A brief history of bird flu von Lycett, Samantha J, Duchatel, Florian, Digard, Paul

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Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic von Guan, Yi, Rambaut, Andrew, Smith, Gavin J. D, Vijaykrishna, Dhanasekaran, Bahl, Justin, Lycett, Samantha J, Worobey, Michael, Pybus, Oliver G, Ma, Siu Kit, Cheung, Chung Lam, Raghwani, Jayna, Bhatt, Samir, Peiris, J. S. Malik

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The genesis and source of the H7N9 influenza viruses causing human infections in China von Lam, Tommy Tsan-Yuk, Wang, Jia, Shen, Yongyi, Zhou, Boping, Duan, Lian, Cheung, Chung-Lam, Ma, Chi, Lycett, Samantha J., Leung, Connie Yin-Hung, Chen, Xinchun, Li, Lifeng, Hong, Wenshan, Chai, Yujuan, Zhou, Linlin, Liang, Huyi, Ou, Zhihua, Liu, Yongmei, Farooqui, Amber, Kelvin, David J., Poon, Leo L. M., Smith, David K., Pybus, Oliver G., Leung, Gabriel M., Shu, Yuelong, Webster, Robert G., Webby, Richard J., Peiris, Joseph S. M., Rambaut, Andrew, Zhu, Huachen, Guan, Yi

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Transmission Network Parameters Estimated From HIV Sequences for a Nationwide Epidemic von Brown, Andrew J. Leigh, Lycett, Samantha J., Weinert, Lucy, Hughes, Gareth J., Fearnhill, Esther, Dunn, David T.

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Molecular phylodynamics of the heterosexual HIV epidemic in the United Kingdom von Hughes, Gareth J, Fearnhill, Esther, Dunn, David, Lycett, Samantha J, Rambaut, Andrew, Leigh Brown, Andrew J

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Combining genomics and epidemiology to analyse bi-directional transmission of Mycobacterium bovis in a multi-host system von Crispell, Joseph, Benton, Clare H, Balaz, Daniel, De Maio, Nicola, Ahkmetova, Assel, Allen, Adrian, Biek, Roman, Presho, Eleanor L, Dale, James, Hewinson, Glyn, Lycett, Samantha J, Nunez-Garcia, Javier, Skuce, Robin A, Trewby, Hannah, Wilson, Daniel J, Zadoks, Ruth N, Delahay, Richard J, Kao, Rowland Raymond

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Genomic and functional determinants of host spectrum in Group B Streptococcus von Crestani, Chiara, Forde, Taya L, Bell, John, Lycett, Samantha J, Oliveira, Laura M A, Pinto, Tatiana C A, Cobo-Ángel, Claudia G, Ceballos-Márquez, Alejandro, Phuoc, Nguyen N, Sirimanapong, Wanna, Chen, Swaine L, Jamrozy, Dorota, Bentley, Stephen D, Fontaine, Michael, Zadoks, Ruth N

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Determining the phylogenetic and phylogeographic origin of highly pathogenic avian influenza (H7N3) in Mexico von Lu, Lu, Lycett, Samantha J, Leigh Brown, Andrew J

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Identifying likely transmissions in Mycobacterium bovis infected populations of cattle and badgers using the Kolmogorov Forward Equations von Rossi, Gianluigi, Crispell, Joseph, Balaz, Daniel, Lycett, Samantha J., Benton, Clare H., Delahay, Richard J., Kao, Rowland R.

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Unraveling the epidemiology of Mycobacterium bovis using whole-genome sequencing combined with environmental and demographic data von Rossi, Gianluigi, Shih, Barbara Bo-Ju, Egbe, Nkongho Franklyn, Motta, Paolo, Duchatel, Florian, Kelly, Robert Francis, Ndip, Lucy, Sander, Melissa, Tanya, Vincent Ngwang, Lycett, Samantha J, Bronsvoort, Barend Mark, Muwonge, Adrian

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Investigation of Influenza Virus Polymerase Activity in Pig Cells von Moncorgé, Olivier, Long, Jason S., Cauldwell, Anna V., Zhou, Hongbo, Lycett, Samantha J., Barclay, Wendy S.

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Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity von Thomson, Emma C., Rosen, Laura E., Shepherd, James G., Spreafico, Roberto, da Silva Filipe, Ana, Wojcechowskyj, Jason A., Davis, Chris, Piccoli, Luca, Pascall, David J., Dillen, Josh, Lytras, Spyros, Czudnochowski, Nadine, Shah, Rajiv, Meury, Marcel, Jesudason, Natasha, De Marco, Anna, Li, Kathy, Bassi, Jessica, O’Toole, Aine, Pinto, Dora, Colquhoun, Rachel M., Culap, Katja, Jackson, Ben, Zatta, Fabrizia, Rambaut, Andrew, Jaconi, Stefano, Sreenu, Vattipally B., Nix, Jay, Zhang, Ivy, Jarrett, Ruth F., Glass, William G., Beltramello, Martina, Nomikou, Kyriaki, Pizzuto, Matteo, Tong, Lily, Cameroni, Elisabetta, Croll, Tristan I., Johnson, Natasha, Di Iulio, Julia, Wickenhagen, Arthur, Ceschi, Alessandro, Harbison, Aoife M., Mair, Daniel, Ferrari, Paolo, Smollett, Katherine, Sallusto, Federica, Carmichael, Stephen, Garzoni, Christian, Nichols, Jenna, Galli, Massimo, Hughes, Joseph, Riva, Agostino, Ho, Antonia, Schiuma, Marco, Semple, Malcolm G., Openshaw, Peter J.M., Fadda, Elisa, Baillie, J. Kenneth, Chodera, John D., Rihn, Suzannah J., Lycett, Samantha J., Virgin, Herbert W., Telenti, Amalio, Corti, Davide, Robertson, David L., Snell, Gyorgy

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Use of bacterial whole-genome sequencing to investigate local persistence and spread in bovine tuberculosis von Trewby, Hannah, Wright, David, Breadon, Eleanor L, Lycett, Samantha J, Mallon, Tom R, McCormick, Carl, Johnson, Paul, Orton, Richard J, Allen, Adrian R, Galbraith, Julie, Herzyk, Pawel, Skuce, Robin A, Biek, Roman, Kao, Rowland R

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Estimating the Rate of Intersubtype Recombination in Early HIV-1 Group M Strains von Ward, Melissa J, Lycett, Samantha J, Kalish, Marcia L, Rambaut, Andrew, Leigh Brown, Andrew J

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Role for migratory wild birds in the global spread of avian influenza H5N8 von Lycett, Samantha J., Bodewes, Rogier, Pohlmann, Anne, Banks, Jill, Bányai, Krisztián, Boni, Maciej F., Bouwstra, Ruth, Breed, Andrew C., Brown, Ian H., Chen, Hualan, Dán, Ádám, DeLiberto, Thomas J., Diep, Nguyen, Gilbert, Marius, Hill, Sarah, Ip, Hon S., Ke, Chang Wen, Kida, Hiroshi, Killian, Mary Lea, Koopmans, Marion P., Kwon, Jung-Hoon, Lee, Dong-Hun, Lee, Youn Jeong, Lu Lu, Monne, Isabella, Pasick, John, Pybus, Oliver G., Rambaut, Andrew, Robinson, Timothy P., Sakoda, Yoshihiro, Zohari, Siamak, Song, Chang-Seon, Swayne, David E., Torchetti, Mia Kim, Tsai, Hsiang-Jung, Fouchier, Ron A. M., Beer, Martin, Woolhouse, Mark, Kuiken, Thijs

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Supersize me: how whole-genome sequencing and big data are transforming epidemiology von Kao, Rowland R, Haydon, Daniel T, Lycett, Samantha J, Murcia, Pablo R

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Genesis and spread of multiple reassortants during the 2016/2017 H5 avian influenza epidemic in Eurasia von Lycett, Samantha J., Pohlmann, Anne, Staubach, Christoph, Caliendo, Valentina, Woolhouse, Mark, Beer, Martin, Kuiken, Thijs

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Phylodynamic analysis of an emergent Mycobacterium bovis outbreak in an area with no previously known wildlife infections von Rossi, Gianluigi, Crispell, Joseph, Brough, Tanis, Lycett, Samantha J., White, Piran C. L., Allen, Adrian, Ellis, Richard J., Gordon, Stephen V., Harwood, Roland, Palkopoulou, Eleftheria, Presho, Eleanor L., Skuce, Robin, Smith, Graham C., Kao, Rowland R.

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Reassortment patterns of avian influenza virus internal segments among different subtypes von Lu, Lu, Lycett, Samantha J, Leigh Brown, Andrew J

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Contribution of Segment 3 to the Acquisition of Virulence in Contemporary H9N2 Avian Influenza Viruses von Clements, Anabel L, Sealy, Joshua E, Peacock, Thomas P, Sadeyen, Jean-Remy, Hussain, Saira, Lycett, Samantha J, Shelton, Holly, Digard, Paul, Iqbal, Munir

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