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Pandemic-scale phylogenetics.
Ye C, Thornlow B, Kramer A, McBroome J, Hinrichs A, Corbett-Detig R, Turakhia Y. Ye C, et al. Among authors: turakhia y. bioRxiv [Preprint]. 2021 Dec 6:2021.12.03.470766. doi: 10.1101/2021.12.03.470766. bioRxiv. 2021. PMID: 34927180 Free PMC article. Preprint.
Maximum likelihood pandemic-scale phylogenetics.
De Maio N, Kalaghatgi P, Turakhia Y, Corbett-Detig R, Minh BQ, Goldman N. De Maio N, et al. Among authors: turakhia y. Nat Genet. 2023 May;55(5):746-752. doi: 10.1038/s41588-023-01368-0. Epub 2023 Apr 10. Nat Genet. 2023. PMID: 37038003 Free PMC article.
Stability of SARS-CoV-2 phylogenies.
Turakhia Y, De Maio N, Thornlow B, Gozashti L, Lanfear R, Walker CR, Hinrichs AS, Fernandes JD, Borges R, Slodkowicz G, Weilguny L, Haussler D, Goldman N, Corbett-Detig R. Turakhia Y, et al. PLoS Genet. 2020 Nov 18;16(11):e1009175. doi: 10.1371/journal.pgen.1009175. eCollection 2020 Nov. PLoS Genet. 2020. PMID: 33206635 Free PMC article.
Pandemic-scale phylogenomics reveals the SARS-CoV-2 recombination landscape.
Turakhia Y, Thornlow B, Hinrichs A, McBroome J, Ayala N, Ye C, Smith K, De Maio N, Haussler D, Lanfear R, Corbett-Detig R. Turakhia Y, et al. Nature. 2022 Sep;609(7929):994-997. doi: 10.1038/s41586-022-05189-9. Epub 2022 Aug 11. Nature. 2022. PMID: 35952714 Free PMC article.
DecentTree: scalable Neighbour-Joining for the genomic era.
Wang W, Barbetti J, Wong T, Thornlow B, Corbett-Detig R, Turakhia Y, Lanfear R, Minh BQ. Wang W, et al. Among authors: turakhia y. Bioinformatics. 2023 Sep 2;39(9):btad536. doi: 10.1093/bioinformatics/btad536. Bioinformatics. 2023. PMID: 37651445 Free PMC article.
phastSim: Efficient simulation of sequence evolution for pandemic-scale datasets.
De Maio N, Boulton W, Weilguny L, Walker CR, Turakhia Y, Corbett-Detig R, Goldman N. De Maio N, et al. Among authors: turakhia y. PLoS Comput Biol. 2022 Apr 29;18(4):e1010056. doi: 10.1371/journal.pcbi.1010056. eCollection 2022 Apr. PLoS Comput Biol. 2022. PMID: 35486906 Free PMC article.
30 results