The re-emergence of H1N1 influenza virus in 1977: a cautionary tale for estimating divergence times using biologically unrealistic sampling dates. Bằng Joel O Wertheim

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A challenge to the ancient origin of SIVagm based on African green monkey mitochondrial genomes. Bằng Joel O Wertheim, Michael Worobey

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Incorporating metadata in HIV transmission network reconstruction: A machine learning feasibility assessment. Bằng Sepideh Mazrouee, Susan J Little, Joel O Wertheim

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Using HIV transmission networks to investigate community effects in HIV prevention trials. Bằng Joel O Wertheim, Sergei L Kosakovsky Pond, Susan J Little, Victor De Gruttola

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Detecting individual sites subject to episodic diversifying selection. Bằng Ben Murrell, Joel O Wertheim, Sasha Moola, Thomas Weighill, Konrad Scheffler, Sergei L Kosakovsky Pond

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Phylogeographic analysis reveals an ancient East African origin of human herpes simplex virus 2 dispersal out-of-Africa Bằng Jennifer L. Havens, Sébastien Calvignac-Spencer, Kevin Merkel, Sonia Burrel, David Boutolleau, Joel O. Wertheim

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Natural selection favoring more transmissible HIV detected in United States molecular transmission network Bằng Joel O. Wertheim, Alexandra M. Oster, William M. Switzer, Chenhua Zhang, Nivedha Panneer, Ellsworth Campbell, Neeraja Saduvala, Jeffrey A. Johnson, Walid Heneine

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Impact of molecular sequence data completeness on HIV cluster detection and a network science approach to enhance detection Bằng Sepideh Mazrouee, Camden J. Hallmark, Ricardo Mora, Natascha Del Vecchio, Rocio Carrasco Hernandez, Michelle Carr, Marlene McNeese, Kayo Fujimoto, Joel O. Wertheim

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Analysis of Hepatitis B Virus Genotype D in Greenland Suggests the Presence of a Novel Quasi-Subgenotype Bằng Adriano de Bernardi Schneider, Carla Osiowy, Reilly Hostager, Henrik Krarup, Henrik Krarup, Henrik Krarup, Malene Børresen, Yasuhito Tanaka, Taylor Morriseau, Joel O. Wertheim

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AUTO-TUNE: selecting the distance threshold for inferring HIV transmission clusters Bằng Steven Weaver, Vanessa M. Dávila Conn, Daniel Ji, Hannah Verdonk, Santiago Ávila-Ríos, Andrew J. Leigh Brown, Joel O. Wertheim, Sergei L. Kosakovsky Pond

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Using HIV networks to inform real time prevention interventions. Bằng Susan J Little, Sergei L Kosakovsky Pond, Christy M Anderson, Jason A Young, Joel O Wertheim, Sanjay R Mehta, Susanne May, Davey M Smith

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Social and Genetic Networks of HIV-1 Transmission in New York City. Bằng Joel O Wertheim, Sergei L Kosakovsky Pond, Lisa A Forgione, Sanjay R Mehta, Ben Murrell, Sharmila Shah, Davey M Smith, Konrad Scheffler, Lucia V Torian

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Tracking SARS-COV-2 variants using Nanopore sequencing in Ukraine in 2021 Bằng Anna Yakovleva, Ganna Kovalenko, Matthew Redlinger, Mariia G. Liulchuk, Eric Bortz, Viktoria I. Zadorozhna, Alla M. Scherbinska, Joel O. Wertheim, Ian Goodfellow, Luke Meredith, Tetyana I. Vasylyeva

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Author Correction: Tracking SARS-COV-2 variants using Nanopore sequencing in Ukraine in 2021 Bằng Anna Yakovleva, Ganna Kovalenko, Matthew Redlinger, Mariia G. Liulchuk, Eric Bortz, Viktoria I. Zadorozhna, Alla M. Scherbinska, Joel O. Wertheim, Ian Goodfellow, Luke Meredith, Tetyana I. Vasylyeva

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Unveiling ecological/evolutionary insights in HIV viral load dynamics: Allowing random slopes to observe correlational changes to CpG-contents and other molecular and clinical pred... Bằng Rocío Carrasco-Hernández, Humberto Valenzuela-Ponce, Maribel Soto-Nava, Claudia García-Morales, Margarita Matías-Florentino, Joel O. Wertheim, Davey M. Smith, Gustavo Reyes-Terán, Santiago Ávila-Ríos

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The role of socio-economic disparities in the relative success and persistence of SARS-CoV-2 variants in New York City in early 2021. Bằng Tetyana I Vasylyeva, Jennifer L Havens, Jade C Wang, Elizabeth Luoma, Gabriel W Hassler, Helly Amin, Steve Di Lonardo, Faten Taki, Enoma Omoregie, Scott Hughes, Joel O Wertheim

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Establishing a framework towards monitoring HCV microelimination among men who have sex with men living with HIV in Germany: A modeling analysis. Bằng Lara K Marquez, Patrick Ingiliz, Christoph Boesecke, Ivanka Krznaric, Knud Schewe, Thomas Lutz, Stefan Mauss, Stefan Christensen, Jürgen K Rockstroh, Sonia Jain, Feng He, Joel O Wertheim, Natasha K Martin

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Establishing a framework towards monitoring HCV microelimination among men who have sex with men living with HIV in Germany: A modeling analysis Bằng Lara K. Marquez, Patrick Ingiliz, Christoph Boesecke, Ivanka Krznaric, Knud Schewe, Thomas Lutz, Stefan Mauss, Stefan Christensen, Jürgen K. Rockstroh, Sonia Jain, Feng He, Joel O. Wertheim, Natasha K. Martin

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Prevalence of resistance-associated substitutions and phylogenetic analysis of hepatitis C virus infection in Russia Bằng Vasily Isakov, Charlotte Hedskog, Joel O. Wertheim, Reilly E. Hostager, Bandita Parhy, Adriano De Bernardi Schneider, Vithika Suri, Hongmei Mo, Natalia Geivandova, Vyacheslav Morozov, Elena Bessonova, Natalya Gankina, Konstantin Zhdanov, Dzhamal Abdurakhmanov, Evguenia Svarovskaia

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HIV Transmission Networks in the San Diego–Tijuana Border Region Bằng Sanjay R. Mehta, Joel O. Wertheim, Kimberly C. Brouwer, Karla D. Wagner, Antoine Chaillon, Steffanie Strathdee, Thomas L. Patterson, Maria G. Rangel, Mlenka Vargas, Ben Murrell, Richard Garfein, Susan J. Little, Davey M. Smith

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