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Accommodating individual travel history, global mobility, and unsampled diversity in phylogeography: a SARS-CoV-2 case study.
Lemey P, Hong S, Hill V, Baele G, Poletto C, Colizza V, O'Toole Á, McCrone JT, Andersen KG, Worobey M, Nelson MI, Rambaut A, Suchard MA. Lemey P, et al. Among authors: hong s. bioRxiv [Preprint]. 2020 Jun 23:2020.06.22.165464. doi: 10.1101/2020.06.22.165464. bioRxiv. 2020. Update in: Nat Commun. 2020 Oct 9;11(1):5110. doi: 10.1038/s41467-020-18877-9. PMID: 32596695 Free PMC article. Updated. Preprint.
A Phylodynamic Workflow to Rapidly Gain Insights into the Dispersal History and Dynamics of SARS-CoV-2 Lineages.
Dellicour S, Durkin K, Hong SL, Vanmechelen B, Martí-Carreras J, Gill MS, Meex C, Bontems S, André E, Gilbert M, Walker C, Maio N, Faria NR, Hadfield J, Hayette MP, Bours V, Wawina-Bokalanga T, Artesi M, Baele G, Maes P. Dellicour S, et al. Among authors: hong sl. Mol Biol Evol. 2021 Apr 13;38(4):1608-1613. doi: 10.1093/molbev/msaa284. Mol Biol Evol. 2021. PMID: 33316043 Free PMC article.
SARS-CoV-2 European resurgence foretold: interplay of introductions and persistence by leveraging genomic and mobility data.
Lemey P, Ruktanonchai N, Hong SL, Colizza V, Poletto C, Van den Broeck F, Gill MS, Ji X, Levasseur A, Sadilek A, Lai S, Tatem AJ, Baele G, Suchard MA, Dellicour S. Lemey P, et al. Among authors: hong sl. Res Sq [Preprint]. 2021 Feb 10:rs.3.rs-208849. doi: 10.21203/rs.3.rs-208849/v1. Res Sq. 2021. Update in: Nature. 2021 Jul;595(7869):713-717. doi: 10.1038/s41586-021-03754-2. PMID: 33594355 Free PMC article. Updated. Preprint.
Dispersal dynamics of SARS-CoV-2 lineages during the first epidemic wave in New York City.
Dellicour S, Hong SL, Vrancken B, Chaillon A, Gill MS, Maurano MT, Ramaswami S, Zappile P, Marier C, Harkins GW, Baele G, Duerr R, Heguy A. Dellicour S, et al. Among authors: hong sl. PLoS Pathog. 2021 May 20;17(5):e1009571. doi: 10.1371/journal.ppat.1009571. eCollection 2021 May. PLoS Pathog. 2021. PMID: 34015049 Free PMC article.
Untangling introductions and persistence in COVID-19 resurgence in Europe.
Lemey P, Ruktanonchai N, Hong SL, Colizza V, Poletto C, Van den Broeck F, Gill MS, Ji X, Levasseur A, Oude Munnink BB, Koopmans M, Sadilek A, Lai S, Tatem AJ, Baele G, Suchard MA, Dellicour S. Lemey P, et al. Among authors: hong sl. Nature. 2021 Jul;595(7869):713-717. doi: 10.1038/s41586-021-03754-2. Epub 2021 Jun 30. Nature. 2021. PMID: 34192736 Free PMC article.
Variant Analysis of SARS-CoV-2 Genomes from Belgian Military Personnel Engaged in Overseas Missions and Operations.
Pirnay JP, Selhorst P, Hong SL, Cochez C, Potter B, Maes P, Petrillo M, Dudas G, Claes V, Van der Beken Y, Verbeken G, Degueldre J, Dellicour S, Cuypers L, T'Sas F, Van den Eede G, Verhasselt B, Weuts W, Smets C, Mertens J, Geeraerts P, Ariën KK, André E, Neirinckx P, Soentjens P, Baele G. Pirnay JP, et al. Among authors: hong sl. Viruses. 2021 Jul 13;13(7):1359. doi: 10.3390/v13071359. Viruses. 2021. PMID: 34372565 Free PMC article.
Exploiting genomic surveillance to map the spatio-temporal dispersal of SARS-CoV-2 spike mutations in Belgium across 2020.
Bollen N, Artesi M, Durkin K, Hong SL, Potter B, Boujemla B, Vanmechelen B, Martí-Carreras J, Wawina-Bokalanga T, Meex C, Bontems S, Hayette MP, André E, Maes P, Bours V, Baele G, Dellicour S. Bollen N, et al. Among authors: hong sl. Sci Rep. 2021 Sep 17;11(1):18580. doi: 10.1038/s41598-021-97667-9. Sci Rep. 2021. PMID: 34535691 Free PMC article.
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