Results for 'protocol-driven biomedical research'

955 found
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  1. The Ontology for Biomedical Investigations.Anita Bandrowski, Ryan Brinkman, Mathias Brochhausen, Matthew H. Brush, Bill Bug, Marcus C. Chibucos, Kevin Clancy, Mélanie Courtot, Dirk Derom, Michel Dumontier, Liju Fan, Jennifer Fostel, Gilberto Fragoso, Frank Gibson, Alejandra Gonzalez-Beltran, Melissa A. Haendel, Yongqun He, Mervi Heiskanen, Tina Hernandez-Boussard, Mark Jensen, Yu Lin, Allyson L. Lister, Phillip Lord, James Malone, Elisabetta Manduchi, Monnie McGee, Norman Morrison, James A. Overton, Helen Parkinson, Bjoern Peters, Philippe Rocca-Serra, Alan Ruttenberg, Susanna-Assunta Sansone, Richard H. Scheuermann, Daniel Schober, Barry Smith, Larisa N. Soldatova, Christian J. Stoeckert, Chris F. Taylor, Carlo Torniai, Jessica A. Turner, Randi Vita, Patricia L. Whetzel & Jie Zheng - 2016 - PLoS ONE 11 (4):e0154556.
    The Ontology for Biomedical Investigations (OBI) is an ontology that provides terms with precisely defined meanings to describe all aspects of how investigations in the biological and medical domains are conducted. OBI re-uses ontologies that provide a representation of biomedical knowledge from the Open Biological and Biomedical Ontologies (OBO) project and adds the ability to describe how this knowledge was derived. We here describe the state of OBI and several applications that are using it, such as adding (...)
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  2. Creating a Controlled Vocabulary for the Ethics of Human Research: Towards a biomedical ethics ontology.David Koepsell, Robert Arp, Jennifer Fostel & Barry Smith - 2009 - Journal of Empirical Research on Human Research Ethics 4 (1):43-58.
    Ontologies describe reality in specific domains in ways that can bridge various disciplines and languages. They allow easier access and integration of information that is collected by different groups. Ontologies are currently used in the biomedical sciences, geography, and law. A Biomedical Ethics Ontology would benefit members of ethics committees who deal with protocols and consent forms spanning numerous fields of inquiry. There already exists the Ontology for Biomedical Investigations (OBI); the proposed BMEO would interoperate with OBI, (...)
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  3. A Unified Framework for Biomedical Terminologies and Ontologies.Werner Ceusters & Barry Smith - 2010 - Studies in Health Technology and Informatics 160:1050-1054.
    The goal of the OBO (Open Biomedical Ontologies) Foundry initiative is to create and maintain an evolving collection of non-overlapping interoperable ontologies that will offer unambiguous representations of the types of entities in biological and biomedical reality. These ontologies are designed to serve non-redundant annotation of data and scientific text. To achieve these ends, the Foundry imposes strict requirements upon the ontologies eligible for inclusion. While these requirements are not met by most existing biomedical terminologies, the latter (...)
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  4. Knowledge and attitude of ethics committee (EC) members on bioethics and structure & function of EC in Bangladesh: A pilot study.Shamima Parvin Lasker, Arif Hossain & M. A. Shakoor - February 2019 - In Dr Saiful Islam (ed.), Policy Brief, Hard copy. PMR, Directorate General of Health Services. pp. 1-8.
    Having scandalous unethical research practices in the mid and late 20th century, study protocols of biomedical research reviewed by the Ethics Committee (EC) has become the accepted international standard. The Declaration of Helsinki uniformly requires that all biomedical research involving human participants, including research on identifiable human material or data, should be approved by the EC. Today, concerns over the quality of the EC functions worldwide. There are research globally in this regard but (...)
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  5. The Infectious Disease Ontology in the Age of COVID-19.Shane Babcock, Lindsay G. Cowell, John Beverley & Barry Smith - 2021 - Journal of Biomedical Semantics 12 (13).
    The Infectious Disease Ontology (IDO) is a suite of interoperable ontology modules that aims to provide coverage of all aspects of the infectious disease domain, including biomedical research, clinical care, and public health. IDO Core is designed to be a disease and pathogen neutral ontology, covering just those types of entities and relations that are relevant to infectious diseases generally. IDO Core is then extended by a collection of ontology modules focusing on specific diseases and pathogens. In this (...)
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  6. Diagnostic Criteria for Temporomandibular Disorders (DC/TMD) for clinical and research applications.Eric Schiffman, Richard Ohrbach, E. Truelove, Edmond Truelove, John Look, Gary Anderson, Werner Ceusters, Barry Smith & Others - 2014 - Journal of Oral and Facial Pain and Headache 28 (1):6-27.
    Aims: The Research Diagnostic Criteria for Temporomandi¬bular Disorders (RDC/TMD) Axis I diagnostic algorithms were demonstrated to be reliable but below target sensitivity and specificity. Empirical data supported Axis I algorithm revisions that were valid. Axis II instruments were shown to be both reliable and valid. An international consensus workshop was convened to obtain recommendations and finalization of new Axis I diagnostic algorithms and new Axis II instruments. Methods: A comprehensive search of published TMD diagnostic literature was followed by review (...)
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  7. Ontology-based knowledge representation of experiment metadata in biological data mining.Scheuermann Richard, Kong Megan, Dahlke Carl, Cai Jennifer, Lee Jamie, Qian Yu, Squires Burke, Dunn Patrick, Wiser Jeff, Hagler Herb, Herb Hagler, Barry Smith & David Karp - 2009 - In Chen Jake & Lonardi Stefano (eds.), Biological Data Mining. Chapman Hall / Taylor and Francis. pp. 529-559.
    According to the PubMed resource from the U.S. National Library of Medicine, over 750,000 scientific articles have been published in the ~5000 biomedical journals worldwide in the year 2007 alone. The vast majority of these publications include results from hypothesis-driven experimentation in overlapping biomedical research domains. Unfortunately, the sheer volume of information being generated by the biomedical research enterprise has made it virtually impossible for investigators to stay aware of the latest findings in their (...)
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  8. Causal inference in biomedical research.Tudor M. Baetu - 2020 - Biology and Philosophy 35 (4):1-19.
    Current debates surrounding the virtues and shortcomings of randomization are symptomatic of a lack of appreciation of the fact that causation can be inferred by two distinct inference methods, each requiring its own, specific experimental design. There is a non-statistical type of inference associated with controlled experiments in basic biomedical research; and a statistical variety associated with randomized controlled trials in clinical research. I argue that the main difference between the two hinges on the satisfaction of the (...)
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  9. A comparative analysis of biomedical research ethics regulation systems in Europe and Latin America with regard to the protection of human subjects.E. Lamas, M. Ferrer, A. Molina, R. Salinas, A. Hevia, A. Bota, D. Feinholz, M. Fuchs, R. Schramm, J. -C. Tealdi & S. Zorrilla - 2010 - Journal of Medical Ethics 36 (12):750-753.
    The European project European and Latin American Systems of Ethics Regulation of Biomedical Research Project (EULABOR) has carried out the first comparative analysis of ethics regulation systems for biomedical research in seven countries in Europe and Latin America, evaluating their roles in the protection of human subjects. We developed a conceptual and methodological framework defining ‘ethics regulation system for biomedical research’ as a set of actors, institutions, codes and laws involved in overseeing the ethics (...)
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  10.  49
    Scientific understanding in biomedical research.Somogy Varga - 2024 - Synthese 204 (2):1-19.
    Motivated by a recent trend that advocates a reassessment of the aim of medical science and clinical practice, this paper investigates the epistemic aims of biomedical research. Drawing on contemporary discussions in epistemology and the philosophy of science, along with a recent study on scurvy, this paper (1) explores the concept of understanding as the aim of scientific inquiry and (2) establishes a framework that will guide the examination of its forms in biomedical research. Using the (...)
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  11. Reductionist methodology and the ambiguity of the categories of race and ethnicity in biomedical research: an exploratory study of recent evidence.Joanna Karolina Malinowska & Tomasz Żuradzki - 2022 - Medicine, Health Care and Philosophy (1):1-14.
    In this article, we analyse how researchers use the categories of race and ethnicity with reference to genetics and genomics. We show that there is still considerable conceptual “messiness” (despite the wide-ranging and popular debate on the subject) when it comes to the use of ethnoracial categories in genetics and genomics that among other things makes it difficult to properly compare and interpret research using ethnoracial categories, as well as draw conclusions from them. Finally, we briefly reconstruct some of (...)
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  12. The Obligation to Participate in Biomedical Research.G. Owen Schaefer, Ezekiel J. Emanuel & Alan Wertheimer - 2009 - Journal of the American Medical Association 302 (1):67-72.
    The current prevailing view is that participation in biomedical research is above and beyond the call of duty. While some commentators have offered reasons against this, we propose a novel public goods argument for an obligation to participate in biomedical research. Biomedical knowledge is a public good, available to any individual even if that individual does not contribute to it. Participation in research is a critical way to support an important public good. Consequently, all (...)
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  13. Run the experiment, publish the study, close the sale: Commercialized biomedical research.Aleta Quinn - 2016 - De Ethica 2 (3):5-21.
    Business models for biomedical research prescribe decentralization due to market selection pressures. I argue that decentralized biomedical research does not match four normative philosophical models of the role of values in science. Non-epistemic values affect the internal stages of for-profit biomedical science. Publication planning, effected by Contract Research Organizations, inhibits mechanisms for transformative criticism. The structure of contracted research precludes attribution of responsibility for foreseeable harm resulting from methodological choices. The effectiveness of business (...)
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  14. Towards the multileveled and processual conceptualisation of racialised individuals in biomedical research.Joanna Karolina Malinowska & Tomasz Żuradzki - 2023 - Synthese 201 (1):1-36.
    In this paper, we discuss the processes of racialisation on the example of biomedical research. We argue that applying the concept of racialisation in biomedical research can be much more precise, informative and suitable than currently used categories, such as race and ethnicity. For this purpose, we construct a model of the different processes affecting and co-shaping the racialisation of an individual, and consider these in relation to biomedical research, particularly to studies on hypertension. (...)
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  15. Analytic philosophy for biomedical research: the imperative of applying yesterday's timeless messages to today's impasses.Sepehr Ehsani - 2020 - In Patrick Glauner & Philipp Plugmann (eds.), Innovative Technologies for Market Leadership: Investing in the Future. Springer. pp. 167-200.
    The mantra that "the best way to predict the future is to invent it" (attributed to the computer scientist Alan Kay) exemplifies some of the expectations from the technical and innovative sides of biomedical research at present. However, for technical advancements to make real impacts both on patient health and genuine scientific understanding, quite a number of lingering challenges facing the entire spectrum from protein biology all the way to randomized controlled trials should start to be overcome. The (...)
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  16. The Practical Implications of the New Metaphysics of Race for a Postracial Medicine: Biomedical Research Methodology, Institutional Requirements, Patient–Physician Relations.Joanna K. Malinowska & Tomasz Żuradzki - 2017 - American Journal of Bioethics 17 (9):61-63.
    Perez-Rodriguez and de la Fuente (2017) assume that although human races do not exist in a biological sense (“geneticists and evolutionary biologists generally agree that the division of humans into races/subspecies has no defensible scientific basis,” they exist only as “sociocultural constructions” and because of that maintain an illusory reality, for example, through “racialized” practices in medicine. Agreeing with the main postulates formulated in the article, we believe that the authors treat this problem in a superficial manner and have failed (...)
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  17. Are scientists a workforce? – Or, how Dr. Frankenstein made biomedical research sick.Yuri Lazebnik - 2015 - EMBO Reports 16 (12):1592-1600.
    A proposed plan to rescue US biomedical research from its current ‘malaise’ will not be effective as it misdiagnoses the root cause of the disease.
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  18. (1 other version)Wanting what we don't want to want: Representing Addiction in Interoperable Bio-Ontologies.Janna Hastings, Nicolas Le Novère, Werner Ceusters, Kevin Mulligan & Barry Smith - 2012 - In Janna Hastings, Werner Ceusters, Mark Jensen, Kevin Mulligan & Barry Smith (eds.), Towards an Ontology of Mental Functioning (ICBO Workshop). CEUR. pp. 56-60.
    Ontologies are being developed throughout the biomedical sciences to address standardization, integration, classification and reasoning needs against the background of an increasingly data-driven research paradigm. In particular, ontologies facilitate the translation of basic research into benefits for the patient by making research results more discoverable and by facilitating knowledge transfer across disciplinary boundaries. Addressing and adequately treating mental illness is one of our most pressing public health challenges. Primary research across multiple disciplines such as (...)
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  19. The problem of the consent for the processing of health data, particularly for biomedical research purposes, from the perspective of fundamental rights protection in the Digital Era.Joaquín Sarrión Esteve - 2018 - Revista de Derecho y Genoma Humano: Genética, Biotecnología y Medicina Avanzada = Law and the Human Genome Review: Genetics, Biotechnology and Advanced Medicine 48:107-132.
    Health data processing fields face ethical and legal problems regarding fundamental rights. As we know, patients can benefit in the Digital Era from having health or medical information available, and medical decisions can be more effective with a better understanding of clinical histories, medical and health data thanks to the development of Artificial Intelligence, Internet of Things and other Digital technologies. However, at the same time, we need to guarantee fundamental rights, including privacy ones. The complaint about ethical and legal (...)
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  20. Semantics in Support of Biodiversity: An Introduction to the Biological Collections Ontology and Related Ontologies.Ramona L. Walls, John Deck, Robert Guralnik, Steve Baskauf, Reed Beaman, Stanley Blum, Shawn Bowers, Pier Luigi Buttigieg, Neil Davies, Dag Endresen, Maria Alejandra Gandolfo, Robert Hanner, Alyssa Janning, Barry Smith & Others - 2014 - PLoS ONE 9 (3):1-13.
    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 (...)
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  21. Pharmacogenomic Inequalities: Strategies for Justice in Biomedical Research and Healthcare.Giovanni De Grandis - 2017 - Diametros 51:153-172.
    The paper discusses the possibility that the benefits of pharmacogenomics will not be distributed equally and will create orphan populations. I argue that since these inequalities are not substantially different from those produced by ‘traditional’ drugs and are not generated with the intention to discriminate, their production needs not be unethical. Still, the final result is going against deep-seated moral feelings and intuitions, as well as broadly accepted principles of just distribution of health outcomes and healthcare. I thus propose two (...)
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  22.  47
    OPTIMIZATION TECHNIQUES FOR LOAD BALANCING IN DATA-INTENSIVE APPLICATIONS USING MULTIPATH ROUTING NETWORKS.S. Yoheswari - 2024 - Journal of Science Technology and Research (JSTAR) 5 (1):377-382.
    In today's data-driven world, the efficient management of network resources is crucial for optimizing performance in data centers and large-scale networks. Load balancing is a critical process in ensuring the equitable distribution of data across multiple paths, thereby enhancing network throughput and minimizing latency. This paper presents a comprehensive approach to load balancing using advanced optimization techniques integrated with multipath routing protocols. The primary focus is on dynamically allocating network resources to manage the massive volume of data generated by (...)
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  23. Annotating affective neuroscience data with the Emotion Ontology.Janna Hastings, Werner Ceusters, Kevin Mulligan & Barry Smith - 2012 - In Janna Hastings, Werner Ceusters, Kevin Mulligan & Barry Smith (eds.), Third International Conference on Biomedical Ontology. ICBO. pp. 1-5.
    The Emotion Ontology is an ontology covering all aspects of emotional and affective mental functioning. It is being developed following the principles of the OBO Foundry and Ontological Realism. This means that in compiling the ontology, we emphasize the importance of the nature of the entities in reality that the ontology is describing. One of the ways in which realism-based ontologies are being successfully used within biomedical science is in the annotation of scientific research results in publicly available (...)
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  24.  31
    Optimization Algorithms for Load Balancing in Data-Intensive Systems with Multipath Routing.M. Arulselvan - 2024 - Journal of Science Technology and Research (JSTAR) 5 (1):377-382.
    : In today's data-driven world, the efficient management of network resources is crucial for optimizing performance in data centers and large-scale networks. Load balancing is a critical process in ensuring the equitable distribution of data across multiple paths, thereby enhancing network throughput and minimizing latency. This paper presents a comprehensive approach to load balancing using advanced optimization techniques integrated with multipath routing protocols. The primary focus is on dynamically allocating network resources to manage the massive volume of data generated (...)
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  25. Grand Challenges and Small Steps. Introduction to the Special Issue 'Interdisciplinary Integration: The Real Grand Challenge for the Life Sciences?'.Giovanni De Grandis & Sophia Efstathiou - 2016 - Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences 56:39-47.
    This collection addresses two different audiences: 1) historians and philosophers of the life sciences reflecting on collaborations across disciplines, especially as regards defining and addressing Grand Challenges; 2) researchers and other stakeholders involved in cross-disciplinary collaborations aimed at tackling Grand Challenges in the life and medical sciences. The essays collected here offer ideas and resources both for the study and for the practice of goal-driven cross-disciplinary research in the life and medical sciences. We organise this introduction in three (...)
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  26. Resisting the ‘Patient’ Body: A Phenomenological Account.Sarah Pini - 2019 - Journal of Embodied Research 2 (2).
    According to the biomedical model of medicine, the subject of the illness event is the pathology rather than the person diagnosed with the disease. In this view, a body-self becomes a ‘patient’ body-object that can be enrolled in a therapeutic protocol, investigated, assessed, and transformed. How can it be possible for cancer patients to make sense of the opposite dimensions of their body-self and their body-diseased-object? Could a creative embodied approach enable the coping with trauma tied to the (...)
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  27.  41
    Multipath Routing Optimization for Enhanced Load Balancing in Data-Heavy Networks.M. Arul Selvan - 2024 - Journal of Science Technology and Research (JSTAR) 5 (1):377-382.
    In today's data-driven world, the efficient management of network resources is crucial for optimizing performance in data centers and large-scale networks. Load balancing is a critical process in ensuring the equitable distribution of data across multiple paths, thereby enhancing network throughput and minimizing latency. This paper presents a comprehensive approach to load balancing using advanced optimization techniques integrated with multipath routing protocols. The primary focus is on dynamically allocating network resources to manage the massive volume of data generated by (...)
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  28. Ontology as the core discipline of biomedical informatics: Legacies of the past and recommendations for the future direction of research.Barry Smith & Werner Ceusters - 2007 - In Gordana Dodig Crnkovic & Susan Stuart (eds.), Computation, Information, Cognition: The Nexus and the Liminal.f. Cambridge Scholars Press. pp. 104-122.
    The automatic integration of rapidly expanding information resources in the life sciences is one of the most challenging goals facing biomedical research today. Controlled vocabularies, terminologies, and coding systems play an important role in realizing this goal, by making it possible to draw together information from heterogeneous sources – for example pertaining to genes and proteins, drugs and diseases – secure in the knowledge that the same terms will also represent the same entities on all occasions of use. (...)
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  29. Community-Based Research Protocol on Transboundary Impacts: Fishery Resources, Ecosystem and Communities’ Livelihood.Narith Por, Pichdara Lonn, Solany Kry & Chimor Mor (eds.) - 2022 - Cambodia: My Village.
    The developments along the Mekong River, including in Cambodia, have boomed. There were 755 dams. Of these, 537 have been completed, and 152 have been planned or proposed. Of these, 52 were under construction, and 14 have been canceled or suspended. Of these dams, 392 were hydropower, 337 were irrigation, and 26 were other types (CGIAR, 2015). Even though some officials saw economic development as a result of the hydropower dam, the negative impacts of hydropower dams were seen by many (...)
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  30.  42
    IoT-Integrated Smart Home Technologies with Augmented Reality for Improved User Experience.M. Arul Selvan - 2024 - Journal of Science Technology and Research (JSTAR) 5 (1):389-394.
    The paper also discusses the technical architecture, including the network protocols, data management strategies, and user interface design considerations necessary to implement such a system. Additionally, it addresses the challenges related to data security, privacy, and system interoperability. Finally, the paper outlines potential future enhancements, such as the incorporation of AI-driven predictive analytics and advanced AR features, to further elevate the smart home experience.
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  31. Making Risk-Benefit Assessments of Medical Research Protocols.Alex Rajczi - 2004 - Journal of Law, Medicine and Ethics 32 (2):338-348.
    An axiom of medical research ethics is that a protocol is moral only if it has a “favorable risk-benefit ratio”. This axiom is usually interpreted in the following way: a medical research protocol is moral only if it has a positive expected value -- that is, if it is likely to do more good (to both subjects and society) than harm. I argue that, thus interpreted, the axiom has two problems. First, it is unusable, because it (...)
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  32. Normative framework of informed consent in clinical research in Germany, Poland, and Russia.Marcin Orzechowski, Katarzyna Woniak, Cristian Timmermann & Florian Steger - 2021 - BMC Medical Ethics 22 (1):1-10.
    Background: Biomedical research nowadays is increasingly carried out in multinational and multicenter settings. Due to disparate national regulations on various ethical aspects, such as informed consent, there is the risk of ethical compromises when involving human subjects in research. Although the Declaration of Helsinki is the point of reference for ethical conduct of research on humans, national normative requirements may diverge from its provisions. The aim of this research is to examine requirements on informed consent (...)
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  33. Hidden protocols: Modifying our expectations in an evolving world.Hans van Ditmarsch, Sujata Ghosh, Rineke Verbrugge & Yanjing Wang - 2014 - Artificial Intelligence 208 (1):18--40.
    When agents know a protocol, this leads them to have expectations about future observations. Agents can update their knowledge by matching their actual observations with the expected ones. They eliminate states where they do not match. In this paper, we study how agents perceive protocols that are not commonly known, and propose a semantics-driven logical framework to reason about knowledge in such scenarios. In particular, we introduce the notion of epistemic expectation models and a propositional dynamic logic-style epistemic (...)
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  34. (1 other version)The ethics of biomedical military research: Therapy, prevention, enhancement, and risk.Alexandre Erler & Vincent C. Müller - 2021 - In Daniel Messelken & David Winkler (eds.), Health Care in Contexts of Risk, Uncertainty, and Hybridity. Springer. pp. 235-252.
    What proper role should considerations of risk, particularly to research subjects, play when it comes to conducting research on human enhancement in the military context? We introduce the currently visible military enhancement techniques (1) and the standard discussion of risk for these (2), in particular what we refer to as the ‘Assumption’, which states that the demands for risk-avoidance are higher for enhancement than for therapy. We challenge the Assumption through the introduction of three categories of enhancements (3): (...)
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  35. False-Positives in Psychopathy Assessment: Proposing Theory-Driven Exclusion Criteria in Research Sampling.Rasmus Rosenberg Larsen - 2018 - European Journal of Analytic Philosophy 14 (1):33-52.
    Recent debates in psychopathy studies have articulated concerns about false-positives in assessment and research sampling. These are pressing concerns for research progress, since scientific quality depends on sample quality, that is, if we wish to study psychopathy we must be certain that the individuals we study are, in fact, psychopaths. Thus, if conventional assessment tools yield substantial false-positives, this would explain why central research is laden with discrepancies and nonreplicable findings. This paper draws on moral psychology in (...)
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  36. (2 other versions)Pharmacogenetics: the bioethical problem of DNA investment banking.Oonagh P. Corrigan & Bryn Williams-Jones - 2006 - Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences 37 (3):550-565.
    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 (...)
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  37. Practical Integration: the Art of Balancing Values, Institutions and Knowledge. Lessons from the History of British Public Health and Town Planning.Giovanni De Grandis - 2016 - Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences 56:92-105.
    The paper uses two historical examples, public health (1840-1880) and town planning (1945-1975) in Britain, to analyse the challenges faced by goal-driven research, an increasingly important trend in science policy, as exemplified by the prominence of calls for addressing Grand Challenges. Two key points are argued. (1) Given that the aim of research addressing social or global problems is to contribute to improving things, this research should include all the steps necessary to bring science and technology (...)
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  38.  57
    Enabling the Nonhypothesis-Driven Approach: On Data Minimalization, Bias, and the Integration of Data Science in Medical Research and Practice.C. W. Safarlou, M. van Smeden, R. Vermeulen & K. R. Jongsma - 2023 - American Journal of Bioethics 23 (9):72-76.
    Cho and Martinez-Martin provide a wide-ranging analysis of what they label “digital simulacra”—which are in essence data-driven AI-based simulation models such as digital twins or models used for i...
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  39. Protein-centric connection of biomedical knowledge: Protein Ontology research and annotation tools.Cecilia N. Arighi, Darren A. Natale, Judith A. Blake, Carol J. Bult, Michael Caudy, Alexander D. Diehl, Harold J. Drabkin, Peter D'Eustachio, Alexei Evsikov, Hongzhan Huang, Barry Smith & Others - 2011 - In Landgrebe Jobst & Smith Barry (eds.), Proceedings of the 2nd International Conference on Biomedical Ontology. CEUR, vol. 833. pp. 285-287.
    The Protein Ontology (PRO) web resource provides an integrative framework for protein-centric exploration and enables specific and precise annotation of proteins and protein complexes based on PRO. Functionalities include: browsing, searching and retrieving, terms, displaying selected terms in OBO or OWL format, and supporting URIs. In addition, the PRO website offers multiple ways for the user to request, submit, or modify terms and/or annotation. We will demonstrate the use of these tools for protein research and annotation.
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  40. Towards a Reference Terminology for Ontology Research and Development in the Biomedical Domain.Barry Smith, Waclaw Kusnierczyk, Daniel Schober, & Werner Ceusters - 2006 - In Barry Smith, Waclaw Kusnierczyk, Schober & Werner Ceusters (eds.), Proceedings of KR-MED, CEUR, vol. 222. pp. 57-65.
    Ontology is a burgeoning field, involving researchers from the computer science, philosophy, data and software engineering, logic, linguistics, and terminology domains. Many ontology-related terms with precise meanings in one of these domains have different meanings in others. Our purpose here is to initiate a path towards disambiguation of such terms. We draw primarily on the literature of biomedical informatics, not least because the problems caused by unclear or ambiguous use of terms have been there most thoroughly addressed. We advance (...)
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  41. The multiplicity of experimental protocols: A challenge to reductionist and non-reductionist models of the unity of neuroscience.Jacqueline A. Sullivan - 2009 - Synthese 167 (3):511-539.
    Descriptive accounts of the nature of explanation in neuroscience and the global goals of such explanation have recently proliferated in the philosophy of neuroscience and with them new understandings of the experimental practices of neuroscientists have emerged. In this paper, I consider two models of such practices; one that takes them to be reductive; another that takes them to be integrative. I investigate those areas of the neuroscience of learning and memory from which the examples used to substantiate these models (...)
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  42. Advance Research Directives in Germany: A Proposal for a Disclosure Standard.Matthé Scholten - 2018 - GeroPsych: The Journal of Gerontopsychology and Geriatric Psychiatry 31 (2):77-86.
    The fourth amendment to the German Medicinal Products Act (Arzneimittelgesetz) states that nontherapeutic research in incompetent populations is permissible under the condition that potential research participants expressly declare their wish to participate in scientific research in an advance research directive. This article explores the implementation of advance research directives in Germany against the background of the international legal and ethical framework for biomedical research. In particular, it addresses a practical problem that arises from (...)
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  43. An Evidence-driven Research to the Transgressions of Geneva Conventions by the Communist Party of China Led Autocratic Regime.Yang Immanuel Pachankis - 2022 - International Journal of Scientific and Engineering Research 13 (10):249-266.
    The "second-generation indigenization" hypothesis of Huntington's phenomenological observations on totalitarianism in Cold War regime collapse subtly portrayed the realpolitik interest groups' political influences with autocracy disbandment processes. The research puts democratization as the premise and globalization as purpose for the analysis, with the cultural anthropological psychopathology & criminological elements of genocide and crime against humanity explained, underlying some of the Communist Party of China (CPC)’s organizational behaviors. With the regionalism purposes & approaches to multilateralism by People's Republic of China (...)
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  44. The Nobel Prize as a Reward Mechanism in the Genomics Era: Anonymous Researchers, Visible Managers and the Ethics of Excellence. [REVIEW]Hub Zwart - 2010 - Journal of Bioethical Inquiry 7 (3):299-312.
    The Human Genome Project is regarded by many as one of the major scientific achievements in recent science history, a large-scale endeavour that is changing the way in which biomedical research is done and expected, moreover, to yield considerable benefit for society. Thus, since the completion of the human genome sequencing effort, a debate has emerged over the question whether this effort merits to be awarded a Nobel Prize and if so, who should be the one to receive (...)
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  45. The National Center for Biomedical Ontology.Mark A. Musen, Natalya F. Noy, Nigam H. Shah, Patricia L. Whetzel, Christopher G. Chute, Margaret-Anne Story & Barry Smith - 2012 - Journal of the American Medical Informatics Association 19 (2):190-195.
    The National Center for Biomedical Ontology is now in its seventh year. The goals of this National Center for Biomedical Computing are to: create and maintain a repository of biomedical ontologies and terminologies; build tools and web services to enable the use of ontologies and terminologies in clinical and translational research; educate their trainees and the scientific community broadly about biomedical ontology and ontology-based technology and best practices; and collaborate with a variety of groups who (...)
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  46. Lessons from Learning the Craft of Theory-Driven Research.Michael A. Dover - 2010 - Proceedings of the American Sociological Association 2010.
    This article presents a case study of the structure and logic of the author’s dissertation, with a focus on theoretical content. Designed for use in proposal writing seminars or research methods courses, the article stresses the value of identifying the originating, specifying and subsidiary research questions; clarifying the subject and object of the research; situating research within a particular research tradition, and using a competing theories approach. The article stresses the need to identify conceptual problems (...)
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  47. The Environment Ontology: Contextualising biological and biomedical entities.Pier Luigi Buttigieg, Norman Morrison, Barry Smith, Christopher J. Mungall & Suzanna E. Lewis - 2013 - Journal of Biomedical Semantics 4 (43):1-9.
    As biological and biomedical research increasingly reference the environmental context of the biological entities under study, the need for formalisation and standardisation of environment descriptors is growing. The Environment Ontology (ENVO) is a community-led, open project which seeks to provide an ontology for specifying a wide range of environments relevant to multiple life science disciplines and, through an open participation model, to accommodate the terminological requirements of all those needing to annotate data using ontology classes. This paper summarises (...)
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  48. Survey-Driven Romanticism.Simon Cullen - 2010 - Review of Philosophy and Psychology 1 (2):275-296.
    Despite well-established results in survey methodology, many experimental philosophers have not asked whether and in what way conclusions about folk intuitions follow from people’s responses to their surveys. Rather, they appear to have proceeded on the assumption that intuitions can be simply read off from survey responses. Survey research, however, is fraught with difficulties. I review some of the relevant literature—particularly focusing on the conversational pragmatic aspects of survey research—and consider its application to common experimental philosophy surveys. I (...)
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  49. Philosophy and Biomedical Information Systems.Barry Smith & Bert Klagges - 2008 - In Katherine Munn & Barry Smith (eds.), Applied Ontology: An Introduction. Frankfurt: ontos. pp. 17-30.
    The pathbreaking scientific advances of recent years call for a new philosophical consideration of the fundamental categories of biology and its neighboring disciplines. Above all, the new information technologies used in biomedical research, and the necessity to master the continuously growing flood of data that is associated therewith, demand a profound and systematic reflection on the systematization and classification of biological data. This, however, demands robust theories of basic concepts such as kind, species, part, whole, function, process, fragment, (...)
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  50. Integration of Internet Protocol and Embedded System On IoT Device Automation.Yousef MethkalAbd Algani, S. Balaji, A. AlbertRaj, G. Elangovan, P. J. Sathish Kumar, George Kofi Agordzo, Jupeth Pentang & B. Kiran Bala - manuscript
    The integration of Internet Protocol and Embedded Systems can enhance the communication platform. This paper describes the emerging smart technologies based on Internet of Things (IOT) and internet protocols along with embedded systems for monitoring and controlling smart devices with the help of WiFi technology and web applications. The internet protocol (IP) address has been assigned to the things to control and operate the devices via remote network that facilitates the interoperability and end-to-end communication among various devices c,onnected (...)
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