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Genome Biology and Evolution|September 19, 2025
Phylogenetic Methods Meet Deep LearningSvitlana Braichenko, Rui Borges, Carolin KosiolMolecular Biology and Evolution|July 9, 2024
Polymorphism-Aware Models in RevBayes: Species Trees, Disentangling Balancing Selection, and GC-Biased Gene ConversionSvitlana Braichenko, Rui Borges, Carolin KosiolJournal of Theoretical Biology|November 13, 2019
Consistency and identifiability of the polymorphism-aware phylogenetic modelsRui Borges, Carolin KosiolJournal of Evolutionary Biology|December 22, 2022
Bait-ER: A Bayesian method to detect targets of selection in Evolve-and-Resequence experimentsCarolina Barata, Rui Borges, Carolin KosiolMolecular Biology and Evolution|April 26, 2024
The Patterns of Codon Usage between Chordates and Arthropods are Different but Co-evolving with Mutational BiasesIoanna Kotari, Carolin Kosiol, Rui BorgesGenetics|June 1, 2019
Quantifying GC-Biased Gene Conversion in Great Ape Genomes Using Polymorphism-Aware ModelsRui Borges, Gergely J Szöllősi, Carolin KosiolGenome Biology and Evolution|January 4, 2022
Nucleotide Usage Biases Distort Inferences of the Species TreeRui Borges, Bastien Boussau, Gergely J Szöllősi, et al.Journal of the Royal Society, Interface|October 5, 2021
Distinguishing between models of mammalian gene expression: telegraph-like models versus mechanistic modelsSvitlana Braichenko, James Holehouse, Ramon GrimaMethods in Molecular Biology (Clifton, N.J.)|March 9, 2012
Selection on the protein-coding genomeCarolin Kosiol, Maria AnisimovaMolecular Biology and Evolution|October 17, 2008
Investigating protein-coding sequence evolution with probabilistic codon substitution modelsMaria Anisimova, Carolin KosiolPageof 6