in mathematical abstractions) and physical (as in tangible representations), reflects the process of individuation in both realms. Châtelet's perspective highlights how mathematical and physical representations are not just tools for understanding the world but are also expressions of individual and collective intellectual endeavors. -/- Interconnections and Synthesis -/- The synthesis of these concepts reveals a complex tapestry of intellectual development across disciplines. Axiomatization provides a foundational structure that enables the mechanization of processes, as seen in the works of Oppenheimer, Watson-Crick, and Von Neumann. This mechanization, in turn, paves the way for creative individuation, where individuals can transcend established norms and frameworks, as exemplified in Gnostic Futurism. Finally, the concept of virtual/physical individuation, as explored by Châtelet, represents the culmination of these ideas, where the abstract and the tangible intersect, leading to new forms of understanding and expression. -/- In conclusion, the relationship between axiomatization, mechanization, creative individuation, and virtual/physical individuation is a testament to the dynamic and interconnected nature of intellectual progress. From the formal structures of mathematics to the revolutionary changes in art and philosophy, these concepts demonstrate how human thought and creativity continue to evolve, challenging existing paradigms and forging new paths of understanding and expression. (shrink)

The study of biodiversity spans many disciplines and includes data pertaining to species distributions and abundances, genetic sequences, trait measurements, and ecological niches, complemented by information on collection and measurement protocols. A review of the current landscape of metadata standards and ontologies in biodiversity science suggests that existing standards such as the Darwin Core terminology are inadequate for describing biodiversity data in a semantically meaningful and computationally useful way. Existing ontologies, such as the Gene Ontology and others in the Open (...) Biological and Biomedical Ontologies (OBO) Foundry library, provide a semantic structure but lack many of the necessary terms to describe biodiversity data in all its dimensions. In this paper, we describe the motivation for and ongoing development of a new Biological Collections Ontology, the Environment Ontology, and the Population and Community Ontology. These ontologies share the aim of improving data aggregation and integration across the biodiversity domain and can be used to describe physical samples and sampling processes (for example, collection, extraction, and preservation techniques), as well as biodiversity observations that involve no physical sampling. Together they encompass studies of: 1) individual organisms, including voucher specimens from ecological studies and museum specimens, 2) bulk or environmental samples (e.g., gut contents, soil, water) that include DNA, other molecules, and potentially many organisms, especially microbes, and 3) survey-based ecological observations. We discuss how these ontologies can be applied to biodiversity use cases that span genetic, organismal, and ecosystem levels of organization. We argue that if adopted as a standard and rigorously applied and enriched by the biodiversity community, these ontologies would significantly reduce barriers to data discovery, integration, and exchange among biodiversity resources and researchers. (shrink)

What constitutes a scientific discovery? What role do discoveries play in science, its dynamics and social practices? Must every discovery be attributed to an individual discoverer (or a small number of discoverers)? The paper explores these questions by first critically examining extant philosophical explications of scientific discovery—the models of scientific discovery, propounded by Kuhn, McArthur, Hudson, and Schindler. As a simple, natural and powerful alternative, we proffer the “change-driver model”: in a nutshell, it takes discoveries to (...) be cognitive scientific results that have epistemically advanced science. The model overcomes the shortcomings of its precursors, whilst preserving their insights. We demonstrate its intensional and extensional superiority, especially with respect to the link between scientific discoveries and the dynamics of science, as well as the award system of science. Both as an illustration, and as an application to a recent scientific and political controversy, we apply the considered models of discovery to one of the most momentous discoveries of science: the expansion of the universe. We oppose the 2018 proposal of the International Astronomers’ Union as too simplistic vis-`a-vis the historical complexity of the episode. The change- driver model yields a more nuanced and circumspect verdict: (i) The redshift-distance relation shouldn’t be named the “Hubble-Lemaître Law”, but “Slipher-Lundmark-Hubble-Humason Law”; (ii) Its interpretation in terms of an expanding universe, however, Lemaître ought to be given credit for; but (iii) The establishment of the expansion of the universe, as an evidentially sufficiently warranted result, is a communal achievement, emerging in the 1950s or 1960s. (shrink)

DNA possesses a double nature: it is both an analog chemical compound and a digital carrier of information. By distinguishing these two aspects, this paper aims to reevaluate the legally and politically influential idea that the human genome forms part of the common heritage of mankind, an idea which is thought to conflict with the practice of patenting DNA. The paper explores the lines of reasoning that lead to the common heritage idea, articulates and motivates what emerges as the most (...) viable version of it, and assesses the extent to which this version conflicts with gene-patenting practices as exemplified by the U.S. regime. It concludes that the genome is best thought of as a repository of information to which humanity has a fiduciary relationship, and that on this view, the perceived conflict with gene-patenting largely dissolves. (shrink)

Observational and experimental discoveries of new factual entities such as objects, systems, or processes, are major contributors to some advances in the life sciences. Yet, whereas discovery of theories was extensively deliberated by philosophers of science, very little philosophical attention was paid to the discovery of factual entities. This paper examines historical and philosophical aspects of the experimental discovery by Carl Woese of archaea, prokaryotes that comprise one of the three principal domains of the phylogenetic tree. Borrowing (...) Kuhn’s terminology, this discovery of a major biological entity was made during a ‘normal science’ project of building molecular taxonomy for prokaryotes. Unexpectedly, however, an observed anomaly instigated the discovery of archaea. Substantiation of the existence of the new archaeal entity and consequent reconstruction of the phylogenetic tree prompted replacement of a long-held model of a prokarya and eukarya bipartite tree of life by a new model of a tripartite tree comprising of bacteria, archaea, and eukarya. This paper explores the history and philosophical implications of the progression of Woese’s project from normal science to anomaly-instigated model-changing discovery. It is also shown that the consequential discoveries of RNA splicing and of ribozymes were similarly prompted by unexpected irregularities during normal science activities. It is thus submitted that some discoveries of factual biological entities are triggered by unforeseen observational or experimental anomalies. (shrink)

In this paper I start from a definition of “culture of the artificial” which might be stated by referring to the background of philosophical, methodological, pragmatical assumptions which characterizes the development of the information processing analysis of mental processes and of some trends in contemporary cognitive science: in a word, the development of AI as a candidate science of mind. The aim of this paper is to show how (with which plausibility and limitations) the discovery of the mentioned background (...) might be dated back to a period preceding the cybernetic era, the decade 1930–1940 at least. Therefore a somewhat detailed analysis of Hull's “robot approach” is given, as well as of some of its independent and future developments. -/- Reprinted in R.L. Chrisley (ed.), Artificial Intelligence: Critical Concepts in Cognitive Science, vol. 1, Routledge, London and New York, 2000, pp. 301-326. (shrink)

Since the second half of the XXth century, researchers in cybernetics and AI, neural nets and connectionism, Artificial Life and new robotics have endeavoured to build different machines that could simulate functions of living organisms, such as adaptation and development, problem solving and learning. In this book these research programs are discussed, particularly as regard the epistemological issues of the behaviour modelling. One of the main novelty of this book consists of the fact that certain projects involving the building of (...) simulative machine models before the advent of cybernetics are been investigated for the first time, on the basis of little known, and sometimes completely forgotten or unpublished, texts and figures. These pre-cybernetics projects can be considered as steps toward the “discovery” of a modelling methodology that has been fully developed by those more recent research programs, and that shares some of their central goals and key methodological proposals. -/- More info in Springer link: http://www.springer.com/new+%26+forthcoming+titles+%28default%29/book/978-1-4020-0606-7 -/- This book is the English translation of La scoperta dell'artificiale, Dunod/Masson, Milan, 1998. (shrink)

Beyond reveals evidence of three of the most sought after universal and human mysteries - the origin of the universe, the location of God's spiritual dimension, and the origin of human consciousness. Beyond unveils a highly syntactic, pragmatic paradigm, a universal, interconnecting system that places access to all pre-existing potential knowledge in the possession of humanity. Dr. Sprock reveals these three discoveries as the Occam's razor (Scientific principle: All things being equal, the simplest explanation tends to be the correct one) (...) of explanations of how the universe was created, the location of God's spiritual dimension, and the origin of human consciousness. This new knowledge takes humanity to its final destination. We can now tap into the universal vault of information that is coded into the universal frequencies within the fabric of the universe that have their origin in the infinite, spiritual dimension of God consciousness. How the systems of the universe function are brought to Earth level and are explained as to how they work in everyday living situations. The emotional burden carried by humans, due to lack of understanding, of why situations and circumstances occur are lifted, freeing you to focus on your life without emotional upheavals that distract you from your destiny's path. Beneficiaries are empowered to choose anew rather than continually recall and repeat undesired patterns of resistance-attraction and self-sabotage. This knowledge will bring greater joy and prosperity into your life. All the dots of modern science and ancient scripture have been connected. The code has been cracked and now will shift the perception human consciousness has of reality, forever. This is a huge game changer for the consciousness of humankind. Once this knowledge is introduced, accepted, and then applied to your daily routines, you will receive the boost needed to surge beyond your 10-12% brain usage at this point in your history. The Bose-Einstein Condensation is in direct concurrence with Dr. Sprock's location of God consciousness; the wave/frequency aspect of Nature yields the mental/consciousness; the particle/matter aspect of Nature yields the material. Dr. Sprock applies this phenomenon to the God consciousness/human consciousness connection. Dr. Sprock takes the Condensate a step further and explains the location of God consciousness existing in a spiritual, infinite dimension that spatially extended Spiritual DNA consciousness through frequency (Wave), which then vibrated to form density particles (Matter), creating the three dimensions of the physical universe and the origin of human consciousness. The frequencies carry the codes of God consciousness to human consciousness via the physical brain and the subconscious mind hologram. (shrink)

Cells are cognitive entities possessing great computational power. DNA serves as a multivalent information storage medium for these computations at various time scales. Information is stored in sequences, epigenetic modifications, and rapidly changing nucleoprotein complexes. Because DNA must operate through complexes formed with other molecules in the cell, genome functions are inherently interactive and involve two-way communication with various cellular compartments. Both coding sequences and repetitive sequences contribute to the hierarchical systemic organization of the genome. By virtue of nucleoprotein complexes, (...) epigenetic modifications, and natural genetic engineering activities, the genome can serve as a read-write storage system. An interactive informatic conceptualization of the genome allows us to understand the functional importance of DNA that does not code for protein or RNA structure, clarifies the essential multidirectional and systemic nature of genomic information transfer, and emphasizes the need to investigate how cellular computation operates in reproduction and evolution. (shrink)

The Aristotelian axiom that function follows form was beautifully instantiated in molecular biology by the discovery of DNA’s structure that immediately suggested how DNA might work as depository and vehicle for genetic information. However, later on molecular biology became infatuated with the gene that became the center of the universe. This gene-centered viewpoint is an obstacle for the emerging field of evo-devo aiming at finding the causal connections between evolution and biological development. Here it is argued that molecular biology (...) must reject the narrow-minded causality associated with the gene-centered view and so it must recover to the spirit of Aristotelian natural history and its four types of causation in order to foster the evo-devo field of research. (shrink)

I begin with a description of the benefits and limits of DNA barcoding as presented by its advocates not its critics. Next, I argue that due to the mutually dependent relationship between defining and delimiting species, all systems of classification are grounded in theory, even if only implicitly. I then proceed to evaluate DNA barcoding in that context. In particular, I focus on the barcoders’ use of a sharp boundary by which to delimit species, arguing that this boundary brings along (...) additional theoretical commitments inconsistent with the way taxonomists conceive of species, viz., as entities that have vague boundaries and that cannot be defined by any single attribute other than ancestry. Given these inconsistencies, I conclude that even if groupings based on DNA barcodes match those of an existing taxonomy, the two systems of classification are not necessarily tracking the same entities, i.e., species. (shrink)

Concern about the ethics of clinical drug trials research on patients and healthy volunteers has been the subject of significant ethical analysis and policy development—protocols are reviewed by Research Ethics Committees and subjects are protected by informed consent procedures. More recently attention has begun to be focused on DNA banking for clinical and pharmacogenetics research. It is, however, surprising how little attention has been paid to the commercial nature of such research, or the unique issues that present when subjects are (...) asked to consent to the storage of biological samples. Our contention is that in the context of pharmacogenetic add-on studies to clinical drug trials, the doctrine of informed consent fails to cover the broader range of social and ethical issues. Applying a sociological perspective, we foreground issues of patient/subject participation or ‘work’, the ambiguity of research subject altruism, and the divided loyalties facing many physicians conducting clinical research. By demonstrating the complexity of patient and physician involvement in clinical drug trials, we argue for more comprehensive ethical review and oversight that moves beyond reliance on informed consent to incorporate understandings of the social, political and cultural elements that underpin the diversity of ethical issues arising in the research context. (shrink)

The usage of Quantum Similarity through the equation Z = {∀Θ∈Z→∃s ∈ S ʌ ∃t ∈ T: Θ= (s,t)}., represents a way to analyze the way communication works in our DNA. Being able to create the object set reference for z being (s,t) in our DNA strands, we are able to set logical tags and representations of our DNA in a completely computational form. This will allow us to have a better understanding of the sequences that happen in our DNA. (...) With this approach, we can also utilize mathematical formulas such as the Euler–Mascheroni constant, regressional analysis, and computational proofs to answer important questions on Quantum biology, Quantum similarity, and Theoretical Physics. (shrink)

This is just an initial finding and needs to be verified by a larger, more thorough study. Part 1 of this paper demonstrates that we unconsciously select words based on letter sounds that we like or dislike. Part 2 demonstrates that there may be harmony and dissonance in the pattern of frequency of letter usage, at least in the case of the vowels. To the best of my knowledge this is a new idea/discovery. The following paper contains graphs of (...) the data collected from 15 classic works of literature including 4 works of HG Wells and 4 works of Jane Austen. Also a separate analysis is done using just the vowels from Shakespeare’s Sonnets and the Eminem Recovery album. (shrink)

Human individuality is something that is taken for granted in our time. In fact, it has arisen anthropologically over long periods of time. Man is originally a collective being who has no identity outside of his collective - not least because nobody asks him about it. The text provides a) a psychoanalytically inspired hypothesis as to how an idea of the ego as an individual could actually come about and b) a subsequent, further hypothesis that this idea of the individual (...) has radically changed with the onset of the modern age. (shrink)

This week, the Royal Swedish Academy of Sciences announced the names of Nobel laureates in different fields. This year, the Nobel Prize in Biomedical Sciences was awarded to Swedish geneticist Svante Paabo for his discoveries concerning the DNA sequence of apes and human evolution. His work is especially meaningful as the question of human origin has long been a major concern to mankind. Modern-day wise humans belong to the genus Homo sapiens, along with seven ancient human races that existed millions (...) of years ago. Over time, many species became extinct and Professor Paabo discovered the gene transfer of these extinct species to Homo sapiens. With this discovery, he laid the foundation for other scientists to continue to search for the origin of modern humans. (shrink)

The sense of balance remains a Cinderella among our senses. Although the vestibular apparatus and the apprehension of motion, equilibrium and orientation which it serves has now been studied extensively and descriptions abound in textbooks on perceptual psychology, its key role in our agency remains neglected in philosophical accounts of perception. Popularly received wisdom on the senses also largely ignores balance and it has recently even been called 'the lost sense'. -/- Recognition for the discovery of this sense should (...) probably be accorded to Thomas Reid and his contemporary William Charles Wells. Both made crucial observations before the close of the eighteenth century. Since there is now a tendency to emphasize the role of the agent, brain plasticity, and the development of motor skills in all perceptual tasks, some of Reid's comments in particular strike us as remarkably modern. Reid also differs from many authorities in crediting the sense with specific sensations, as would be expected given the role of sensations in his epistemological scheme. -/- In this paper some of the fascinating facts about the sense of balance are reviewed so that Reid's remarks can be evaluated in a modern context. Similarities and differences in the approaches of Wells and Reid are considered and the value that Reid's insights have even now in understanding perceptual processes is explored. It is suggested that Reid should indeed be counted among the hitherto unacknowledged discoverers of this fundamental sense. (shrink)

The winning entry in David Stove's Competition to Find the Worst Argument in the World was: “We can know things only as they are related to us/insofar as they fall under our conceptual schemes, etc., so, we cannot know things as they are in themselves.” That argument underpins many recent relativisms, including postmodernism, post-Kuhnian sociological philosophy of science, cultural relativism, sociobiological versions of ethical relativism, and so on. All such arguments have the same form as ‘We have eyes, therefore we (...) cannot see’, and are equally invalid. (shrink)

The aim of this paper is to retrace the history of genetic patents, analyzing the metaphors used in the public debate, in patent offices, and in courtrooms. I have identified three frames with corresponding metaphor clusters: the first is the industrial frame, built around the idea that DNA is a chemical; the second is the informational frame, assembled around the concept of genetic information; last is the soul frame, based on the idea that DNA is or contains the essence of (...) the individual. (shrink)

Tarihin nesnel olarak yazılamayacağının fark edilmesinin ardından bilim tarihi yazımında da bazı dönüşümler olmuştur. Bu değişiklikler genellikle olumlu olsa da bazı tarih yazımı tartışmaları bilim tarihi metinlerine yeterince yansımamıştır. Bu yazıda Rosalind Franklin örneği üzerinden kadın bilimcilerin bilim tarihinde nasıl ele alındığını tartıştım. Kadınlara bilim tarihinde hak ettikleri yeri verme çabamız sırasında bilim tarihçileri olarak nelere dikkat etmemiz gerektiğini ele aldım. Özellikle vurguladığım noktalar bilimsel araştırma biçimlerinin doğru yansıtılması, kurumsal ayrımcılıkların üstünün örtülmesinden kaçınılması ve ele alınan figürün bilime katkısının açıkça (...) yazılması oldu. Yazıda Franklin hakkındaki literatüre bir katkı sunmayı amaçladım ancak daha da önemlisi Franklin başta olmak üzere kadın bilimciler hakkındaki metinlerde sık yapılan hatalara işaret etmek istedim. -/- Following the realization that history cannot be written objectively, there have been some transformations in the historiography of science. Although these changes are generally positive, some historiography debates have not been adequately reflected in historical texts on science. In this article, I discussed how women scientists are represented in the history of science through the case of Rosalind Franklin. In our effort to give women the place they deserve in the history of science, I have discussed what should we pay attention to as historians of science. My particular emphasis was on reflecting the structure of scientific research correctly, avoiding covering institutional discrimination and clearly writing the contribution of the figure discussed to science. I intend to make a contribution to the literature on Franklin, but more importantly, I tried to point out some common mistakes in texts about women scientists, especially Franklin. (shrink)

Theodore de Laguna develops and argues for a deflationary view of truth well before the publication of what many have taken to be its source, or at least its inspiration, namely Frank P. Ramsey’s paper ‘Facts and Propositions’. I outline de Laguna’s view of truth and the arguments he offers for it; I also discuss its role in the history of twentieth-century philosophy. My outline and discussion serve as an introduction to de Laguna’s ‘A Nominalistic Interpretation of Truth’, a paper (...) he originally wrote in English but which has hitherto only been published in French. (shrink)

I explore the process of changes in the observability of entities and objects in science and how such changes impact two key issues in the scientific realism debate: the claim that predictively successful elements of past science are retained in current scientific theories, and the inductive defense of a specific version of inference to the best explanation with respect to unobservables. I provide a case-study of the discovery of radium by Marie Curie in order to show that the observability (...) of some entities can change and that such changes are relevant for arguments seeking to establish the reliability of success-to-truth inferences with respect to unobservables. (shrink)

This thesis examines the prospects for mechanical procedures that can identify true, complete, universal, first-order logical theories on the basis of a complete enumeration of true atomic sentences. A sense of identification is defined that is more general than those which are usually studied in the learning theoretic and inductive inference literature. Some identification algorithms based on confirmation relations familiar in the philosophy of science are presented. Each of these algorithms is shown to identify all purely universal theories without function (...) symbols. It is demonstrated that no procedure can solve this universal theory inference problem in the more usual senses of identification. The question of efficiency for theory inference systems is addressed, and some definitions of limiting complexity are examined. It is shown that several aspects of obvious strategies for solving the universal theory inference problem are NP-hard. Finally, some non-worst case heuristic search strategies are examined in light of these NP-completeness results. These strategies are based upon an isomorphism between clausal entailments of a certain class and partition lattices, and are applicable to the improvement of earlier work on language acquisition and logical inductive inference. (shrink)

One of the greatest achievements of modern physics is the discovery of spacetime by Hermann Minkowski. Still, talking about the ”discovery” of spacetime cannot be done without further questioning its ontological status. Did Minkowski discover a real physical substrate? What is the creative role of his scientific imagination in the process of discovery? To what extent the explanatory power of spacetime supports the conclusion that it is a true description of the physical world? I consider those questions (...) in that paper, and I claim that for Minkowski’s discovery of spacetime, imagination and explanation work together in a fictionalist strategy. I explain why there is no reason to doubt the veracity of the discovery of spacetime and its physical reality. (shrink)

Starting with the results of Li et al. in 1992 there is valuable interest in finding long range correlations in DNA sequences since it raises questions about the role of introns and intron-containing genes. In the present paper we studied two sequences that are the human T-cell receptor alpha/delta locus, Gen-Bank name HUMTCRADCV, a noncoding chromosomal fragment of M = 97630 bases (composed of less than 10% of coding regions), and the Escherichia Coli K12, Gen-Bank name ECO110K, a genomic fragment (...) with M = 111401 bases consisting of mostly coding regions and containing more that 80% of coding regions. We attributed the value (+1) to the purines and the value (-1) to the pirimidines and to such reconstructed random walk we applied the method of the Recurrence Quantification Analysis(RQA) that was introduced by Zbilut and Webber in 1994. By using dimension D=1 and Embedded Dimensions D=3 and D=5, we obtain some indicative results. Also by a simple eye examination of the reconstructed maps, the differences between coding and non coding regions are evident and impressive and consist in the presence in noncoding regions of long patches of the same colour that are absent in the coding sequence. At first sight this suggests a simple explanation to the concept of „long-range‟ correlation. On the quantitative plane, we used the %Rec., the %Det., the Ratio, the Entropy, the %Lam., and the Lmax that, as explained in detail in the text, represent the basic variables of RQA. The significant result that we have here is that both Lmax and Laminarity exhibit very large values in HUMTCRADCV and actually different in values respect to ECO110K where such variables assume more modest values. Therefore we suggest that there is the observed difference between HUMTCRADCV and ECO110K. The claimed higher long-range correlations of introns respect to exons from many authors may be explained here in reasonof such found higher values of Lmax and of Laminarity in HUMTCRADCV respect to ECO110K. (shrink)

In 1596, in the Mysterium Cosmographicum, a twenty-five-year-old Johannes Kepler rashly banished lines from the universe. They “scarcely admit of order,” he wrote, and God himself could have no use for them in this “well-ordered universe.” Twenty-five years later, though, Kepler had come to repent the temerity of his youth. “O male factum!” he lamented in a 1621 second edition of the Mysterium – “O what a mistake” it was to dismiss lines, for linearity is revealed in those most perfect (...) and divine motions – the revolutions of the heavenly orbs. Why did Kepler come to lament the rashness of his youth? The answer lies deep in the details of Kepler’s discovery of elliptical orbits in 1605. Kepler struggled to find an empirically adequate description and physically plausible explanation of Mars’s path through the heavens. He realized, though, that his originally spherical notion of location and direction were insufficient to reconcile descriptions and explanations of the planet’s motion. Crucially inspired by the “magnetic philosophy” of William Gilbert, Kepler adopted an oriented conception of space, which finally allowed a plausible mechanism to be constructed for elliptical motion – the true path of the planet. Yet, this oriented space required the stipulation of straight lines. Without straight lines, even God could not construct the planets’ elliptical orbits. (shrink)

In this paper I show that Einstein made essential use of aim-oriented empiricism in scientific practice in developing special and general relativity. I conclude by considering to what extent Einstein came explicitly to advocate aim-oriented empiricism in his later years.

FROM THE HISTORY OF PHYSICS TO THE DISCOVERY OF THE FOUNDATIONS OF PHYSICS By Antonino Drago, formerly at Naples University “Federico II”, Italy – drago@unina,.it (Size : 391.800 bytes 75,400 words) The book summarizes a half a century author’s work on the foundations of physics. For the forst time is established a level of discourse on theoretical physics which at the same time is philosophical in nature (kinds of infinity, kinds of organization) and formal (kinds of mathematics, kinds of (...) logic). This double side of the two dichotomies assures a deep comprehension of theoretical physics by avoiding both a purely philosophical analysis and a purely formal analysis, each manifestly insufficient for representing all the aspects of theoretical physics. Among the many formulations of a physical theory, e.g. Mechanics, also Mach(1) recognized technical differences only, Instead my suggestion is to consider their differences as revealing the characteristic features of their foundations. No more radical differences may exist than those concerning both their kinds of Mathematics and their kinds of Logic. As a fact, after the 20th Century within each of these sciences there exist two antagonist foundations, within Mathematics either the classical one or the constructive one(2); within Mathematical Logic either the classical logic or the intuitionist one(3). Let us take Mechanics as an instance. Being the choices of the Newton’s formulation respectively the actual infinity of the differential equations relying on the infinitesimals and the classical logic, a formulation based on the alternative choices is Lazare Carnot’s,(4) whose mathematics is no more than algebraic-trigonometric and the logic is the intuitionist one, because this formulation makes use of doubly negated propositions, whose corresponding affirmative propositions are idealistic or false; i.e. in these cases the law of double negation fails, as in intuitionist logic occurs. By considering these two dichotomies as the foundations of the physical theories, each couple of choices upon them fashions one out four models of scientific theory, which are baptized through the authors of their most representative theories: Newtonian, Carnotian, Lagrangian, Descartesian. In correspondence four versions of the principle of inertia are recognized, as suggested by respectively: Descartes. Lazare Carnot, Enriques and Cavalieri.(5) All that suggests that the four models of scientific theory may be graphically represented as a compass orientating our minds amid the so numerous physical theories. By taking these dichotomies as interpretative categories, a new interpretative history of Physics including both classical and modern physics results according to a quadrilinear development. The birth of modern physics is characterized by the two theories - Einstein’s paper on special relativity and Einstein’s first paper on quanta - whose choices are the alternative ones to those of the previously dominant physical theory, Newtonian mechanics: in the latter paper Einstein i) declares the dichotomy on the kinds of mathematics (“Introduction”) and then he chooses the discrete mathematics; ii) by using doubly negated propositions he organizes his theory in an alternative way to the deductive-axiomatic one.(6) Moreover, a new history of Philosophy of knowledge results. Kant’s first two a priori transcendental categories represent the physical interpretation of the two choices out of the four pairs of choices on the two dichotomies, i.e. the choices of the dominant theory of mechanics, Newton’s. Hegel’s dialectic was a misleading attempt of anticipating the subsequent intuitionist logic. The book starts by a comparison of different formulations of thermodynamics in order to recognize the first dichotomy on the kind of organization. In chapter 2 the dichotomy on the kind of infinity is recognized through a comparison of Newrton’s mechanics and Lazare Carnot’s. A quickly history of the other classical physical theories is illustrated in chapter 3; it results a foundational conflict between the last two theories, and hence a conflict between their opposite couples of choices. The two main theories of modern physics, special realtivity and quantum mechanics confirm the foundational role played by the two dichotomies which gives reason for the radical change in the history of theoretical physics. Indeed, the opposition of the two main pairs of choices gives reason of the crisis in theoretical physics in the early 1900s. As a global result, the book represents the first interpretation of the entire history of Physics, both classical and modern; This fact proves that the four models of scientific theories can works as a compass (that of the front cover) suggesting a direction among the many physical theories. This new history of physics leads to re-visit both Koyré’s and Kuhn’s historiographies. Their interpretative categories are interpreted and explained through the two dichotomies so that it is possible to suggest à la Koyré categories based on the alternative choices theories to Newton’s as the suitable categories for interpreting the alternative theories to Newton’s mechanics. All that suggests a new interpretation of the crucial step in the history of Western philosophy of knowledge, i.e. the passage from Leibniz to Kant: Leibniz’s suggestion of the two labyrinths of human minds may be seen as a close anticipation of the two above dichotomies. Kant applied them in order to construct the well-known four cosmological proofs, which however he misinterpreted as leading to contradictions, instead to tow different methods of investigation corresponding to the two different kinds of logic.(7) Bibliography 1. Mach E. (1883), Die Mechanik, Leipzig: Brockhaus, Chap. IV, Sect. III. 2. Bishop E. (1967), Constructive Analysis, New York: Mc Graw-Hill. 3. Heyting A. (1962), Intuitionism. An Introduction, Amsterdam: North-Holland. 4. L. Carnot (1783), Essai on the Machines en général, Defay, Dijion (Enlish translation: Springer, Berlin, 2020). Drago A. (2004), “A new appraisal of old formulations of mechanics”, Am. J. Phys., 72(3), pp. 407-9. 5. Vella M.R. (2007), “Le quattro versioni del principio di inerzia”, in M. Leone et al. (eds.), L’eredità di Fermi, Majorana e altri Temi. Napoli: ESI, pp. 147-151. 6. Drago A. (2014), “The emergence of two options from Einstein°s first paper on Quanta”, in Pisano R., Capecchi D., Lukesova A. (eds.), Physics, Astronomy and Engineering. Critical Problems in the History of Science and Society, Scientia Socialis P., Siauliai, 2013, pp. 227-234. 7. This and all in the above points are illustrated by the book Drago A. (2017), Dalla Storia della Fisica ai Fondamenti della Scienza, Roma: Aracne. (shrink)

Pierre Duhem is the discoverer of the physics of the Middle Ages. The discovery that there existed a physics of the Middle Ages was a surprise primarily for Duhem himself. This discovery completely changed the way he saw the evolution of physics, bringing him to formulate a complex argument for the growth and continuity of scientific knowledge, which I call the ‘Pierre Duhem Thesis’ (not to be confused either with what Roger Ariew called the ‘true Duhem thesis’ as (...) opposed to the Quine-Duhem thesis, which he persuasively argued is not Duhem’s, or with the famous ‘Quine-Duhem Thesis’ itself). The ‘Pierre Duhem Thesis’ consists of five sub-theses (some transcendental in nature, some other causal, factual, or descriptive), which are not independent, as they do not work separately (but only as a system) and do not relate to reality separately (but only simultaneously). The famous and disputed ‘continuity thesis’ is part, as a sub-thesis, from this larger argument. I argue that the ‘Pierre Duhem Thesis’ wraps up all of Duhem’s discoveries in the history of science and as a whole represents his main contribution to the historiography of science. The ‘Pierre Duhem Thesis’ is the central argument of Pierre Duhem's work as historian of science. (shrink)

The Most Important Discovery of Our Times Seymour Lessans Janis Rafael. because I am convinced that man's will is free. Thank you very much for coming out but I'mnot interested in discussing this matter any further.” And he would notletme ...

Professor Garver’s “Living Well and Living Together” sheds light on one of the more confusing sections in Aristotle’s Politics, namely the discussion of the best way of life for individuals and city in Politics VII.1-3. At a distance, the conclusion of Aristotle’s remarks seem relatively clear: He endorses the claim that the most choice-worthy life and happiness of a city and an individual are the same. Further, the implications of such a claim for Aristotle’s political philosophy also seem clear: Aristotle’s (...) view of an “internally active” city amounts to a thorough critique of expansionist imperialism. But how these two surface level views—the best way of life for a city and the critique of imperialism—fit together is less than perspicuous. Garver’s paper goes after this text through the lens of two problems. First, Aristotle apparently argues from the nature of the best way of life or happiness for an individual to the best way of life for a city. But as Aristotle himself points out in his critique of the Republic, such an argument seems in danger of falling into a fallacy of composition. In response to such a perceived fallacy, Garver argues that Aristotle incorporates into his argument a third thing—what is the best life for a citizen or what Garver calls “common life” (p. 5, 6, of Garver’s text)—which mediates between the best life for a separate individual and for the city. As Garver puts it at one point “the best life for the citizen will be our means for discovering those [other] two” (p. 5, Garver’s text). The second problem which Garver raises concerns Aristotle’s apparent inference from energeiai to dunameis. Aristotle’s argument in Politics VII.1-3 begins from the claim that a city and individual have the same kind of happiness—namely, a sort of energeia—and extends to a claim about the structure which serves as the basis of that activity. The problem, according to Garver, is that “the virtues of the state cannot be energeiai of that part of its soul, because states don’t have souls” (p. 6, Garver’s text). The comparison between city and individual works—if it does work—only if “the psychological aspects of the virtue central to the Ethics become politically irrelevant” (p. 7, Garver’s text). Thus, Garver suggests that Aristotle’s comparison of city and individual comes at a cost, viz. that “Aristotle can talk about states being virtuous and happy only because of this psychological superficiality” (p. 9, Garver’s text). (shrink)

Written in 1949, La Scoperta di Marx was first published in 1958 in Pier Paolo Pasolini, L'usignolo della Chiesa Cattolica (Editore Longanesi). It is published here, along the first English translation of the poem, with the permission of Garzanti Libri.

Augmented Reality combines the virtual and the real. It brings the virtual to the real and the real to the virtual. It is a technology that overlays computer-generated visuals, sensory input such as sound, and interactive atmosphere over the existing environment in real time. In Augmented Reality, real and virtual are simultaneously intertwined. That's why Augmented Reality has a greater impact on art than other virtual fields. Art in Augmented Reality has a counterpart in both the virtual and real world. (...) While the contents in the virtual world can be augmented with real contents, the contents in the real world can also be augmented with virtual contents. Therefore, art created with Augmented Reality can be called augmented art. (shrink)

Historically, hypotheses failed in most cases to correctly forecast the workings of complex biological systems. Francis Crick’s adaptor hypothesis, however, stands out as an exceptional case of a confirmed abstract prediction. This hypothesis presciently anticipated the existence of RNA adaptors that function as bridges between amino acids and the chemically different nucleic acid template for proteins. Crick conjectured that the adaptors are enzymatically charged with cognate amino acids, they bind to complementary protein-coding nucleic acid, and their liberated amino acids are (...) incorporated into growing protein chains. Independently from and concomitantly with Crick’s hypothesis, Mahlon Hoagland and Paul Zamecnik conducted experiments with no guiding theory that culminated in discoveries of the actual adaptors, transfer RNA (tRNA) molecules, and their amino acids charging enzymes. This paper traces the parallel histories of Crick’s adaptor hypothesis and of the experimental discovery of tRNA and compares their relative impacts on the scientific community. Remarkably, despite the brilliance of Crick’s confirmed prognostication, it had marginal impact on practicing scientists. Conversely, Hoagland and Zamecnik’s experimental discoveries and their evidence-based model of protein synthesis had immediate and enduring impact. I discuss possible explanations for the different impacts of the theoretical prediction and experimental identifications of the same entities. (shrink)

Writers, philosophers, and theologians have oft made the comparison between being a mature human being and a masterpiece work of art or design. Employing the analogy between the creation of artistic value and the creation of full-fledged human value, this paper stakes out a middle ground between pro-choice and pro-life by considering a more general account of value and the relationship between being a potential X and a mature implementation of X's potential. I argue that the value of a potential (...) X is a function of a number of factors, most importantly, what I call the "accessibility relation" between a potential X and a full-fledged instantiation of this potential. The value is as much intrinsic to the “seed” as to some future implementation of the seed’s potential. This approach inclines even a secular humanist to reasonably confer a significant degree of moral value to a human conceptus, and even more to an early term fetus. (shrink)

It was an empirical discovery that Phosphorus is Hesperus. According to Kripke, this was also the discovery of a necessary fact. Now, given Kripke’s theory of direct reference one could wonder what kind of discovery this is. For we already knew Phosphorus/Hesperus, and we also knew that any entity is, necessarily, identical to itself. So what is it that was discovered? I want to show that there is more to this widely known case than what usual readings, (...) and critics, reveal; and I want to show this under the Kripkean pattern that what was discovered is the plain fact of identity that Phosphorus is, and necessarily is, Hesperus. Moreover, I will show how both Kripkean theses, the necessity of identity and the direct theory of reference, should not be kept apart to understand the kind of discovery this is. In particular, understanding the kind of discovery we made will help us see how intuition is displayed in metaphysics, and how metaphysical impossibilities, and metaphysical modality in general, can be discerned by reason and separated from other modalities. The study of this discovery will help us see, in a line, how identity belongs to the inner and most profound structure of reality and to the most profound structure of cognition and language. (shrink)

In telling the story of Thomas Willis and the collective investigations of body and brain in 17th-century England with tremendous energy and enthusiasm, journalist Carl Zimmer has written one of the best recent books of popular history of science. The full range of readers will be rewarded by Zimmer’s synthetic scholarship and his evident pleasure in the language of the primary texts. While he owes much to the work of Robert Frank and Robert Martensen in particular, Zimmer has negotiated a (...) vast secondary literature on the major figures of early modern natural philosophy. His decision not to discuss scholarly controversy directly, but rather ‘to give accounts of these people that were consistent with the current consensus’ (p.304) is understandable given the mass market at which he has successfully aimed: yet such a voice would bring a welcome freshness to specialists’ debates. (shrink)

The basic task of the essay is to exhibit science as a rational enterprise. I argue that in order to do this we need to change quite fundamentally our whole conception of science. Today it is rather generally taken for granted that a precondition for science to be rational is that in science we do not make substantial assumptions about the world, or about the phenomena we are investigating, which are held permanently immune from empirical appraisal. According to this standard (...) view, science is rational precisely because science does not make a priori metaphysical presuppositions about the world forever preserved from possible empirical refutation. It is of course accepted that an individual scientist, developing a new theory, may well be influenced by his own metaphysical presuppositions. In addition, it is acknowledged that a successful scientific theory, within the context of a particular research program, may be protected for a while from refutation, thus acquiring a kind of temporary metaphysical status, as long as the program continues to be empirically progressive. All such views unite, however, in maintaining that science cannot make permanent metaphysical presuppositions, held permanently immune from objective empirical evaluation. According to this standard view, the rationality of science arises, not from the way in which new theories are discovered, but rather from the way in which already formulated theories are appraised in the light of empirical considerations. And the fundamental problem of the rationality of science—the Humean problem of induction— concerns precisely the crucial issue of the rationality of accepting theories in the light of evidence. In this essay I argue that this widely accepted standard conception of science must be completely rejected if we are to see science as a rational enterprise. In order to assess the rationality of accepting a theory in the light of evidence it is essential to consider the ultimate aims of science. This is because adopting different aims for science will lead us, quite rationally, to accept different theories in the light of evidence. I argue that a basic aim of science is to explain. At the outset science simply presupposes, in a completely a priori fashion, that explanations can be found, that the world is ultimately intelligible or simple. In other words, science simply presupposes in an a priori way the metaphysical thesis that the world is intelligible, and then seeks to convert this presupposed metaphysical theory into a testable scientific theory. Scientific theories are only accepted insofar as they promise to help us realize this fundamental aim. At once a crucial problem arises. If scientific theories are only accepted insofar as they promise to lead us towards articulating a presupposed metaphysical theory, it is clearly essential that we can choose rationally, in an a priori way, between all the very different possible metaphysical theories that can be thought up, all the very different ways in which the universe might ultimately be intelligible. For holding different aims, accepting different metaphysical theories conceived of as blueprints for future scientific theories will, quite rationally, lead us to accept different scientific theories. Thus it is only if we can choose rationally between conflicting metaphysical blueprints for future scientific theories that we will be in a position to appraise rationally the acceptability of our present day scientific theories. We thus face the crucial problem: How can we choose rationally between conflicting possible aims for science, conflicting metaphysical blueprints for future scientific theories ? It is only if we can solve this fundamental problem concerning the aims of science that we can be in a position to appraise rationally the acceptability of existing scientific theories. There is a further point here. If we could choose rationally between rival aims, rival metaphysical blueprints for future scientific theories, then we would in effect have a rational method for the discovery of new scientific theories! Thus we reach the result: there is only a rational method for the appraisal of existing scientific theories if there is a rational method of discovery. I shall argue that the aim-oriented theory of scientific inquiry to be advocated here succeeds in exhibiting science as a rational enterprise in that it succeeds in providing a rational procedure for choosing between rival metaphysical blueprints: it thus provides a rational, if fallible, method of discovery, and a rational method for the appraisal of existing scientific theories—thus resolving the Humean problem. In Part I of the essay I argue that the orthodox conception of science fails to exhibit science as a rational enterprise because it fails to solve the Humean problem of induction. The presuppositional view advocated here does however succeed in resolving the Humean problem. In Part II of the essay I spell out the new aim-oriented theory of scientific method that becomes inevitable once we accept the basic presuppositional viewpoint. I argue that this new aim oriented conception of scientific method is essentially a rational method of scientific discovery, and that the theory has important implications for scientific practice. (shrink)

The short paper introduces the concept of possible branches of double-stranded DNA (later sometimes called palindromes): Certain sequences of nucleotides may be followed, after a short unpaired stretch, by a complementary sequence in reversed order, such that each DNA strand can fold back on itself, and the DNA assumes a cruciform or tree-like structure. This is postulated to interact with regulatory proteins. -/- .

Despite the Nazi horrors, in 1953 the new eugenics was founded, when Watson and Crick postulated the double helix of DNA as the basis of chemical heredity. In 1961, scientists have deciphered the genetic code of DNA, laying the groundwork for code manipulation and the potential building of new life forms. After thirty years from the discovery of the DNA structure, the experimenters began to carry out the first clinical studies of human somatic cell therapy. The practice of prenatal (...) genetic tests identifies genes or unwanted genetic markers. Parents can choose to continue pregnancy or give up the fetus. Once the preimplantation genetic diagnosis occurs, potential parents can choose to use in vitro fertilization and then test early embryonic cells to identify embryos with genes they prefer or avoid. Because of concerns about eugenics, genetic counseling is based on a "non-directive" policy to ensure respect for reproductive autonomy. The argument for this counseling service is that we should balance parental autonomy with child's autonomy in the future. Specialists have not yet given a clear answer to the question of whether these practices should be considered eugenic practices, or if they are moral practices. DOI: 10.13140/RG.2.2.28777.95849. (shrink)

The relationship between Peircean abduction and the modern notion of Inference to the Best Explanation is a matter of dispute. Some philosophers, such as Harman :88–95, 1965) and Lipton, claim that abduction and IBE are virtually the same. Others, however, hold that they are quite different :503, 1998; Minnameier in Erkenntnis 60:75–105, 2004) and there is no link between them :419–442, 2009). In this paper, I argue that neither of these views is correct. I show that abduction and IBE have (...) important similarities as well as differences. Moreover, by bringing a historical perspective to the study of the relationship between abduction and IBE—a perspective that is lacking in the literature—I show that their differences can be well understood in terms of two historic developments in the history of philosophy of science: first, Reichenbach’s distinction between the context of discovery and the context of justification—and the consequent jettisoning of the context of discovery from philosophy of science—and second, underdetermination of theory by data. (shrink)

When philosophers discuss the possibility of machines making scientific discoveries, they typically focus on discoveries in physics, biology, chemistry and mathematics. Observing the rapid increase of computer-use in science, however, it becomes natural to ask whether there are any scientific domains out of reach for machine discovery. For example, could machines also make discoveries in qualitative social science? Is there something about humans that makes us uniquely suited to studying humans? Is there something about machines that would bar them (...) from such activity? A close look at the methodology of interpretive social science reveals several abilities necessary to make a social scientific discovery, and one capacity necessary to possess any of them is imagination. For machines to make discoveries in social science, therefore, they must possess imagination algorithms. (shrink)

-/- For all that digital methods—including network visualization, text analysis, and others—have begun to show extensive promise in philosophical contexts, a tension remains between two uses of those tools that have often been taken to be incompatible, or at least to engage in a kind of trade-off: the discovery of new hypotheses and the testing of already-formulated positions. This paper presents this basic distinction, then explores ways to resolve this tension with the help of two interdisciplinary case studies, taken (...) from preregistration in contemporary science and the debate over whig history in the history of science. These case studies, the paper argues, refocus our attention from a mutually exclusive testing/discovery binary to the relationship between our background data or philosophical views and the empirical generalizations that we might draw from the data. Finally, it develops a set of three challenges for philosophers and corresponding avenues for future work that will, it is hoped, allow us to better justify our use of these methods. (shrink)