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Barker, Matthew J. and Velasco, Joel D. (2012) Deep Conventionalism about Evolutionary Groups. In: UNSPECIFIED.

Barker, Matthew J. (2018) Species and Other Evolving Lineages as Feedback Systems. Philosophy, Theory, and Practice in Biology, 11 (013). ISSN 2475-3025

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C

Cabrera, Frank (2017) Cladistic Parsimony, Historical Linguistics and Cultural Phylogenetics. Mind and Language, 32 (1). pp. 65-100.

Campero, María Belén and Favre, Cristián and Saborido, Cristian (2020) Dying to live. Cell death as a regulatory process. THEORIA. An International Journal for Theory, History and Foundations of Science, 35 (2). pp. 197-215. ISSN 2171-679X

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D

DiFrisco, James and Jaeger, Johannes (2021) Homology of process: developmental dynamics in comparative biology. [Preprint]

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Doolittle, W. Ford (2018) Speciation without Species: A Final Word. Philosophy, Theory, and Practice in Biology, 11 (014). ISSN 2475-3025

Dunn, Cory D. (2017) Some Liked It Hot: A Hypothesis Regarding Establishment of the Proto-Mitochondrial Endosymbiont During Eukaryogenesis. Journal of Molecular Evolution, 85. pp. 99-106.

E

Esfeld, Michael (2005) The causal homogeneity of biological kinds. [Preprint]

F

Figdor, Carrie (2022) What Could Cognition Be, If Not Human Cognition?: Individuating cognitive abilities in the light of evolution. [Preprint]

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G

Ginnobili, Santiago (2022) Darwinian functional biology. THEORIA. An International Journal for Theory, History and Foundations of Science, 37 (2). pp. 233-255. ISSN 2171-679X

Gouvea, Devin (2018) Reframing the Homology Problem. In: UNSPECIFIED.

Green, Sara and Wolkenhauer , Olaf (2013) Tracing organizing principles: Learning from the history of systems biology. History and Philosophy of the Life Sciences, 35. pp. 553-576.

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H

Haber, Matthew H. (2012) Multilevel Lineages and Multidimensional Trees: The Levels of Lineage and Phylogeny Reconstruction. In: UNSPECIFIED.

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Hazelwood, Caleb (2021) The Species Category as a Scientific Kind. Synthese.

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Houkes, Wybo (2010) Tales of Tools and Trees: Phylogenetic analysis and explanation in evolutionary archaeology. In: UNSPECIFIED.

J

Jones, Nicholaos (2016) Strategies of Explanatory Abstraction in Molecular Systems Biology. In: UNSPECIFIED.

K

Kendig, Catherine (2010) An ontogenetic-ecological conception of species: a new approach to an old idea. In: UNSPECIFIED.

Kunz, Werner and Werning, Markus (2009) The Biological Species as a Gene-Flow Community. Species Essentialism Does Not Imply Species Universalism. In: UNSPECIFIED.

L

Ludwig, David and Banuoku, Daniel Faabelangne and Boogaard, Birgit and El-Hani, Charbel and Guri, Bernard Yangmaadome and Kramm, Matthias and Renck, Vitor and Ressiore C, Adriana and Robles-Pineros, Jairo and Turska, Julia J. (2023) Southern Ontologies. Reorienting Agendas in Social Ontology. [Preprint]

M

Molter, Daniel J (2022) On the ontology of vernal orange slime. Mushroom: The journal of Wild Mushrooming, 28 (4). pp. 6-10. ISSN 0740-8161

N

Nathan, Marco J. (2018) Pluralism is the Answer! What is the Question? Philosophy, Theory, and Practice in Biology, 11 (015). ISSN 2475-3025

O

Okasha, Samir (2023) Does the anti-essentialist consensus about species rest on a mistake? [Preprint]

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P

Pedroso, Makmiller (2018) Forming Lineages by Sticking Together. Philosophy, Theory, and Practice in Biology, 11 (016). ISSN 2475-3025

Pence, Charles H. (2019) Locating Uncertainty in Stochastic Evolutionary Models: Divergence Time Estimation. Biology & Philosophy, 34. p. 21. ISSN 1572-8404

Pradeu, Thomas and Kostyrka, Gladys and Dupré, John (2016) Understanding viruses: Philosophical investigations. Studies in history and philosophy of biological and biomedical sciences. ISSN 1879-2499

Q

Quinn, Aleta (2019) Diagnosing Discordance: Signal in Data, Conflict in Paradigms. Philosophy, Theory, and Practice in Biology, 11 (017). ISSN 2475-3025

R

Roffé, Ariel Jonathan (2020) Dynamic Homology and Circularity in Cladistic Analysis. [Preprint]

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Roughgarden, Joan (2020) Holobiont Evolution: Mathematical Model with Vertical vs. Horizontal Microbiome Transmission. Philosophy, Theory, and Practice in Biology, 12 (002). ISSN 2475-3025

S

Sarma, Gopal P. (2016) Collecting Systematic, Introspective Reports of Pharmacological Effects and Side-Effects. [Preprint]

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Sober, Elliott (2020) Fitness and the Twins. Philosophy, Theory, and Practice in Biology, 12 (001). ISSN 2475-3025

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T

Taylor, Henry (2019) Whales, fish and Alaskan bears: interest-relative taxonomy and kind pluralism in biology. [Preprint]

Turner, Derek (2019) In Defense of Living Fossils. [Preprint]

V

Veit, Walter and Gascoigne, Samuel J L and Salguero-Gómez, Rob (2023) Evolution, Complexity, and Life History Theory. [Preprint]

Velasco, Joel (2008) Species concepts should not conflict with evolutionary history, but often do. [Preprint]

Velasco, Joel (2009) Species, Genes, and the Tree of Life. [Preprint]

Velasco, Joel (2009) When monophyly is not enough: Exclusivity as the key to defining a phylogenetic species concept. [Preprint]

Velasco, Joel D. (2012) The Future of Systematics: Tree-Thinking Without the Tree. [Preprint]

Velasco, Joel D. and Sober, Elliott (2010) Testing for Treeness: Lateral Gene Transfer, Phylogenetic Inference, and Model Selection. [Preprint]

W

Watkins, Aja (2021) Multi-Model Approaches to Phylogenetics: Implications for Idealization. [Preprint]

Wilkins, John S. (2007) The Concept and Causes of Microbial Species. [Preprint]

Wilkins, John S. (2009) Species are not theoretical objects, or, On what there is in biology. [Preprint]

Wilkins, John S. (2010) What is a species? Essences and generation. [Preprint]

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Witteveen, Joeri (2014) Naming and contingency: the type method of biological taxonomy. [Preprint]