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Using earth mover's distance for viral outbreak investigations.
Melnyk A, Knyazev S, Vannberg F, Bunimovich L, Skums P, Zelikovsky A. Melnyk A, et al. Among authors: skums p. BMC Genomics. 2020 Dec 16;21(Suppl 5):582. doi: 10.1186/s12864-020-06982-4. BMC Genomics. 2020. PMID: 33327932 Free PMC article.
Reconstructing viral quasispecies from NGS amplicon reads.
Mancuso N, Tork B, Skums P, Ganova-Raeva L, Măndoiu I, Zelikovsky A. Mancuso N, et al. Among authors: skums p. In Silico Biol. 2011-2012;11(5-6):237-49. doi: 10.3233/ISB-2012-0458. In Silico Biol. 2011. PMID: 23202425
GHOST: global hepatitis outbreak and surveillance technology.
Longmire AG, Sims S, Rytsareva I, Campo DS, Skums P, Dimitrova Z, Ramachandran S, Medrzycki M, Thai H, Ganova-Raeva L, Lin Y, Punkova LT, Sue A, Mirabito M, Wang S, Tracy R, Bolet V, Sukalac T, Lynberg C, Khudyakov Y. Longmire AG, et al. Among authors: skums p. BMC Genomics. 2017 Dec 6;18(Suppl 10):916. doi: 10.1186/s12864-017-4268-3. BMC Genomics. 2017. PMID: 29244005 Free PMC article.
QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data.
Skums P, Zelikovsky A, Singh R, Gussler W, Dimitrova Z, Knyazev S, Mandric I, Ramachandran S, Campo D, Jha D, Bunimovich L, Costenbader E, Sexton C, O'Connor S, Xia GL, Khudyakov Y. Skums P, et al. Bioinformatics. 2018 Jan 1;34(1):163-170. doi: 10.1093/bioinformatics/btx402. Bioinformatics. 2018. PMID: 29304222 Free PMC article.
67 results