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Molecular evidence for SARS-CoV-2 in samples collected from patients with morbilliform eruptions since late 2019 in Lombardy, northern Italy.
Amendola A, Canuti M, Bianchi S, Kumar S, Fappani C, Gori M, Colzani D, Kosakovsky Pond SL, Miura S, Baggieri M, Marchi A, Borghi E, Zuccotti G, Raviglione MC, Magurano F, Tanzi E. Amendola A, et al. Among authors: kosakovsky pond sl. Environ Res. 2022 Dec;215(Pt 1):113979. doi: 10.1016/j.envres.2022.113979. Epub 2022 Aug 25. Environ Res. 2022. PMID: 36029839 Free PMC article.
A new method for inferring timetrees from temporally sampled molecular sequences.
Miura S, Tamura K, Tao Q, Huuki LA, Kosakovsky Pond SL, Priest J, Deng J, Kumar S. Miura S, et al. Among authors: kosakovsky pond sl. PLoS Comput Biol. 2020 Jan 17;16(1):e1007046. doi: 10.1371/journal.pcbi.1007046. eCollection 2020 Jan. PLoS Comput Biol. 2020. PMID: 31951607 Free PMC article.
Statistics and truth in phylogenomics.
Kumar S, Filipski AJ, Battistuzzi FU, Kosakovsky Pond SL, Tamura K. Kumar S, et al. Among authors: kosakovsky pond sl. Mol Biol Evol. 2012 Feb;29(2):457-72. doi: 10.1093/molbev/msr202. Epub 2011 Aug 26. Mol Biol Evol. 2012. PMID: 21873298 Free PMC article. Review.
Viral CpG Deficiency Provides No Evidence That Dogs Were Intermediate Hosts for SARS-CoV-2.
Pollock DD, Castoe TA, Perry BW, Lytras S, Wade KJ, Robertson DL, Holmes EC, Boni MF, Kosakovsky Pond SL, Parry R, Carlton EJ, Wood JLN, Pennings PS, Goldstein RA. Pollock DD, et al. Among authors: kosakovsky pond sl. Mol Biol Evol. 2020 Sep 1;37(9):2706-2710. doi: 10.1093/molbev/msaa178. Mol Biol Evol. 2020. PMID: 32658964 Free PMC article.
The biological and clinical significance of emerging SARS-CoV-2 variants.
Tao K, Tzou PL, Nouhin J, Gupta RK, de Oliveira T, Kosakovsky Pond SL, Fera D, Shafer RW. Tao K, et al. Among authors: kosakovsky pond sl. Nat Rev Genet. 2021 Dec;22(12):757-773. doi: 10.1038/s41576-021-00408-x. Epub 2021 Sep 17. Nat Rev Genet. 2021. PMID: 34535792 Free PMC article. Review.
The emergence and ongoing convergent evolution of the SARS-CoV-2 N501Y lineages.
Martin DP, Weaver S, Tegally H, San JE, Shank SD, Wilkinson E, Lucaci AG, Giandhari J, Naidoo S, Pillay Y, Singh L, Lessells RJ; NGS-SA; COVID-19 Genomics UK (COG-UK); Gupta RK, Wertheim JO, Nekturenko A, Murrell B, Harkins GW, Lemey P, MacLean OA, Robertson DL, de Oliveira T, Kosakovsky Pond SL. Martin DP, et al. Among authors: kosakovsky pond sl. Cell. 2021 Sep 30;184(20):5189-5200.e7. doi: 10.1016/j.cell.2021.09.003. Epub 2021 Sep 7. Cell. 2021. PMID: 34537136 Free PMC article.
Predicting the mutational drivers of future SARS-CoV-2 variants of concern.
Maher MC, Bartha I, Weaver S, di Iulio J, Ferri E, Soriaga L, Lempp FA, Hie BL, Bryson B, Berger B, Robertson DL, Snell G, Corti D, Virgin HW, Kosakovsky Pond SL, Telenti A. Maher MC, et al. Among authors: kosakovsky pond sl. Sci Transl Med. 2022 Feb 23;14(633):eabk3445. doi: 10.1126/scitranslmed.abk3445. Epub 2022 Feb 23. Sci Transl Med. 2022. PMID: 35014856 Free PMC article.
Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa.
Viana R, Moyo S, Amoako DG, Tegally H, Scheepers C, Althaus CL, Anyaneji UJ, Bester PA, Boni MF, Chand M, Choga WT, Colquhoun R, Davids M, Deforche K, Doolabh D, du Plessis L, Engelbrecht S, Everatt J, Giandhari J, Giovanetti M, Hardie D, Hill V, Hsiao NY, Iranzadeh A, Ismail A, Joseph C, Joseph R, Koopile L, Kosakovsky Pond SL, Kraemer MUG, Kuate-Lere L, Laguda-Akingba O, Lesetedi-Mafoko O, Lessells RJ, Lockman S, Lucaci AG, Maharaj A, Mahlangu B, Maponga T, Mahlakwane K, Makatini Z, Marais G, Maruapula D, Masupu K, Matshaba M, Mayaphi S, Mbhele N, Mbulawa MB, Mendes A, Mlisana K, Mnguni A, Mohale T, Moir M, Moruisi K, Mosepele M, Motsatsi G, Motswaledi MS, Mphoyakgosi T, Msomi N, Mwangi PN, Naidoo Y, Ntuli N, Nyaga M, Olubayo L, Pillay S, Radibe B, Ramphal Y, Ramphal U, San JE, Scott L, Shapiro R, Singh L, Smith-Lawrence P, Stevens W, Strydom A, Subramoney K, Tebeila N, Tshiabuila D, Tsui J, van Wyk S, Weaver S, Wibmer CK, Wilkinson E, Wolter N, Zarebski AE, Zuze B, Goedhals D, Preiser W, Treurnicht F, Venter M, Williamson C, Pybus OG, Bhiman J, Glass A, Martin DP, Rambaut A, Gaseitsiwe S, von Gottberg A, de Oliveira T. Viana R, et al. Among authors: kosakovsky pond sl. Nature. 2022 Mar;603(7902):679-686. doi: 10.1038/s41586-022-04411-y. Epub 2022 Jan 7. Nature. 2022. PMID: 35042229 Free PMC article.
158 results