nextflu: real-time tracking of seasonal influenza virus evolution in humans by Neher, Richard A., Bedford, Trevor

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Reassortment between Influenza B Lineages and the Emergence of a Coadapted PB1–PB2–HA Gene Complex by Dudas, Gytis, Bedford, Trevor, Lycett, Samantha, Rambaut, Andrew

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Time dependence of evolutionary metrics during the 2009 pandemic influenza virus outbreak by Meyer, Austin G., Spielman, Stephanie J., Bedford, Trevor, Wilke, Claus O.

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Seasonality in the migration and establishment of H3N2 Influenza lineages with epidemic growth and decline by Zinder, Daniel, Bedford, Trevor, Baskerville, Edward B, Woods, Robert J, Roy, Manojit, Pascual, Mercedes

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Quantifying and Mitigating the Effect of Preferential Sampling on Phylodynamic Inference by Karcher, Michael D., Palacios, Julia A., Bedford, Trevor, Suchard, Marc A., Minin, Vladimir N.

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Eight challenges in phylodynamic inference by Frost, Simon D.W., Pybus, Oliver G., Gog, Julia R., Viboud, Cecile, Bonhoeffer, Sebastian, Bedford, Trevor

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Quantifying evolutionary constraints on B-cell affinity maturation by McCoy, Connor O., Bedford, Trevor, Minin, Vladimir N., Bradley, Philip, Robins, Harlan, Matsen, Frederick A.

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Identification of Low- and High-Impact Hemagglutinin Amino Acid Substitutions That Drive Antigenic Drift of Influenza A(H1N1) Viruses by Harvey, William T., Benton, Donald J., Gregory, Victoria, Hall, James P. J., Daniels, Rodney S., Bedford, Trevor, Haydon, Daniel T., Hay, Alan J., McCauley, John W., Reeve, Richard

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Persistent HIV-1 replication maintains the tissue reservoir during therapy by Lorenzo-Redondo, Ramon, Fryer, Helen R., Bedford, Trevor, Kim, Eun-Young, Archer, John, Pond, Sergei L. Kosakovsky, Chung, Yoon-Seok, Penugonda, Sudhir, Chipman, Jeffrey, Fletcher, Courtney V., Schacker, Timothy W., Malim, Michael H., Rambaut, Andrew, Haase, Ashley T., McLean, Angela R., Wolinsky, Steven M.

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Global circulation patterns of seasonal influenza viruses vary with antigenic drift by Bedford, Trevor, Riley, Steven, Barr, Ian G., Broor, Shobha, Chadha, Mandeep, Cox, Nancy J., Daniels, Rodney S., Gunasekaran, C. Palani, Hurt, Aeron C., Kelso, Anne, Klimov, Alexander, Lewis, Nicola S., Li, Xiyan, McCauley, John W., Odagiri, Takato, Potdar, Varsha, Rambaut, Andrew, Shu, Yuelong, Skepner, Eugene, Smith, Derek J., Suchard, Marc A., Tashiro, Masato, Wang, Dayan, Xu, Xiyan, Lemey, Philippe, Russell, Colin A.

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Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone by Park, Daniel J., Dudas, Gytis, Wohl, Shirlee, Goba, Augustine, Whitmer, Shannon L.M., Andersen, Kristian G., Sealfon, Rachel S., Ladner, Jason T., Kugelman, Jeffrey R., Matranga, Christian B., Winnicki, Sarah M., Qu, James, Gire, Stephen K., Gladden-Young, Adrianne, Jalloh, Simbirie, Nosamiefan, Dolo, Yozwiak, Nathan L., Moses, Lina M., Jiang, Pan-Pan, Lin, Aaron E., Schaffner, Stephen F., Bird, Brian, Towner, Jonathan, Mamoh, Mambu, Gbakie, Michael, Kanneh, Lansana, Kargbo, David, Massally, James L.B., Kamara, Fatima K., Konuwa, Edwin, Sellu, Josephine, Jalloh, Abdul A., Mustapha, Ibrahim, Foday, Momoh, Yillah, Mohamed, Erickson, Bobbie R., Sealy, Tara, Blau, Dianna, Paddock, Christopher, Brault, Aaron, Amman, Brian, Basile, Jane, Bearden, Scott, Belser, Jessica, Bergeron, Eric, Campbell, Shelley, Chakrabarti, Ayan, Dodd, Kimberly, Flint, Mike, Gibbons, Aridth, Goodman, Christin, Klena, John, McMullan, Laura, Morgan, Laura, Russell, Brandy, Salzer, Johanna, Sanchez, Angela, Wang, David, Jungreis, Irwin, Tomkins-Tinch, Christopher, Kislyuk, Andrey, Lin, Michael F., Chapman, Sinead, MacInnis, Bronwyn, Matthews, Ashley, Bochicchio, James, Hensley, Lisa E., Kuhn, Jens H., Nusbaum, Chad, Schieffelin, John S., Birren, Bruce W., Forget, Marc, Nichol, Stuart T., Palacios, Gustavo F., Ndiaye, Daouda, Happi, Christian, Gevao, Sahr M., Vandi, Mohamed A., Kargbo, Brima, Holmes, Edward C., Bedford, Trevor, Gnirke, Andreas, Ströher, Ute, Rambaut, Andrew, Garry, Robert F., Sabeti, Pardis C.

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