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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. Among authors: goldman n. 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.
Phylogenomics and bioinformatics of SARS-CoV.
Liò P, Goldman N. Liò P, et al. Among authors: goldman n. Trends Microbiol. 2004 Mar;12(3):106-11. doi: 10.1016/j.tim.2004.01.005. Trends Microbiol. 2004. PMID: 15058277 Free PMC article. Review.
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome.
Margulies EH, Cooper GM, Asimenos G, Thomas DJ, Dewey CN, Siepel A, Birney E, Keefe D, Schwartz AS, Hou M, Taylor J, Nikolaev S, Montoya-Burgos JI, Löytynoja A, Whelan S, Pardi F, Massingham T, Brown JB, Bickel P, Holmes I, Mullikin JC, Ureta-Vidal A, Paten B, Stone EA, Rosenbloom KR, Kent WJ, Bouffard GG, Guan X, Hansen NF, Idol JR, Maduro VV, Maskeri B, McDowell JC, Park M, Thomas PJ, Young AC, Blakesley RW, Muzny DM, Sodergren E, Wheeler DA, Worley KC, Jiang H, Weinstock GM, Gibbs RA, Graves T, Fulton R, Mardis ER, Wilson RK, Clamp M, Cuff J, Gnerre S, Jaffe DB, Chang JL, Lindblad-Toh K, Lander ES, Hinrichs A, Trumbower H, Clawson H, Zweig A, Kuhn RM, Barber G, Harte R, Karolchik D, Field MA, Moore RA, Matthewson CA, Schein JE, Marra MA, Antonarakis SE, Batzoglou S, Goldman N, Hardison R, Haussler D, Miller W, Pachter L, Green ED, Sidow A. Margulies EH, et al. Among authors: goldman n. Genome Res. 2007 Jun;17(6):760-74. doi: 10.1101/gr.6034307. Genome Res. 2007. PMID: 17567995 Free PMC article.
Mutation rates and selection on synonymous mutations in SARS-CoV-2.
De Maio N, Walker CR, Turakhia Y, Lanfear R, Corbett-Detig R, Goldman N. De Maio N, et al. Among authors: goldman n. bioRxiv [Preprint]. 2021 Jan 14:2021.01.14.426705. doi: 10.1101/2021.01.14.426705. bioRxiv. 2021. PMID: 33469589 Free PMC article. Updated. Preprint.
Want to track pandemic variants faster? Fix the bioinformatics bottleneck.
Hodcroft EB, De Maio N, Lanfear R, MacCannell DR, Minh BQ, Schmidt HA, Stamatakis A, Goldman N, Dessimoz C. Hodcroft EB, et al. Among authors: goldman n. Nature. 2021 Mar;591(7848):30-33. doi: 10.1038/d41586-021-00525-x. Nature. 2021. PMID: 33649511 No abstract available.
Mutation Rates and Selection on Synonymous Mutations in SARS-CoV-2.
De Maio N, Walker CR, Turakhia Y, Lanfear R, Corbett-Detig R, Goldman N. De Maio N, et al. Among authors: goldman n. Genome Biol Evol. 2021 May 7;13(5):evab087. doi: 10.1093/gbe/evab087. Genome Biol Evol. 2021. PMID: 33895815 Free PMC article.
A phylogenetic approach for weighting genetic sequences.
De Maio N, Alekseyenko AV, Coleman-Smith WJ, Pardi F, Suchard MA, Tamuri AU, Truszkowski J, Goldman N. De Maio N, et al. Among authors: goldman n. BMC Bioinformatics. 2021 May 28;22(1):285. doi: 10.1186/s12859-021-04183-8. BMC Bioinformatics. 2021. PMID: 34049487 Free PMC article.
549 results