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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.
Pandemic-scale phylogenetics.
Ye C, Thornlow B, Kramer A, McBroome J, Hinrichs A, Corbett-Detig R, Turakhia Y. Ye C, et al. bioRxiv [Preprint]. 2021 Dec 6:2021.12.03.470766. doi: 10.1101/2021.12.03.470766. bioRxiv. 2021. PMID: 34927180 Free PMC article. Preprint.
Ultrafast Sample Placement on Existing Trees (UShER) Empowers Real-Time Phylogenetics for the SARS-CoV-2 Pandemic.
Turakhia Y, Thornlow B, Hinrichs AS, De Maio N, Gozashti L, Lanfear R, Haussler D, Corbett-Detig R. Turakhia Y, et al. bioRxiv [Preprint]. 2020 Sep 28:2020.09.26.314971. doi: 10.1101/2020.09.26.314971. bioRxiv. 2020. Update in: Nat Genet. 2021 Jun;53(6):809-816. doi: 10.1038/s41588-021-00862-7 PMID: 33024970 Free PMC article. Updated. Preprint.
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.
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