Immunity, DEvelopment and Microbiota: Understanding the Continuous Construction of Biological Identity

Opinion: Why science needs philosophy

Author(s): Lucie Laplane, Paolo Mantovani, Ralph Adolphs, Hasok Chang, Alberto Mantovani, Margaret McFall-Ngai, Carlo Rovelli, Elliott Sober, Thomas Pradeu
Published in: Proceedings of the National Academy of Sciences, Issue 116/10, 2019, Page(s) 3948-3952, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.1900357116

The vaccinologist’s “dirty little secret”: a better understanding of structure-function relationships of viral immunogens might advance rational HIV vaccine design

Author(s): Gregor P. Greslehner
Published in: Archives of Virology, 2021, ISSN 0304-8608
Publisher: Springer Verlag
DOI: 10.1007/s00705-021-04982-7

Philosophy of CRISPR-Cas: Introduction to Eugene Koonin’s target paper and commentaries

Author(s): Thomas Pradeu
Published in: Biology & Philosophy, Issue 34/1, 2019, ISSN 0169-3867
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10539-018-9664-9

The visibility of philosophy of science in the sciences, 1980–2018

Author(s): Mahdi Khelfaoui, Yves Gingras, Maël Lemoine, Thomas Pradeu
Published in: Synthese, 2021, ISSN 0039-7857
Publisher: D. Reidel Pub. Co.
DOI: 10.1007/s11229-021-03067-x

The Multiple Layers of the Tumor Environment

Author(s): Lucie Laplane, Dorothée Duluc, Nicolas Larmonier, Thomas Pradeu, Andreas Bikfalvi
Published in: Trends in Cancer, Issue 4/12, 2018, Page(s) 802-809, ISSN 2405-8033
Publisher: Cell Press
DOI: 10.1016/j.trecan.2018.10.002

Not by structures alone: Can the immune system recognize microbial functions?

Author(s): Gregor P.Greslehner
Published in: Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences, 2020, ISSN 1369-8486
Publisher: Elsevier BV
DOI: 10.1016/j.shpsc.2020.101336

Immunology and individuality

Author(s): Thomas Pradeu
Published in: eLife, Issue 8, 2019, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.47384

Beyond the tumour microenvironment

Author(s): Lucie Laplane, Dorothée Duluc, Andreas Bikfalvi, Nicolas Larmonier, Thomas Pradeu
Published in: International Journal of Cancer, Issue 145/10, 2019, Page(s) 2611-2618, ISSN 0020-7136
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/ijc.32343

A dual decomposition strategy of both microbial and phenotypic components for a better understanding of causal claims

Author(s): Gregor P. Greslehner, Maël Lemoine
Published in: Biology & Philosophy, Issue 35/1, 2020, ISSN 0169-3867
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10539-019-9708-9

Microbiome Structure and Function: A New Framework for Interpreting Data

Author(s): Gregor P. Greslehner
Published in: BioEssays, Issue 42/7, 2020, Page(s) 1900255, ISSN 0265-9247
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/bies.201900255

Protective Microbiota: From Localized to Long-Reaching Co-Immunity

Author(s): Lynn Chiu, Thomas Bazin, Marie-Elise Truchetet, Thierry Schaeverbeke, Laurence Delhaes, Thomas Pradeu
Published in: Frontiers in Immunology, Issue 8, 2017, ISSN 1664-3224
Publisher: Frontiers Research Foundation
DOI: 10.3389/fimmu.2017.01678

Immune-Mediated Repair: A Matter of Plasticity

Author(s): Paôline Laurent, Valérie Jolivel, Pauline Manicki, Lynn Chiu, Cécile Contin-Bordes, Marie-Elise Truchetet, Thomas Pradeu
Published in: Frontiers in Immunology, Issue 8, 2017, ISSN 1664-3224
Publisher: LFrontiers Research Foundation
DOI: 10.3389/fimmu.2017.00454

Right out of the box: how to situate metaphysics of science in relation to other metaphysical approaches

Author(s): Alexandre Guay, Thomas Pradeu
Published in: Synthese, 2018, ISSN 0039-7857
Publisher: D. Reidel Pub. Co.
DOI: 10.1007/s11229-017-1576-8

Holobionts and the ecology of organisms: Multi-species communities or integrated individuals?

Author(s): Derek Skillings
Published in: Biology & Philosophy, Issue 31/6, 2016, Page(s) 875-892, ISSN 0169-3867
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10539-016-9544-0

Towards a General Theory of Immunity?

Author(s): Gérard Eberl, Thomas Pradeu
Published in: Trends in Immunology, Issue 39/4, 2018, Page(s) 261-263, ISSN 1471-4906
Publisher: Elsevier BV
DOI: 10.1016/j.it.2017.11.004

Immunological memory: What's in a name?

Author(s): Thomas Pradeu, Louis Du Pasquier
Published in: Immunological Reviews, Issue 283/1, 2018, Page(s) 7-20, ISSN 0105-2896
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/imr.12652

Ontologies of Living Beings: Introduction

Author(s): A. M. Ferner, Thomas Pradeu
Published in: Philosophy, Theory, and Practice in Biology, Issue 9/20171201, 2017, ISSN 2475-3025
Publisher: Michigan Publishing
DOI: 10.3998/ptb.6959004.0009.004

Re-thinking our understanding of immunity: Robustness in the tissue reconstruction system

Author(s): Marie-Elise Truchetet, Thomas Pradeu
Published in: Seminars in Immunology, Issue 36, 2018, Page(s) 45-55, ISSN 1044-5323
Publisher: Academic Press
DOI: 10.1016/j.smim.2018.02.013

Mutualistic viruses and the heteronomy of life

Author(s): Thomas Pradeu
Published in: Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences, Issue 59, 2016, Page(s) 80-88, ISSN 1369-8486
Publisher: Elsevier BV
DOI: 10.1016/j.shpsc.2016.02.007

Methodological Strategies in Microbiome Research and their Explanatory Implications

Author(s): Maureen A. O’Malley, Derek J. Skillings
Published in: Perspectives on Science, Issue 26/2, 2018, Page(s) 239-265, ISSN 1063-6145
Publisher: University of Chicago Press
DOI: 10.1162/POSC_a_00274

Microorganisms as scaffolds of host individuality: an eco-immunity account of the holobiont

Author(s): Lynn Chiu, Gérard Eberl
Published in: Biology & Philosophy, Issue 31/6, 2016, Page(s) 819-837, ISSN 0169-3867
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10539-016-9552-0

The emerging role of ECM crosslinking in T cell mobility as a hallmark of immunosenescence in humans

Author(s): Jean-Francois Moreau, Thomas Pradeu, Andrea Grignolio, Christine Nardini, Filippo Castiglione, Paolo Tieri, Miriam Capri, Stefano Salvioli, Jean-Luc Taupin, Paolo Garagnani, Claudio Franceschi
Published in: Ageing Research Reviews, Issue 35, 2017, Page(s) 322-335, ISSN 1568-1637
Publisher: Elsevier BV
DOI: 10.1016/j.arr.2016.11.005

Understanding viruses: Philosophical investigations

Author(s): Thomas Pradeu, Gladys Kostyrka, John Dupré
Published in: Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences, Issue 59, 2016, Page(s) 57-63, ISSN 1369-8486
Publisher: Elsevier BV
DOI: 10.1016/j.shpsc.2016.02.008

Thirty years of Biology & Philosophy: philosophy of which biology?

Author(s): Thomas Pradeu
Published in: Biology & Philosophy, Issue 32/2, 2017, Page(s) 149-167, ISSN 0169-3867
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10539-016-9558-7

Organisms or biological individuals? Combining physiological and evolutionary individuality

Author(s): Thomas Pradeu
Published in: Biology & Philosophy, Issue 31/6, 2016, Page(s) 797-817, ISSN 0169-3867
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10539-016-9551-1

Is defining life pointless? Operational definitions at the frontiers of biology

Author(s): Leonardo Bich, Sara Green
Published in: Synthese, 2017, ISSN 0039-7857
Publisher: D. Reidel Pub. Co.
DOI: 10.1007/s11229-017-1397-9

The discontinuity theory of immunity

Author(s): Thomas Pradeu, Eric Vivier
Published in: Science Immunology, Issue 1/1, 2016, Page(s) aag0479-aag0479, ISSN 2470-9468
Publisher: AAAS
DOI: 10.1126/sciimmunol.aag0479

The many faces of biological individuality

Author(s): Thomas Pradeu
Published in: Biology & Philosophy, Issue 31/6, 2016, Page(s) 761-773, ISSN 0169-3867
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10539-016-9553-z

“Microbiota, symbiosis and individuality summer school” meeting report

Author(s): Isobel Ronai, Gregor P. Greslehner, Federico Boem, Judith Carlisle, Adrian Stencel, Javier Suárez, Saliha Bayir, Wiebke Bretting, Joana Formosinho, Anna C. Guerrero, William H. Morgan, Cybèle Prigot-Maurice, Salome Rodeck, Marie Vasse, Jacqueline M. Wallis, Oryan Zacks
Published in: Microbiome, Issue 8/1, 2020, ISSN 2049-2618
Publisher: Microbiome
DOI: 10.1186/s40168-020-00898-7

Understanding Multicellularity: The Functional Organization of the Intercellular Space

Author(s): Leonardo Bich, Thomas Pradeu, Jean-François Moreau
Published in: Frontiers in Physiology, Issue 10, 2019, ISSN 1664-042X
Publisher: Frontiers Research Foundation
DOI: 10.3389/fphys.2019.01170

CRISPR-Cas immunity: beyond nonself and defence

Author(s): Pradeu, Thomas; Moreau, Jean-François
Published in: Biology and Philosophy, Issue 3, 2019, ISSN 0169-3867
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10539-018-9665-8

Characterizing causality in cancer

Author(s): Elena Rondeau, Nicolas Larmonier, Thomas Pradeu, Andreas Bikfalvi
Published in: eLife, Issue 8, 2019, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.53755

Dissecting the Meanings of “Physiology” to Assess the Vitality of the Discipline

Author(s): Maël Lemoine, Thomas Pradeu
Published in: Physiology, Issue 33/4, 2018, Page(s) 236-245, ISSN 1548-9213
Publisher: American Physiological Society
DOI: 10.1152/physiol.00015.2018

Constitutive immune mechanisms: mediators of host defence and immune regulation

Author(s): Søren R. Paludan, Thomas Pradeu, Seth L. Masters, Trine H. Mogensen
Published in: Nature Reviews Immunology, 2020, ISSN 1474-1733
Publisher: Nature Publishing Group
DOI: 10.1038/s41577-020-0391-5

Robustness and Autonomy in Biological Systems: How Regulatory Mechanisms Enable Functional Integration, Complexity and Minimal Cognition Through the Action of Second-Order Control Constraints

Author(s): Leonardo Bich
Published in: Biological Robustness - Emerging Perspectives from within the Life Sciences, Issue 23, 2018, Page(s) 123-147, ISBN 978-3-030-01197-0
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-01198-7_6

Jean Gayon, l’histoire, la philosophie et la biologie : Une synthèse moderne

Author(s): Thomas Pradeu
Published in: Philosophie, histoire, biologie: Mélanges offerts à Jean Gayon, 2018, Page(s) 87-102, ISBN 978-2-37361-144-1
Publisher: Editions Matériologiques

Genidentity and Biological Processes

Author(s): Pradeu , Thomas
Published in: Dan Nicholson and John Dupré; Edited by Daniel J. Nicholson and John Dupré. Everything Flows: Towards a Processual Philosophy of Biology , 2018, Issue 4, 2018, ISBN 9780-198779636
Publisher: Oxford University Press
DOI: 10.1093/oso/9780198779636.001.0001

Life is not easily bounded

Author(s): Derek Skillings
Published in: Aeon (this magazine does not accept acknowledgments), 2017
Publisher: Aeon Media Group

Philosophy of Immunology

Author(s): Thomas Pradeu
Published in: Elements in the Philosophy of Biology, 2019, ISBN 9781108616706
Publisher: Cambridge University Press
DOI: 10.1017/9781108616706

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