Results for 'defining cell types'

966 found
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  1. Cell Types as Natural Kinds.Matthew H. Slater - 2013 - Biological Theory 7 (2):170-179.
    Talk of different types of cells is commonplace in the biological sciences. We know a great deal, for example, about human muscle cells by studying the same type of cells in mice. Information about cell type is apparently largely projectible across species boundaries. But what defines cell type? Do cells come pre-packaged into different natural kinds? Philosophical attention to these questions has been extremely limited [see e.g., Wilson (Species: New Interdisciplinary Essays, pp 187–207, 1999; Genes and the (...)
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  2. An improved ontological representation of dendritic cells as a paradigm for all cell types.Masci Anna Maria, N. Arighi Cecilia, D. Diehl Alexander, E. Lieberman Anne, Mungall Chris, H. Scheuermann Richard, Barry Smith & G. Cowell Lindsay - 2009 - BMC Bioinformatics 10 (1):70.
    The Cell Ontology (CL) is designed to provide a standardized representation of cell types for data annotation. Currently, the CL employs multiple is_a relations, defining cell types in terms of histological, functional, and lineage properties, and the majority of definitions are written with sufficient generality to hold across multiple species. This approach limits the CL’s utility for cross-species data integration. To address this problem, we developed a method for the ontological representation of cells and (...)
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  3. Diagnosis of Blood Cells Using Deep Learning.Ahmed J. Khalil & Samy S. Abu-Naser - 2022 - International Journal of Academic Engineering Research (IJAER) 6 (2):69-84.
    In computer science, Artificial Intelligence (AI), sometimes called machine intelligence, is intelligence demonstrated by machines, in contrast to the natural intelligence displayed by humans and other animals. Computer science defines AI research as the study of "intelligent agents": any device that perceives its environment and takes actions that maximize its chance of successfully achieving its goals. Deep Learning is a new field of research. One of the branches of Artificial Intelligence Science deals with the creation of theories and algorithms that (...)
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  4. Physical basis for the emergence of autopoiesis, cognition and knowledge.W. P. Hall - 2011 - Kororoit Institute Working Papers (2):1-63.
    Paper type: Conceptual perspective. Background(s): Physics, biology, epistemology Perspectives: Theory of autopoietic systems, Popperian evolutionary epistemology and the biology of cognition. Context: This paper is a contribution to developing the theories of hierarchically complex living systems and the natures of knowledge in such systems. Problem: Dissonance between the literatures of knowledge management and organization theory and my observations of the living organization led to consideration of foundation questions: What does it mean to be alive? What is knowledge? How are life (...)
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  5. An improved ontological representation of dendritic cells as a paradigm for all cell types.Anna Maria Masci, Cecilia N. Arighi, Alexander D. Diehl, Anne E. Liebermann, Chris Mungall, Richard H. Scheuermann, Barry Smith & Lindsay Cowell - 2009 - BMC Bioinformatics 10 (1):70.
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  6. The Hydra model - a model for what?Alfred Gierer - 2012 - International Journal of Developmental Biology 56:437-445.
    The introductory personal remarks refer to my motivations for choosing research projects, and for moving from physics to molecular biology and then to development, with Hydra as a model system. Historically, Trembley’s discovery of Hydra regeneration in 1744 was the begin¬ning of developmental biology as we understand it, with passionate debates about preformation versus de novo generation, mechanisms versus organisms. In fact, seemingly conflicting bottom-up and top-down concepts are both required in combination to understand development. In modern terms, this means (...)
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  7. A Taxonomy of Granular Partitions.Thomas E. Bittner & Barry Smith - 2001 - In Thomas Bittner (ed.), Spatial Information Theory. Foundations of Geographic Information Science. Lecture Notes in Computer Science 2205. pp. 28-43.
    In this paper we propose a formal theory of partitions (ways of dividing up or sorting or mapping reality) and we show how the theory can be applied in the geospatial domain. We characterize partitions at two levels: as systems of cells (theory A), and in terms of their projective relation to reality (theory B). We lay down conditions of well-formedness for partitions and we define what it means for partitions to project truly onto reality. We continue by classifying well-formed (...)
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  8. Fantasme, discours, idéologie.Jean-Jacques Pinto - 2010 - Topique 2 (111):31 - 58.
    (English, then french abstract) : -/- Fantasy, Discourse, Ideology – Transmission Beyond Propaganda. -/- Propaganda is everywhere, not only in commercials or politics. It is aimed at faraway strangers as well as nearby friends and relations. Propaganda in fact relies on a certain type of psychic structure, one that is tuned to receive it and disseminate it. This structure is a result of an unconscious subjective identification which is therefore not open to change through either cognition, argumentation or reasoning. Propaganda’s (...)
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  9. Remarks on the Geometry of Complex Systems and Self-Organization.Luciano Boi - 2012 - In Vincenzo Fano, Enrico Giannetto, Giulia Giannini & Pierluigi Graziani (eds.), Complessità e Riduzionismo. ISONOMIA - Epistemologica Series Editor. pp. 28-43.
    Let us start by some general definitions of the concept of complexity. We take a complex system to be one composed by a large number of parts, and whose properties are not fully explained by an understanding of its components parts. Studies of complex systems recognized the importance of “wholeness”, defined as problems of organization (and of regulation), phenomena non resolvable into local events, dynamics interactions in the difference of behaviour of parts when isolated or in higher configuration, etc., in (...)
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  10.  55
    Cell Fate: What’s Evolution Got to Do With It?Grant Ramsey & Pierre M. Durand - 2023 - Yale Journal of Biology and Medicine 96 (4):565–568.
    Theoretical frameworks concerning cell fate typically center on proximate causes to explain how cells know what type they are meant to become. While major advances in cell fate theory have been achieved by these mechanism-focused frameworks, there are some aspects of cell decision-making that require an evolutionary interpretation. While mechanistic biologists sometimes turn to evolutionary theory to gain insights about cell fate (cancer is a good example), it is not entirely clear in cell fate theory (...)
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  11. Stem Cells and the Microenvironment: Reciprocity with Asymmetry in Regenerative Medicine.Militello Guglielmo & Bertolaso Marta - 2022 - Acta Biotheoretica 70 (4):1-27.
    Much of the current research in regenerative medicine concentrates on stem-cell therapy that exploits the regenerative capacities of stem cells when injected into different types of human tissues. Although new therapeutic paths have been opened up by induced pluripotent cells and human mesenchymal cells, the rate of success is still low and mainly due to the difficulties of managing cell proliferation and differentiation, giving rise to non-controlled stem cell differentiation that ultimately leads to cancer. Despite being (...)
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  12. Types and taxonomic structures in conceptual modeling: A novel ontological theory and engineering support.Giancarlo Guizzardi, Tiago Prince Sales, Claudenir M. Fonseca & Daniele Porello - 2021 - Data and Knowledge Engineering 1 (134):101891.
    Types are fundamental for conceptual modeling and knowledge representation, being an essential construct in all major modeling languages in these fields. Despite that, from an ontological and cognitive point of view, there has been a lack of theoretical support for precisely defining a consensual view on types. As a consequence, there has been a lack of precise methodological support for users when choosing the best way to model general terms representing types that appear in a domain, (...)
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  13. (1 other version)H.L.A. Hart on defining a law as a subtype of an unclear type.Terence Rajivan Edward - manuscript
    H.L.A. Hart’s objection to defining a law as a subtype of an unclear type, or one of his objections, suffers from two oversights, which I identify.
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  14. A type-theoretical approach for ontologies: The case of roles.Patrick Barlatier & Richard Dapoigny - 2012 - Applied ontology 7 (3):311-356.
    In the domain of ontology design as well as in Knowledge Representation, modeling universals is a challenging problem.Most approaches that have addressed this problem rely on Description Logics (DLs) but many difficulties remain, due to under-constrained representation which reduces the inferences that can be drawn and further causes problems in expressiveness. In mathematical logic and program checking, type theories have proved to be appealing but, so far they have not been applied in the formalization of ontologies. To bridge this gap, (...)
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  15.  54
    Divergent Processing of Cell Stress Signals as the Basis of Cancer Progression: Licensing NFκB on Chromatin.Spiros A. Vlahopoulos - 2024 - IJMS 25 (16):8621.
    Inflammation is activated by diverse triggers that induce the expression of cytokines and adhesion molecules, which permit a succession of molecules and cells to deliver stimuli and functions that help the immune system clear the primary cause of tissue damage, whether this is an infection, a tumor, or a trauma. During inflammation, short-term changes in the expression and secretion of strong mediators of inflammation occur, while long-term changes occur to specific groups of cells. Long-term changes include cellular transdifferentiation for some (...)
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  16. Defining a crisis: the roles of principles in the search for a theory of quantum gravity.Karen Crowther - 2021 - Synthese 198 (Suppl 14):3489-3516.
    In times of crisis, when current theories are revealed as inadequate to task, and new physics is thought to be required—physics turns to re-evaluate its principles, and to seek new ones. This paper explores the various types, and roles of principles that feature in the problem of quantum gravity as a current crisis in physics. I illustrate the diversity of the principles being appealed to, and show that principles serve in a variety of roles in all stages of the (...)
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  17. New Type Hyper Groups, New Type SuperHyper Groups and Neutro-New Type SuperHyper Groups.Abdullah Kargın, Florentin Smarandache & Memet Şahin - unknown
    In this chapter, a new type Hyper groups are defined, corresponding basic properties and examples for new type Hyper groups are given and proved. Moreover, new type Hypergroups groups and are compared to hyper groups and groups. New type Hyper groups are shown to have a more general structure according to Hyper groups and groups. Also, new type SuperHyper groups are defined, corresponding basic properties and examples for new type SuperHyper are given and proved. Furthermore, we defined neutro-new type SuperHyper (...)
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  18. Re-defining the human embryo: A legal perspective on the creation of embryos in research.Íñigo De Miguel Beriain, Jon Rueda & Adrian Villalba - 2024 - EMBO Reports.
    The notion of the human embryo is not immutable. Various scientific and technological breakthroughs in reproductive biology have compelled us to revisit the definition of the human embryo during the past 2 decades. Somatic cell nuclear transfer, oocyte haploidisation and, more recently, human stem cell-derived embryo models have challenged this scientific term, which has both ethical and legal repercussions. Here, we offer a legal perspective to identify a universally accepted definition of ‘embryo’ which could help to ease and (...)
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  19. Emerging Next Generation Solar Cells Route to High Efficiency and Low Cost.Md Samiul Islam Sadek, Dr M. Junaebur Rashid & Dr Zahid Hasan Mahmood - 2017 - International Journal of Trend in Scientific Research and Development 1 (4):140-152.
    Generation of clean energy is one of the main challenges of the 21st century. Solar energy is the most abundantly available renewable energy source which would be supplying more than 50 of the global electricity demand in 2100. Solar cells are used to convert light energy into electrical energy directly with an appeal that it does not generate any harmful bi products, like greenhouse gasses. The manufacturing of solar cells is actually based on the types of semiconducting or non (...)
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  20. An account of conserved functions and how biologists use them to integrate cell and evolutionary biology.Jeremy G. Wideman, Steve Elliott & Beckett Sterner - 2023 - Biology and Philosophy 38 (5):1-23.
    We characterize a type of functional explanation that addresses why a homologous trait originating deep in the evolutionary history of a group remains widespread and largely unchanged across the group’s lineages. We argue that biologists regularly provide this type of explanation when they attribute conserved functions to phenotypic and genetic traits. The concept of conserved function applies broadly to many biological domains, and we illustrate its importance using examples of molecular sequence alignments at the intersection of evolution and cell (...)
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  21. Regeneration of Hydra from aggregated cells.Alfred Gierer, S. Berking, H. Bode, C. N. David, K. Flick, G. Hansmann, H. Schaller & E. Trenkner - 1972 - Nature New Biology 239:98-101.
    • Aggregates of previously isolated cells of Hydra are capable, under suitable solvant conditions, of regeneration forming complete animals. In a first stage, ecto- and endodermal cells sort out, producing the bilayered hollow structure characteristic of Hydra tissue; thereafter, heads are formed (even if the original cell preparation contained no head cells), eventually leading to the separation of normal animals with head, body column and foot. Hydra appears to be the highest type of organism that allows for regeneration of (...)
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  22. Intensional models for the theory of types.Reinhard Muskens - 2007 - Journal of Symbolic Logic 72 (1):98-118.
    In this paper we define intensional models for the classical theory of types, thus arriving at an intensional type logic ITL. Intensional models generalize Henkin's general models and have a natural definition. As a class they do not validate the axiom of Extensionality. We give a cut-free sequent calculus for type theory and show completeness of this calculus with respect to the class of intensional models via a model existence theorem. After this we turn our attention to applications. Firstly, (...)
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  23. On defining bruxism.W. Ceusters & B. Smith - 2018 - Studies in Health Technology and Informatics 247:551-555.
    In a series of recent publications, orofacial researchers have debated the question of how ‘bruxism’ should be defined for the purposes of accurate diagnosis and reliable clinical research. Following the principles of realism-based ontology, we performed an analysis of the arguments involved. This revealed that the disagreements rested primarily on inconsistent use of terms, so that issues of ontology were thus obfuscated by shortfalls in terminology. In this paper, we demonstrate how bruxism terminology can be improved by paying attention to (...)
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  24. Operator Counterparts of Types of Reasoning.Urszula Wybraniec-Skardowska - 2023 - Logica Universalis 17 (4):511-528.
    Logical and philosophical literature provides different classifications of reasoning. In the Polish literature on the subject, for instance, there are three popular ones accepted by representatives of the Lvov-Warsaw School: Jan Łukasiewicz, Tadeusz Czeżowski and Kazimierz Ajdukiewicz (Ajdukiewicz in Logika pragmatyczna [Pragmatic Logic]. PWN, Warsaw (1965, 2nd ed. 1974). Translated as: Pragmatic Logic. Reidel & PWN, Dordrecht, 1975). The author of this paper, having modified those classifications, distinguished the following types of reasoning: (1) deductive and (2) non-deductive, and additionally (...)
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  25. Are All Types of Morality Compromised in Psychopathy.Andrea Glenn, R. Lyer, J. Graham, S. Koleva & Jonathan Haidt - 2009 - Journal of Personality Disorders 23:384–398.
    A long-standing puzzle for moral philosophers and psychologists alike is the concept of psychopathy, a personality disorder marked by tendencies to defy moral norms despite cognitive knowledge about right and wrong. Previously, discussions of the moral deficits of psychopathy have focused on willingness to harm and cheat others as well as reasoning about rule-based transgressions. Yet recent research in moral psychology has begun to more clearly define the domains of morality, en- compassing issues of harm, fairness, loyalty, authority, and spiritual (...)
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  26. Defining Digital Authoritarianism.James S. Pearson - 2024 - Philosophy and Technology 37 (2):1-19.
    It is becoming increasingly common for authoritarian regimes to leverage digital technologies to surveil, repress and manipulate their citizens. Experts typically refer to this practice as digital authoritarianism (DA). Existing definitions of DA consistently presuppose a politically repressive agent intentionally exploiting digital technologies to pursue authoritarian ends. I refer to this as the intention-based definition. This paper argues that this definition is untenable as a general description of DA. I begin by illustrating the current predominance of the intention-based definition (Section (...)
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  27. Dirac-Type Equations in a Gravitational Field, with Vector Wave Function.Mayeul Arminjon - 2008 - Foundations of Physics 38 (11):1020-1045.
    An analysis of the classical-quantum correspondence shows that it needs to identify a preferred class of coordinate systems, which defines a torsionless connection. One such class is that of the locally-geodesic systems, corresponding to the Levi-Civita connection. Another class, thus another connection, emerges if a preferred reference frame is available. From the classical Hamiltonian that rules geodesic motion, the correspondence yields two distinct Klein-Gordon equations and two distinct Dirac-type equations in a general metric, depending on the connection used. Each of (...)
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  28. The Acceptability of Online Learning Action Cell Session Practice to Tagumpay National High School Teachers.Ann Michelle S. Medina, Mari Cris O. Lim & Aldren E. Camposagrado - 2023 - Universal Journal of Educational Research 2 (2):99-109.
    This quantitative study explores the acceptability of Online Learning Action Cell (LAC) practice as a school-based professional development strategy for Tagumpay National High School (TNHS) teachers. The research was motivated by the Department of Education (DepEd) Order No. 35 s. 2016 which prompts public schools to comply with the implementation of LAC sessions because it has a positive impact on teachers’ beliefs and practices resulting in education reforms for learners’ benefit. However, in compliance with DepEd’s policy on maximizing Time-On-Task (...)
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  29. Scientific iconoclasm and active imagination: synthetic cells as techo-schientific mandalas.Hub Zwart - 2018 - Life Sciences, Society and Policy 14 (1):1-17.
    Metaphors allow us to come to terms with abstract and complex information, by comparing it to something which is structured, familiar and concrete. Although modern science is “iconoclastic”, as Gaston Bachelard phrases it, scientists are at the same time prolific producers of metaphoric images themselves. Synthetic biology is an outstanding example of a technoscientific discourse replete with metaphors, including textual metaphors such as the “Morse code” of life, the “barcode” of life and the “book” of life. This paper focuses on (...)
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  30. 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 (...)
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  31. An Enchanting Abundance of Types: Nietzsche’s Modest Unity of Virtue Thesis.Mark Alfano - 2015 - Journal of Value Inquiry 49 (3):417-435.
    Although Nietzsche accepted a distant cousin of Brian Leiter’s “Doctrine of Types,” according to which, “Each person has a fixed psycho-physical constitution, which defines him as a particular type of person,” the details of his actual view are quite different from the flat-footed position Leiter attributes to him. Leiter argues that Nietzsche thought that type-facts partially explain the beliefs and actions, including moral beliefs and actions, of the person whom those type-facts characterize. With this much, I agree. However, the (...)
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  32. The only wrong cell is the dead one: On the enactive approach to normativity.Manuel Heras-Escribano, Jason Noble & Manuel De Pinedo García - 2013 - In Heras-Escribano Manuel, Noble Jason & Pinedo García Manuel De (eds.), Pietro Liò et al. (eds.) Advances in Artificial Life (ECAL 2013). pp. 665-670.
    In this paper we challenge the notion of ‘normativity’ used by some enactive approaches to cognition. We define some varieties of enactivism and their assumptions and make explicit the reasoning behind the co-emergence of individuality and normativity. Then we argue that appealing to dispositions for explaining some living processes can be more illuminating than claiming that all such processes are normative. For this purpose, we will present some considerations, inspired by Wittgenstein, regarding norm-establishing and norm-following and show that attributions of (...)
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  33. Defining Leadership.David Carl Wilson - 2022 - Philosophy of Management 21 (1):99-128.
    This essay examines the concept of leadership as it is commonly understood within the field of leadership studies today. The inquiry is framed by an analysis of three generally accepted definitions of leadership. I look at the selected definitions from four angles, which I call the four dimensions of leadership: the behavioral (what the leader does, or ought to do, that makes it leadership), the asymmetrical (in what sense a leader is different from the others in the group), the social (...)
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  34. Logical Types in Quantum Mechanics.Andrew Soltau - manuscript
    Barbour shows that time does not exist in the physical world, and similar conclusions are reached by others such as Deutsch, Davies and Woodward. Every possible configuration of a physical environment simply exists in the universe. The system is objectively static. Observation, however, is an inherently transtemporal phenomenon, involving actual or effective change of the configuration, collapse. Since, in a static environment, all possible configurations exist, transtemporal reality is of the logical type of a movie. The frame of a movie (...)
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  35. Novel sequence feature variant type analysis of the HLA genetic association in systemic sclerosis.R. Karp David, Marthandan Nishanth, G. E. Marsh Steven, Ahn Chul, C. Arnett Frank, S. DeLuca David, D. Diehl Alexander, Dunivin Raymond, Eilbeck Karen, Feolo Michael & Barry Smith - 2009 - Human Molecular Genetics 19 (4):707-719.
    Significant associations have been found between specific human leukocyte antigen (HLA) alleles and organ transplant rejection, autoimmune disease development, and the response to infection. Traditional searches for disease associations have conventionally measured risk associated with the presence of individual HLA alleles. However, given the high level of HLA polymorphism, the pattern of amino acid variability, and the fact that most of the HLA variation occurs at functionally important sites, it may be that a combination of variable amino acid sites shared (...)
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  36. What Norms or Values Define Excellent Philosophy of Religion?Stephen R. Palmquist - manuscript
    Stephen Palmquist is Professor of Religion and Philosophy at Hong Kong Baptist University. We invited him to answer the question "What norms or values define excellent philosophy of religion? as part of our "Philosophers of Religion on Philosophy of Religion" series. If we regard this as a philosophical (not a scientific) question, then the first step to answering it is to determine what norms or values define excellent philosophy, in general. Once that is established, we can inquire whether the nature (...)
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  37. Neutrosophic SuperHyperAlgebra and New Types of Topologies.Florentin Smarandache - 2023 - Infinite Study. Edited by Florentin Smarandache, Memet Şahin, Derya Bakbak, Vakkas Uluçay & Abdullah Kargın.
    The n-th PowerSet is used in defining the SuperHyperOperation, SuperHyperAxiom, and their corresponding Neutrosophic SuperHyperOperation, Neutrosophic SuperHyperAxiom in order to build the SuperHyperAlgebra and Neutrosophic SuperHyperAlgebra. In general, in any field of knowledge, one in fact encounters SuperHyperStructures. Also, six new types of topologies have been introduced in the last years (2019-2022), such as: Refined Neutrosophic Topology, Refined Neutrosophic Crisp Topology, NeutroTopology, AntiTopology, SuperHyperTopology, and Neutrosophic SuperHyperTopology. Neutrosophic set has been derived from a new branch of philosophy, namely (...)
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  38. The Bit (and Three Other Abstractions) Define the Borderline Between Hardware and Software.Russ Abbott - 2019 - Minds and Machines 29 (2):239-285.
    Modern computing is generally taken to consist primarily of symbol manipulation. But symbols are abstract, and computers are physical. How can a physical device manipulate abstract symbols? Neither Church nor Turing considered this question. My answer is that the bit, as a hardware-implemented abstract data type, serves as a bridge between materiality and abstraction. Computing also relies on three other primitive—but more straightforward—abstractions: Sequentiality, State, and Transition. These physically-implemented abstractions define the borderline between hardware and software and between physicality and (...)
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  39. Edible insects – defining knowledge gaps in biological and ethical considerations of entomophagy.Isabella Pali-Schöll, Regina Binder, Yves Moens, Friedrich Polesny & Susana Monsó - 2019 - Critical Reviews in Food Science and Nutrition 17 (59):2760-2771.
    While seeking novel food sources to feed the increasing population of the globe, several alternatives have been discussed, including algae, fungi or in vitro meat. The increasingly propagated usage of farmed insects for human nutrition raises issues regarding food safety, consumer information and animal protection. In line with law, insects like any other animals must not be reared or manipulated in a way that inflicts unnecessary pain, distress or harm on them. Currently, there is a great need for research in (...)
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  40.  81
    Epigenetics Integrates Development, Signaling, Context, RNA-Networks and Evolution.Witzany Guenther - 2024 - In Guenther Witzany (ed.), Epigenetics in Biological Communication. Cham: SpringerNature. pp. 2-16.
    The metamorphosis from larvae to adult butterflies has represented the “mystery” of life since the ancient Greeks. How could we explain the various steps of development from caterpillars to the most beautiful butterflies? A mystery preva lent in the twentieth century concerned the storage of the complete genetic informa tion of an organism in the DNA of its every cell. How and why do so many different cell types develop throughout the lives of organisms at the right (...)
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  41. The Plant Ontology: A common reference ontology for plants.L. Walls Ramona, D. Cooper Laurel, Elser Justin, W. Stevenson Dennis, Barry Smith, Mungall Chris, A. Gandolfo Maria & Jaiswal Pankaj - 2010 - In Walls Ramona L., Cooper Laurel D., Justin Elser, Stevenson Dennis W., Smith Barry, Chris Mungall, Gandolfo Maria A. & Pankaj Jaiswal (eds.), Proceedings of the Workshop on Bio-Ontologies, ISMB, Boston, July, 2010.
    The Plant Ontology (PO) (http://www.plantontology.org) (Jaiswal et al., 2005; Avraham et al., 2008) was designed to facilitate cross-database querying and to foster consistent use of plant-specific terminology in annotation. As new data are generated from the ever-expanding list of plant genome projects, the need for a consistent, cross-taxon vocabulary has grown. To meet this need, the PO is being expanded to represent all plants. This is the first ontology designed to encompass anatomical structures as well as growth and developmental stages (...)
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  42. CARO: The Common Anatomy Reference Ontology.Melissa Haendel, Fabian Neuhaus, David Osumi-Sutherland, Paula M. Mabee, José L. V. Mejino Jr, Chris J. Mungall & Barry Smith - 2008 - In Haendel Melissa, A. Neuhaus, Fabian Osumi-Sutherland, David Mabee, Paula M., Mejino Jr José L. V., Mungall Chris, J. Smith & Barry (eds.), Anatomy Ontologies for Bioinformatics: Principles and Practice. Springer. pp. 327-349.
    The Common Anatomy Reference Ontology (CARO) is being developed to facilitate interoperability between existing anatomy ontologies for different species, and will provide a template for building new anatomy ontologies. CARO has a structural axis of classification based on the top-level nodes of the Foundational Model of Anatomy. CARO will complement the developmental process sub-ontology of the GO Biological Process ontology, using it to ensure the coherent treatment of developmental stages, and to provide a common framework for the model organism communities (...)
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  43. On what it is to fly can tell us something about what it is to live.Christophe Malaterre - 2010 - Origins of Life and Evolution of Biospheres 40 (2):169-177.
    The plurality of definitions of life is often perceived as an unsatisfying situation stemming from still incomplete knowledge about ‘what it is to live’ as well as from the existence of a variety of methods for reaching a definition. For many, such plurality is to be remedied and the search for a unique and fully satisfactory definition of life pursued. In this contribution on the contrary, it is argued that the existence of such a variety of definitions of life undermines (...)
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  44. Brains Emerging: On Modularity and Self-organisation of Neural Development In Vivo and In Vitro.Paul Gottlob Layer - 2019 - In Lars H. Wegner & Ulrich Lüttge (eds.), Emergence and Modularity in Life Sciences. Springer Verlag. pp. 145-169.
    Molecular developmental biology has expanded our conceptions of gene actions, underpinning that embryonic development is not only governed by a set of specific genes, but as much by space–time conditions of its developing modules. Typically, formation of cellular spheres, their transformation into planar epithelia, followed by tube formations and laminations are modular steps leading to the development of nervous tissues. Thereby, actions of organising centres, morphogenetic movements, inductive events between epithelia, tissue polarity reversal, widening of epithelia, and all these occurring (...)
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  45.  64
    Theory of Cognitive Distortions: Application to Generalised Anxiety Disorder.Paul Franceschi - 2008 - Journal de Thérapie Comportementale Et Cognitive 18:127-131.
    In a previous paper (Compléments pour une théorie des distorsions cognitives, Journal de Thérapie Comportementale et Cognitive, 2007), we did present some elements aimed at contributing to a general theory of cognitive distortions. The latter elements, based on the reference class, the duality and the system of taxa, are applied here to generalised anxiety disorder. This allows to describe, on the one hand, the specific distortions related to generalised anxiety disorder, consistently with recent work emphasising the role played by uncertain (...)
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  46. Widespread Membrane Potential Changes and Cardiorespiratory Synchonization Involved in Anxiety and Sleep-Wake Transitions.Jerath Ravinder, Shannon M. Cearley & Mike Jensen - 2016 - Journal of Biological Regulators and Homeostatic Agents 30 (4):935-944.
    Located within the ascending reticular activating system are nuclei which release neurotransmitters such as acetylcholine, serotonin, dopamine, and norepinephrine. These nuclei have widespread projections that extend into the limbic system and throughout cortex. Activation of these neurotransmitters during awake states leads to arousal, while inhibition leads to the loss of consciousness experienced during slow-wave sleep. Previously, we proposed a mechanism in which cardiorespiratory synchronization may underlie the widespread hyperpolarization that occurs throughout the brain during slow-wave sleep. We further propose that (...)
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  47. The Sum of the Parts: Large-Scale Modeling in Systems Biology.Fridolin Gross & Sara Green - 2017 - Philosophy, Theory, and Practice in Biology 9 (10).
    Systems biologists often distance themselves from reductionist approaches and formulate their aim as understanding living systems “as a whole.” Yet, it is often unclear what kind of reductionism they have in mind, and in what sense their methodologies would offer a superior approach. To address these questions, we distinguish between two types of reductionism which we call “modular reductionism” and “bottom-up reductionism.” Much knowledge in molecular biology has been gained by decomposing living systems into functional modules or through detailed (...)
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  48. Avoiding the potentiality trap: thinking about the moral status of synthetic embryos.Monika Piotrowska - 2019 - Monash Bioethics Review 38 (2):166-180.
    Research ethics committees must sometimes deliberate about objects that do not fit nicely into any existing category. This is currently the case with the “gastruloid,” which is a self-assembling blob of cells that resembles a human embryo. The resemblance makes it tempting to group it with other members of that kind, and thus to ask whether gastruloids really are embryos. But fitting an ambiguous object into an existing category with well-worn pathways in research ethics, like the embryo, is only a (...)
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  49. A Modal Theory of Function.Bence Nanay - 2010 - Journal of Philosophy 107 (8):412-431.
    The function of a trait token is usually defined in terms of some properties of other (past, present, future) tokens of the same trait type. I argue that this strategy is problematic, as trait types are (at least partly) individuated by their functional properties, which would lead to circularity. In order to avoid this problem, I suggest a way to define the function of a trait token in terms of the properties of the very same trait token. To able (...)
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  50.  75
    Organoid Sentience.Shourya Verma - manuscript
    Recent advances in stem cell-derived human brain organoids and microelectrode array (MEA) tech- nology raise profound questions about the potential for these systems to give rise to sentience. Brain organoids are 3D tissue constructs that recapitulate key aspects of brain development and function, while MEAs enable bidirectional communication with neuronal cultures. As brain organoids become more sophisticated and integrated with MEAs, the question arises: Could such a system support not only intelligent computation, but subjective experience? This paper explores the (...)
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