15 found
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  1.  81
    Varieties of Living Things: Life at the Intersection of Lineage and Metabolism.John Dupré & Maureen A. O'Malley - 2009 - Philosophy, Theory, and Practice in Biology 1 (20130604).
    We address three fundamental questions: What does it mean for an entity to be living? What is the role of inter-organismic collaboration in evolution? What is a biological individual? Our central argument is that life arises when lineage-forming entities collaborate in metabolism. By conceiving of metabolism as a collaborative process performed by functional wholes, which are associations of a variety of lineage-forming entities, we avoid the standard tension between reproduction and metabolism in discussions of life – a tension particularly evident (...)
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  2.  67
    Fundamental Issues in Systems Biology.Maureen A. O'Malley & John Dupré - 2005 - Bioessays 27 (12):1270-1276.
  3.  13
    How Causal Are Microbiomes? A Comparison with the Helicobacter Pylori Explanation of Ulcers.Kate E. Lynch, Emily C. Parke & Maureen A. O'Malley - forthcoming - Biology and Philosophy.
    Human microbiome research makes causal connections between entire microbial communities and a wide array of traits that range from physiological diseases to psychological states. To evaluate these causal claims, we first examine a well-known single-microbe causal explanation: of Helicobacter pylori causing ulcers. This apparently straightforward causal explanation is not so simple, however. It does not achieve a key explanatory standard in microbiology, of Koch’s postulates, which rely on manipulations of single-microorganism cultures to infer causal relationships to disease. When Koch’s postulates (...)
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  4. Multilevel Research Strategies and Biological Systems.Maureen A. O'Malley, Ingo Brigandt, Alan C. Love, John W. Crawford, Jack A. Gilbert, Rob Knight, Sandra D. Mitchell & Forest Rohwer - 2014 - Philosophy of Science 81 (5):811-828.
    Multilevel research strategies characterize contemporary molecular inquiry into biological systems. We outline conceptual, methodological, and explanatory dimensions of these multilevel strategies in microbial ecology, systems biology, protein research, and developmental biology. This review of emerging lines of inquiry in these fields suggests that multilevel research in molecular life sciences has significant implications for philosophical understandings of explanation, modeling, and representation.
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  5.  13
    Histories of Molecules: Reconciling the Past.Maureen A. O'Malley - 2016 - Studies in History and Philosophy of Science Part A 55:69-83.
  6.  25
    Disciplinary Baptisms: A Comparison of the Naming Stories of Genetics, Molecular Biology, Genomics and Systems Biology.Alexander Powell, Maureen A. O'Malley, Staffan Mueller-Wille, Jane Calvert & John Dupré - 2007 - History and Philosophy of the Life Sciences 29 (1):5-32.
    Understanding how scientific activities use naming stories to achieve disciplinary status is important not only for insight into the past, but for evaluating current claims that new disciplines are emerging. In order to gain a historical understanding of how new disciplines develop in relation to these baptismal narratives, we compare two recently formed disciplines, systems biology and genomics, with two earlier related life sciences, genetics and molecular biology. These four disciplines span the twentieth century, a period in which the processes (...)
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  7.  12
    Methodological Strategies in Microbiome Research and Their Explanatory Implications.Maureen A. O'Malley & Derek J. Skillings - 2018 - Perspectives on Science 26 (2):239-265.
    Microbiome research is the analysis of the aggregated molecular components of a defined microbial community.1 Our examination of this field will focus on how causality is assigned in microbiome analyses, and what methodological strategies are used to identify communities or components of those communities as causal contributors to host states. Earlier microbiome research was conducted at a broad scale via bio informatic analyses of environmental samples, then backed up by whole community transfer experiments. These "top-down" findings, in which the whole (...)
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  8.  16
    Microbiota-Gut-Brain Research: A Critical Analysis.Katarzyna B. Hooks, Jan Pieter Konsman & Maureen A. O'Malley - forthcoming - Behavioral and Brain Sciences:1-40.
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  9.  42
    Evolutionary Systems Biology: What It is and Why It Matters.Orkun S. Soyer & Maureen A. O'Malley - 2013 - Bioessays 35 (8):696-705.
  10.  11
    Microbes, Mathematics, and Models.Maureen A. O'Malley & Emily C. Parke - 2018 - Studies in History and Philosophy of Science Part A 72:1-10.
    Microbial model systems have a long history of fruitful use in fields that include evolution and ecology. In order to develop further insight into modelling practice, we examine how the competitive exclusion and coexistence of competing species have been modelled mathematically and materially over the course of a long research history. In particular, we investigate how microbial models of these dynamics interact with mathematical or computational models of the same phenomena. Our cases illuminate the ways in which microbial systems and (...)
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  11.  22
    Review of 'Philosophy of Biology' (Garvey, 2007). [REVIEW]Maureen A. O'Malley & Daniel J. Nicholson - 2008 - Notre Dame Philosophical Reviews 2008 (10).
  12.  13
    The Ecological Virus.Maureen A. O'Malley - 2016 - Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences 59:71-79.
    Ecology is usually described as the study of organisms interacting with one another and their environments. From this view of ecology, viruses – not usually considered to be organisms – would merely be part of the environment. Since the late 1980s, however, a growing stream of micrographic, experimental, molecular, and model-based (theoretical) research has been investigating how and why viruses should be understood as ecological actors of the most important sort. Viruses, especially phage, have been revealed as participants in the (...)
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  13.  19
    Toward a Philosophy of Systems Biology: Systems Biology: Philosophical Foundations, Fred C. Boogerd , Frank J. Bruggeman , Jan-Hendrik S. Hofmeyr , and Hans V. Westerhoff , Eds. Amsterdam: Elsevier, 2007, (360 Pp; €99.95 Hbk; ISBN 978-0-444-52085-2). [REVIEW]Jonathan F. Davies & Maureen A. O'Malley - 2007 - Biological Theory 2 (4):420-422.
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  14.  8
    The Scientific Importance of Asking Questions at Meetings: Why Virtual Debate is Not Enough.Maureen A. O'Malley & Sabina Leonelli - 2011 - Bioessays 33 (1):35-37.
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  15.  5
    What Microbes Can Do: A Sensory Guide to MicrobiologyMarch of the Microbes: Sighting the UnseenJohn L. Ingraham Cambridge, MA: Belknap Press of Harvard University Press, 2010 (326 Pp; £21.95 Hbk; ISBN 978-0-67403582-9). [REVIEW]Maureen A. O'Malley - 2010 - Biological Theory 5 (2):182-186.
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