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The genomic evolutionary dynamics and global circulation patterns of respiratory syncytial virus.
Langedijk AC, Vrancken B, Lebbink RJ, Wilkins D, Kelly EJ, Baraldi E, Mascareñas de Los Santos AH, Danilenko DM, Choi EH, Palomino MA, Chi H, Keller C, Cohen R, Papenburg J, Pernica J, Greenough A, Richmond P, Martinón-Torres F, Heikkinen T, Stein RT, Hosoya M, Nunes MC, Verwey C, Evers A, Kragten-Tabatabaie L, Suchard MA, Kosakovsky Pond SL, Poletto C, Colizza V, Lemey P, Bont LJ; INFORM-RSV Study Group. Langedijk AC, et al. Among authors: kosakovsky pond sl. Nat Commun. 2024 Apr 10;15(1):3083. doi: 10.1038/s41467-024-47118-6. Nat Commun. 2024. PMID: 38600104 Free PMC article.
Identification of Evolutionary Trajectories Shared across Human Betacoronaviruses.
Escalera-Zamudio M, Kosakovsky Pond SL, Martínez de la Viña N, Gutiérrez B, Inward RPD, Thézé J, van Dorp L, Castelán-Sánchez HG, Bowden TA, Pybus OG, Hulswit RJG. Escalera-Zamudio M, et al. Among authors: kosakovsky pond sl. Genome Biol Evol. 2023 Jun 1;15(6):evad076. doi: 10.1093/gbe/evad076. Genome Biol Evol. 2023. PMID: 37220645 Free PMC article.
Sierra SARS-CoV-2 sequence and antiviral resistance analysis program.
Tzou PL, Tao K, Sahoo MK, Kosakovsky Pond SL, Pinsky BA, Shafer RW. Tzou PL, et al. Among authors: kosakovsky pond sl. J Clin Virol. 2022 Dec;157:105323. doi: 10.1016/j.jcv.2022.105323. Epub 2022 Oct 22. J Clin Virol. 2022. PMID: 36334368 Free PMC article.
Ecological diversification of sea catfishes is accompanied by genome-wide signatures of positive selection.
Rincon-Sandoval M, De-Kayne R, Shank SD, Pirro S, Ko'ou A, Abueg L, Tracey A, Mountcastle J, O'Toole B, Balacco J, Formenti G, Jarvis ED, Arcila D, Kosakovsky Pond SL, Davis A, Bloom DD, Betancur-R R. Rincon-Sandoval M, et al. Among authors: kosakovsky pond sl. Nat Commun. 2024 Nov 20;15(1):10040. doi: 10.1038/s41467-024-54184-3. Nat Commun. 2024. PMID: 39567489 Free PMC article.
AUTO-TUNE: selecting the distance threshold for inferring HIV transmission clusters.
Weaver S, Dávila Conn VM, Ji D, Verdonk H, Ávila-Ríos S, Leigh Brown AJ, Wertheim JO, Kosakovsky Pond SL. Weaver S, et al. Among authors: kosakovsky pond sl. Front Bioinform. 2024 Jul 10;4:1400003. doi: 10.3389/fbinf.2024.1400003. eCollection 2024. Front Bioinform. 2024. PMID: 39086842 Free PMC article.
151 results