Contents
23 found
Order:
  1. Causal Selection versus Causal Parity in Biology: Relevant Counterfactuals and Biologically Normal Interventions.Marcel Weber - forthcoming - In Waters C. Kenneth & Woodward James (eds.), Philosophical Perspectives on Causal Reasoning in Biology. Minnesota Studies in Philosophy of Science. Vol. XXI. University of Minnesota Press.
    Causal selection is the task of picking out, from a field of known causally relevant factors, some factors as elements of an explanation. The Causal Parity Thesis in the philosophy of biology challenges the usual ways of making such selections among different causes operating in a developing organism. The main target of this thesis is usually gene centrism, the doctrine that genes play some special role in ontogeny, which is often described in terms of information-bearing or programming. This paper is (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   19 citations  
  2. Causal Selection vs Causal Parity in Biology: Relevant Counterfactuals and Biologically Normal Interventions.Marcel Weber - forthcoming - In Waters C. Kenneth & Woodward James (eds.), Philosophical Perspectives on Causal Reasoning in Biology. Minnesota Studies in Philosophy of Science. Vol. XXI. University of Minnesota Press.
    Causal selection is the task of picking out, from a field of known causally relevant factors, some factors as elements of an explanation. The Causal Parity Thesis in the philosophy of biology challenges the usual ways of making such selections among different causes operating in a developing organism. The main target of this thesis is usually gene centrism, the doctrine that genes play some special role in ontogeny, which is often described in terms of information-bearing or programming. This paper is (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  3. (12 other versions)Топология субъектности.Andrej Poleev - 2023 - Enzymes 21.
    Техника представления информации о внешнем и внутреннем мире постоянно развивается, и сейчас она достигла уровня отображения реальности в многообразных её проявлениях и измерениях, прежде недоступных человеческому восприятию. Язык, текст, фотография, звукозапись, а теперь ещё и техника искусственного интеллекта для моделирования человеческой субъектности и её описания в доступной для человеческого понимания форме, стали эпохальными событиями в теории информации. Однако несмотря на то, что на данном этапе её развития она позволяет оперировать с непрерывно возрастающими объёмами информации, это не приближает её теоретиков к (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   1 citation  
  4. The meaning of "cause" in genetics.Kate E. Lynch - 2021 - Combining Human Genetics and Causal Inference to Understand Human Disease and Development. Cold Spring Harbor Perspectives in Medicine.
    Causation has multiple distinct meanings in genetics. One reason for this is meaning slippage between two concepts of the gene: Mendelian and molecular. Another reason is that a variety of genetic methods address different kinds of causal relationships. Some genetic studies address causes of traits in individuals, which can only be assessed when single genes follow predictable inheritance patterns that reliably cause a trait. A second sense concerns the causes of trait differences within a population. Whereas some single genes can (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  5. Causation and Causal Selection in the Biopsychosocial Model of Health and Disease.Hane Htut Maung - 2021 - European Journal of Analytic Philosophy 17 (2):5-27.
    In The Biopsychosocial Model of Health and Disease, Derek Bolton and Grant Gillett argue that a defensible updated version of the biopsychosocial model requires a metaphysically adequate account of disease causation that can accommodate biological, psychological, and social factors. This present paper offers a philosophical critique of their account of biopsychosocial causation. I argue that their account relies on claims about the normativity and the semantic content of biological information that are metaphysically contentious. Moreover, I suggest that these claims are (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   3 citations  
  6. Information and Explication.Ted Dace - 2020 - Cosmos and History : The Journal of Natural and Social Philosophy 16 (2):118-141.
    An atom is characterized mathematically as an evolving superposition of possible values of properties and experimentally as an instantaneous phenomenon with a precise value of a measured property. Likewise, an organism is to itself a flux of experience and to an observer a tangible body in a distinct moment. Whereas the implicit atom is the stream of computation represented by the smoothly propagating wave function, the implicit organism is both the species from which the body individuates and the personal mind (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  7. Omnipresent Maxwell’s demons orchestrate information management in living cells.Antoine Danchin Gregory Boel, Olivier Danot, Victor de Lorenzo & Antoine Danchin - 2019 - Microbial Biotechnology 12 (2):210-242.
    The development of synthetic biology calls for accurate understanding of the critical functions that allow construction and operation of a living cell. Besides coding for ubiquitous structures, minimal genomes encode a wealth of functions that dissipate energy in an unanticipated way. Analysis of these functions shows that they are meant to manage information under conditions when discrimination of substrates in a noisy background is preferred over a simple recognition process. We show here that many of these functions, including transporters and (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  8. Innateness as genetic adaptation: Lorenz redivivus (and revised).Nathan Cofnas - 2017 - Biology and Philosophy 32 (4):559-580.
    In 1965, Konrad Lorenz grounded the innate–acquired distinction in what he believed were the only two possible sources of information that can underlie adaptedness: phylogenetic and individual experience. Phylogenetic experience accumulates in the genome by the process of natural selection. Individual experience is acquired ontogenetically through interacting with the environment during the organism’s lifetime. According to Lorenz, the adaptive information underlying innate traits is stored in the genome. Lorenz erred in arguing that genetic adaptation is the only means of accumulating (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   3 citations  
  9. The indeterminacy of genes: The dilemma of difference in medicine and health care.Jamie P. Ross - 2017 - Social Theory and Health 1 (15):1-24.
    How can researchers use race, as they do now, to conduct health-care studies when its very definition is in question? The belief that race is a social construct without “biological authenticity” though widely shared across disciplines in social science is not subscribed to by traditional science. Yet with an interdisciplinary approach, the two horns of the social construct/genetics dilemma of race are not mutually exclusive. We can use traditional science to provide a rigorous framework and use a social-science approach so (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  10. Which Kind of Causal Specificity Matters Biologically?Marcel Weber - 2017 - Philosophy of Science 84 (3):574-585.
    Griffiths et al. (2015) have proposed a quantitative measure of causal specificity and used it to assess various attempts to single out genetic causes as being causally more specific than other cellular mechanisms, for example, alternative splicing. Focusing in particular on developmental processes, they have identified a number of important challenges for this project. In this discussion note, I would like to show how these challenges can be met.
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   12 citations  
  11. The development of non-coding RNA ontology.Jingshan Huang, Karen Eilbeck, Barry Smith, Judith Blake, Deijing Dou, Weili Huang, Darren Natale, Alan Ruttenberg, Jun Huan, Michael Zimmermann, Guoqian Jiang, Yu Lin, Bin Wu, Harrison Strachan, Nisansa de Silva & Mohan Vamsi Kasukurthi - 2016 - International Journal of Data Mining and Bioinformatics 15 (3):214--232.
    Identification of non-coding RNAs (ncRNAs) has been significantly improved over the past decade. On the other hand, semantic annotation of ncRNA data is facing critical challenges due to the lack of a comprehensive ontology to serve as common data elements and data exchange standards in the field. We developed the Non-Coding RNA Ontology (NCRO) to handle this situation. By providing a formally defined ncRNA controlled vocabulary, the NCRO aims to fill a specific and highly needed niche in semantic annotation of (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  12. Toll-like receptor signaling in vertebrates: Testing the integration of protein, complex, and pathway data in the Protein Ontology framework.Cecilia Arighi, Veronica Shamovsky, Anna Maria Masci, Alan Ruttenberg, Barry Smith, Darren Natale, Cathy Wu & Peter D’Eustachio - 2015 - PLoS ONE 10 (4):e0122978.
    The Protein Ontology provides terms for and supports annotation of species-specific protein complexes in an ontology framework that relates them both to their components and to species-independent families of complexes. Comprehensive curation of experimentally known forms and annotations thereof is expected to expose discrepancies, differences, and gaps in our knowledge. We have annotated the early events of innate immune signaling mediated by Toll-Like Receptor 3 and 4 complexes in human, mouse, and chicken. The resulting ontology and annotation data set has (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   5 citations  
  13. Protein Ontology: A controlled structured network of protein entities.A. Natale Darren, N. Arighi Cecilia, A. Blake Judith, J. Bult Carol, R. Christie Karen, Cowart Julie, D’Eustachio Peter, D. Diehl Alexander, J. Drabkin Harold, Helfer Olivia, Barry Smith & Others - 2013 - Nucleic Acids Research 42 (1):D415-21..
    The Protein Ontology (PRO; http://proconsortium.org) formally defines protein entities and explicitly represents their major forms and interrelations. Protein entities represented in PRO corresponding to single amino acid chains are categorized by level of specificity into family, gene, sequence and modification metaclasses, and there is a separate metaclass for protein complexes. All metaclasses also have organism-specific derivatives. PRO complements established sequence databases such as UniProtKB, and interoperates with other biomedical and biological ontologies such as the Gene Ontology (GO). PRO relates to (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  14. FRUSTRATION: PHYSICO-CHEMICAL PREREQUISITES FOR THE CONSTRUCTION OF A SYNTHETIC CELL.Antoine Danchin & Agnieszka Sekowska - 2008 - In Martin G. Hicks and Carsten Kettner (ed.), Proceedings of the International Beilstein Symposium on Systems Chemistry May 26th – 30th, 2008 Bozen, Italy. Beilstein Institute. pp. 1-19.
    To construct a synthetic cell we need to understand the rules that permit life. A central idea in modern biology is that in addition to the four entities making reality, matter, energy, space and time, a fifth one, information, plays a central role. As a consequence of this central importance of the management of information, the bacterial cell is organised as a Turing machine, where the machine, with its compartments defining an inside and an outside and its metabolism, reads and (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   2 citations  
  15. Genes, Causation and Intentionality.Marcel Weber - 2005 - History and Philosophy of the Life Sciences 27 (3/4):399-411.
    I want to exhibit the deeper metaphysical reasons why some common ways of describing the causal role of genes in development and evolution are problematic. Specifically, I show why using the concept of information in an intentional sense in genetics is inappropriate, even given a naturalistic account of intentionality. Furthermore, I argue that descriptions that use notions such as programming, directing or orchestrating are problematic not for empirical reasons, but because they are not strictly causal. They are intentional. By contrast, (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   7 citations  
  16. The Introduction of Information into Neurobiology.Justin Garson - 2003 - Philosophy of Science 70 (5):926-936.
    The first use of the term "information" to describe the content of nervous impulse occurs 20 years prior to Shannon`s (1948) work, in Edgar Adrian`s The Basis of Sensation (1928). Although, at least throughout the 1920s and early 30s, the term "information" does not appear in Adrian`s scientific writings to describe the content of nervous impulse, the notion that the structure of nervous impulse constitutes a type of message subject to certain constraints plays an important role in all of his (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   18 citations  
  17. The Resurrection of Innateness.James Maclaurin - 2002 - The Monist 85 (1):105-130.
    The notion of innateness is widely used, particularly in philosophy of mind, cognitive science and linguistics. Despite this popularity, it remains a controversial idea. This is partly because of the variety of ways in which it can be explicated and partly because it appears to embody the suggestion that we can determine the relative causal contributions of genes and environment in the development of biological individuals. As these causes are not independent, the claim is metaphysically suspect. This paper argues that (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   11 citations  
  18. Generador de Genes (Gengen).Gabriel Garduño-Soto & Hugo Padilla Chacón - 1992 - In Gabriel Garduño-Soto & Hugo Padilla Chacón (eds.), Garduño-Soto, G. and Padilla-Chacón, H. “Generador de Genes (Gengen).” VIIIa. Conferencia Internacional: Las Computadoras en Instituciones de Educación y de Investigación. Cómputo Académico, UNAM, UNISYS, México, 1992. Mexico City, Mexico: National Autonomous University of Mexico. pp. 262-265.
    Algorithmical procedure within a logical system to generate DNA chains through a formal rule up to the generation of a STOP codon's signal. Work developped under the direction of the Mexican Professor Hugo Padilla Chacón.
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  19. Model for DNA and Protein Interactions and the Function of the Operator.Alfred Gierer - 1966 - Nature 212:1480-1481.
    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. -/- .
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   1 citation  
  20. Function of aggregated reticulocyte ribosomes in protein synthesis.Alfred Gierer - 1963 - J. Mol. Biol 6:148-157.
    Applying mild methods of preparation, part of the ribosomes of rabbit reticulocytes are found in aggregates (later called polyribosomes) of up to six ribosomal units. Upon treatment with RNA-ase, they desintegrate into single ribosomes. The fast-sedimenting aggregates are found to be more active in protein synthesis in terms of incorporation of radioactive amino acids, whereas the single ribosomes are more receptive to stimulation by the artificial messenger RNA poly-U. The findings indicate that the linkage of ribosomes into aggregates is due (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   1 citation  
  21. Production of mutants of Tobacco Mosaic Virus by chemical alteration of its nucleic acid in vitro.Alfred Gierer & K. W. Mundry - 1958 - Nature 182:1457-1458.
    The generation of viral mutants in vitro was demonstrated by treatment of the isolated RNA of Tobacco Mosaic Virus by nitrous acid. This agent causes deaminations converting cytosine into uracil, and adenine into hypoxanthine. Our assay for mutagenesis was the production of local lesions on a tobacco variety on which the untreated strain produces systemic infections only. A variety of different mutants are generated in this way. Quantitative analysis of the kinetics of mutagenesis leads to the conclusion that alteration of (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  22. Structure and biological function of ribonucleic acid from Tobacco Mosaic Virus.Alfred Gierer - 1957 - Nature 179:1297-1299.
    Within the sedimentation diagram of infective RNA preparations isolated from Tobacco Mosaic Virus, undegraded molecules form a sharp peak with a molecular weight corresponding to the total RNA content of the virus particle. Degradation kinetics by ribonuclease is of the linear, single-target type, indicating that the RNA is single-stranded. The intact RNA of a virus particle thus forms one big single-stranded molecule. Quantitative evaluation of the effect degradation by RNA-ase on the infectivity of the RNA shows that the integrity of (...)
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark  
  23. Infectivity of ribonucleic acid from Tobacco Mosaic Virus.Alfred Gierer & Gerhard Schramm - 1956 - Nature 177:702-703.
    Upon separation of the protein from the nucleic acid component of tobacco mosaic virus by phenol, using a fast and gentle procedure, the nucleic acid is infective in assays on tobacco leaves. A series of qualitative and quantitative control experiments demonstrates that the biological activity cannot depend on residual proteins in the preparation, but is a property of isolated nucleic acid which is thus the genetic material of the virus.
    Remove from this list   Download  
     
    Export citation  
     
    Bookmark   9 citations