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2024	Common Methods for Phylogenetic Tree Construction and Their Implementation in R Bioengineering Yue Zou, Zixuan Zhang, Yujie Zeng, Hanyue Hu, Youjin Hao, Sheng Huang, Bo Li
2023	Phylogenetic congruence, conflict and consilience between molecular and morphological data BMC Ecology and Evolution Joseph N Keating, Russell J Garwood, Robert S Sansom
2023	Ancient gene linkages support ctenophores as sister to other animals Nature Darrin T. Schultz, Steven H. D. Haddock, Jessen V. Bredeson, Richard E. Green, Oleg Simakov, Daniel S. Rokhsar
2023	Improving Orthologous Signal and Model Fit in Datasets Addressing the Root of the Animal Phylogeny Molecular Biology and Evolution Charley G P McCarthy, Peter O Mulhair, Karen Siu-Ting, Christopher J Creevey, Mary J O’Connell
2023	Confusion will be my epitaph: genome-scale discordance stifles phylogenetic resolution of Holothuroidea Proceedings of the Royal Society B: Biological Sciences Nicolás Mongiardino Koch, Ekin Tilic, Allison K. Miller, Josefin Stiller, Greg W. Rouse
2023	Statistical evaluation of character support reveals the instability of higher-level dinosaur phylogeny Scientific Reports David Černý, Ashley L. Simonoff
2023	Assessing sequence heterogeneity in Chlorellaceae DNA barcode markers for phylogenetic inference Journal of Genetic Engineering and Biotechnology Ee Bhei Wong, Nurhaida Kamaruddin, Marina Mokhtar, Norjan Yusof, Raja Farhana R. Khairuddin
2022	Filtering artifactual signal increases support for Xenacoelomorpha and Ambulacraria sister relationship in the animal tree of life Current Biology Peter O. Mulhair, Charley G.P. McCarthy, Karen Siu-Ting, Christopher J. Creevey, Mary J. O’Connell
2022	Concordance-Based Approaches for the Inference of Relationships and Molecular Rates with Phylogenomic Data Sets Systematic Biology Joseph F Walker, Stephen A Smith, Richard G J Hodel, Edwige Moyroud
2022	A Practical Guide to Design and Assess a Phylogenomic Study Genome Biology and Evolution Jesus Lozano-Fernandez
2021	Evolution of mechanisms controlling epithelial morphogenesis across animals: new insights from dissociation-reaggregation experiments in the sponge Oscarella lobularis BMC Ecology and Evolution Amélie Vernale, Maria Mandela Prünster, Fabio Marchianò, Henry Debost, Nicolas Brouilly, Caroline Rocher, Dominique Massey-Harroche, Emmanuelle Renard, André Le Bivic, Bianca H. Habermann, Carole Borchiellini
2021	The Roles of Protein Structure, Taxon Sampling, and Model Complexity in Phylogenomics: A Case Study Focused on Early Animal Divergences Biophysica Akanksha Pandey, Edward L. Braun
2021	Enriching for Orthologs Increases Support for Xenacoelomorpha and Ambulacraria Sister Relationship SSRN Electronic Journal Peter Mulhair, Charley GP McCarthy, Karen Siu Ting, Chris Creevey, Mary Josephine O'Connell
2021	Resolving Recalcitrant Clades in the Pantropical Ochnaceae: Insights From Comparative Phylogenomics of Plastome and Nuclear Genomic Data Derived From Targeted Sequencing Frontiers in Plant Science Julio V. Schneider, Juraj Paule, Tanja Jungcurt, Domingos Cardoso, André Márcio Amorim, Thomas Berberich, Georg Zizka
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