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Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable.
Mavian C, Pond SK, Marini S, Magalis BR, Vandamme AM, Dellicour S, Scarpino SV, Houldcroft C, Villabona-Arenas J, Paisie TK, Trovão NS, Boucher C, Zhang Y, Scheuermann RH, Gascuel O, Lam TT, Suchard MA, Abecasis A, Wilkinson E, de Oliveira T, Bento AI, Schmidt HA, Martin D, Hadfield J, Faria N, Grubaugh ND, Neher RA, Baele G, Lemey P, Stadler T, Albert J, Crandall KA, Leitner T, Stamatakis A, Prosperi M, Salemi M. Mavian C, et al. Among authors: de oliveira t. Proc Natl Acad Sci U S A. 2020 Jun 9;117(23):12522-12523. doi: 10.1073/pnas.2007295117. Epub 2020 May 7. Proc Natl Acad Sci U S A. 2020. PMID: 32381734 Free PMC article. No abstract available.
Different epidemic potentials of the HIV-1B and C subtypes.
Salemi M, de Oliveira T, Soares MA, Pybus O, Dumans AT, Vandamme AM, Tanuri A, Cassol S, Fitch WM. Salemi M, et al. Among authors: de oliveira t. J Mol Evol. 2005 May;60(5):598-605. doi: 10.1007/s00239-004-0206-5. J Mol Evol. 2005. PMID: 15983869
The HIV type 1 epidemic in Bulgaria involves multiple subtypes and is sustained by continuous viral inflow from West and East European countries.
Salemi M, Goodenow MM, Montieri S, de Oliveira T, Santoro MM, Beshkov D, Alexiev I, Elenkov I, Elenkov I, Yakimova T, Varleva T, Rezza G, Ciccozzi M. Salemi M, et al. Among authors: de oliveira t. AIDS Res Hum Retroviruses. 2008 Jun;24(6):771-9. doi: 10.1089/aid.2007.0181. AIDS Res Hum Retroviruses. 2008. PMID: 18544022 Free PMC article.
Searching for virus phylotypes.
Chevenet F, Jung M, Peeters M, de Oliveira T, Gascuel O. Chevenet F, et al. Among authors: de oliveira t. Bioinformatics. 2013 Mar 1;29(5):561-70. doi: 10.1093/bioinformatics/btt010. Epub 2013 Jan 17. Bioinformatics. 2013. PMID: 23329414 Free PMC article.
974 results