SARS-CoV-2 within-host diversity and transmission von Lythgoe, Katrina A., Hall, Matthew, Ferretti, Luca, de Cesare, Mariateresa, MacIntyre-Cockett, George, Trebes, Amy, Andersson, Monique, Otecko, Newton, Wise, Emma L., Moore, Nathan, Lynch, Jessica, Kidd, Stephen, Cortes, Nicholas, Mori, Matilde, Williams, Rebecca, Vernet, Gabrielle, Justice, Anita, Green, Angie, Nicholls, Samuel M., Ansari, M. Azim, Abeler-Dorner, Lucie, Moore, Catrin E., Peto, Timothy E. A., Eyre, David W., Shaw, Robert, Simmonds, Peter, Buck, David, Todd, John A., Connor, Thomas R., Ashraf, Shirin, Filipe, Ana da Silva, Shepherd, James, Thomson, Emma C., Bonsall, David, Fraser, Christophe, Golubchik, Tanya

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Interferon lambda 4 impacts the genetic diversity of hepatitis C virus von Ansari, M Azim, Aranday-Cortes, Elihu, Ip, Camilla Lc, da Silva Filipe, Ana, Lau, Siu Hin, Bamford, Connor, Bonsall, David, Trebes, Amy, Piazza, Paolo, Sreenu, Vattipally, Cowton, Vanessa M, Hudson, Emma, Bowden, Rory, Patel, Arvind H, Foster, Graham R, Irving, William L, Agarwal, Kosh, Thomson, Emma C, Simmonds, Peter, Klenerman, Paul, Holmes, Chris, Barnes, Eleanor, Spencer, Chris Ca, McLauchlan, John, Pedergnana, Vincent

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Full Genome Sequence and sfRNA Interferon Antagonist Activity of Zika Virus from Recife, Brazil von Donald, Claire L, Brennan, Benjamin, Cumberworth, Stephanie L, Rezelj, Veronica V, Clark, Jordan J, Cordeiro, Marli T, Freitas de Oliveira França, Rafael, Pena, Lindomar J, Wilkie, Gavin S, Da Silva Filipe, Ana, Davis, Christopher, Hughes, Joseph, Varjak, Margus, Selinger, Martin, Zuvanov, Luíza, Owsianka, Ania M, Patel, Arvind H, McLauchlan, John, Lindenbach, Brett D, Fall, Gamou, Sall, Amadou A, Biek, Roman, Rehwinkel, Jan, Schnettler, Esther, Kohl, Alain

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In vitro selection of Remdesivir resistance suggests evolutionary predictability of SARS-CoV-2 von Szemiel, Agnieszka M., Merits, Andres, Orton, Richard J., MacLean, Oscar A., Pinto, Rute Maria, Wickenhagen, Arthur, Lieber, Gauthier, Turnbull, Matthew L., Wang, Sainan, Furnon, Wilhelm, Suarez, Nicolas M., Mair, Daniel, Filipe, Ana da Silva, Willett, Brian J., Wilson, Sam J., Patel, Arvind H., Thomson, Emma C., Palmarini, Massimo, Kohl, Alain, Stewart, Meredith E.

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Detection of SARS‐CoV‐2 in respiratory samples from cats in the UK associated with human‐to‐cat transmission von Hosie, Margaret J., Epifano, Ilaria, Herder, Vanessa, Orton, Richard J., Stevenson, Andrew, Johnson, Natasha, MacDonald, Emma, Dunbar, Dawn, McDonald, Michael, Howie, Fiona, Tennant, Bryn, Herrity, Darcy, Da Silva Filipe, Ana, Streicker, Daniel G., Willett, Brian J., Murcia, Pablo R., Jarrett, Ruth F., Robertson, David L., Weir, William

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Real-World Outcomes of Direct-Acting Antiviral Treatment and Retreatment in United Kingdom–Based Patients Infected With Hepatitis C Virus Genotypes/Subtypes Endemic in Africa von Aranday-Cortes, Elihu, McClure, C Patrick, Davis, Christopher, Irving, William L, Adeboyejo, Kazeem, Tong, Lily, da Silva Filipe, Ana, Sreenu, Vattipally, Agarwal, Kosh, Mutimer, David, Stone, Benjamin, Cramp, Matthew E, Thomson, Emma C, Ball, Jonathan K, McLauchlan, John

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Genome sequencing and comparative analysis of Wolbachia strain wAlbA reveals Wolbachia-associated plasmids are common von Martinez, Julien, Ant, Thomas H, Murdochy, Shivan M, Tong, Lily, da Silva Filipe, Ana, Sinkins, Steven P

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Comparison of Next-Generation Sequencing Technologies for Comprehensive Assessment of Full-Length Hepatitis C Viral Genomes von Thomson, Emma, Ip, Camilla L C, Badhan, Anjna, Christiansen, Mette T, Adamson, Walt, Ansari, M Azim, Bibby, David, Breuer, Judith, Brown, Anthony, Bowden, Rory, Bryant, Josie, Bonsall, David, Da Silva Filipe, Ana, Hinds, Chris, Hudson, Emma, Klenerman, Paul, Lythgow, Kieren, Mbisa, Jean L, McLauchlan, John, Myers, Richard, Piazza, Paolo, Roy, Sunando, Trebes, Amy, Sreenu, Vattipally B, Witteveldt, Jeroen, Barnes, Eleanor, Simmonds, Peter

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Using noninvasive metagenomics to characterize viral communities from wildlife von Bergner, Laura M., Orton, Richard J., da Silva Filipe, Ana, Shaw, Andrew E., Becker, Daniel J., Tello, Carlos, Biek, Roman, Streicker, Daniel G.

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Real world SOF/VEL/VOX retreatment outcomes and viral resistance analysis for HCV patients with prior failure to DAA therapy von Smith, David A., Bradshaw, Daniel, Mbisa, Jean L, Manso, Carmen F., Bibby, David F, Singer, Joshua B, Thomson, Emma C, da Silva Filipe, Ana, Aranday‐Cortes, Elihu, Ansari, M. Azim, Brown, Anthony, Hudson, Emma, Benselin, Jennifer, Healy, Brendan, Troke, Phil, McLauchlan, John, Barnes, Eleanor, Irving, William L.

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Highly Diverse Hepatitis C Strains Detected in Sub‐Saharan Africa Have Unknown Susceptibility to Direct‐Acting Antiviral Treatments von Davis, Chris, Mgomella, George S., da Silva Filipe, Ana, Frost, Eric H., Giroux, Genevieve, Hughes, Joseph, Hogan, Catherine, Kaleebu, Pontiano, Asiki, Gershim, McLauchlan, John, Niebel, Marc, Ocama, Ponsiano, Pomila, Cristina, Pybus, Oliver G., Pépin, Jacques, Simmonds, Peter, Singer, Joshua B., Sreenu, Vattipally B., Wekesa, Clara, Young, Elizabeth H., Murphy, Donald G., Sandhu, Manj, Thomson, Emma C.

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Epidemiology and biology of a herpesvirus in rabies endemic vampire bat populations von Griffiths, Megan E., Bergner, Laura M., Broos, Alice, Meza, Diana K., Filipe, Ana da Silva, Davison, Andrew, Tello, Carlos, Becker, Daniel J., Streicker, Daniel G.

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The histone chaperone HIRA promotes the induction of host innate immune defences in response to HSV-1 infection von McFarlane, Steven, Orr, Anne, Roberts, Ashley P E, Conn, Kristen L, Iliev, Victor, Loney, Colin, da Silva Filipe, Ana, Smollett, Katherine, Gu, Quan, Robertson, Neil, Adams, Peter D, Rai, Taranjit Singh, Boutell, Chris

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Elevated temperature inhibits SARS-CoV-2 replication in respiratory epithelium independently of IFN-mediated innate immune defenses von Herder, Vanessa, Dee, Kieran, Wojtus, Joanna K., Epifano, Ilaria, Goldfarb, Daniel, Rozario, Christoforos, Gu, Quan, Filipe, Ana Da Silva, Nomikou, Kyriaki, Nichols, Jenna, Jarrett, Ruth F., Stevenson, Andrew, McFarlane, Steven, Stewart, Meredith E., Szemiel, Agnieszka M., Pinto, Rute M., Garriga, Andreu Masdefiol, Davis, Chris, Allan, Jay, Graham, Sheila, Murcia, Pablo R., Boutell, Chris

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The apparent interferon resistance of transmitted HIV-1 is possibly a consequence of enhanced replicative fitness von Sugrue, Elena, Wickenhagen, Arthur, Mollentze, Nardus, Aziz, Muhamad Afiq, Sreenu, Vattipally B, Truxa, Sven, Tong, Lily, da Silva Filipe, Ana, Robertson, David L, Hughes, Joseph, Rihn, Suzannah J, Wilson, Sam J

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Longitudinal deep sequencing informs vector selection and future deployment strategies for transmissible vaccines von Griffiths, Megan E, Broos, Alice, Bergner, Laura M, Meza, Diana K, Suarez, Nicolas M, da Silva Filipe, Ana, Tello, Carlos, Becker, Daniel J, Streicker, Daniel G

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Phenotyping the virulence of SARS-CoV-2 variants in hamsters by digital pathology and machine learning von Meehan, Gavin R, Herder, Vanessa, Allan, Jay, Huang, Xinyi, Kerr, Karen, Mendonca, Diogo Correa, Ilia, Georgios, Wright, Derek W, Nomikou, Kyriaki, Gu, Quan, Molina Arias, Sergi, Hansmann, Florian, Hardas, Alexandros, Attipa, Charalampos, De Lorenzo, Giuditta, Cowton, Vanessa, Upfold, Nicole, Palmalux, Natasha, Brown, Jonathan C, Barclay, Wendy S, Filipe, Ana Da Silva, Furnon, Wilhelm, Patel, Arvind H, Palmarini, Massimo

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Seoul Virus Associated with Pet Rats, Scotland, UK, 2019 von Shepherd, James G., Blunsum, Andrew E., Carmichael, Stephen, Smollett, Katherine, Maxwell-Scott, Hector, Farmer, Eoghan C. W., Osborne, Jane, MacLean, Alasdair, Ashraf, Shirin, Shah, Rajiv, Gunson, Rory, Filipe, Ana da Silva, Aarons, Emma J., Thomson, Emma C.

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"Frozen evolution" of an RNA virus suggests accidental release as a potential cause of arbovirus re-emergence von Pascall, David J., Nomikou, Kyriaki, Breard, Emmanuel, Zientara, Stephan, Filipe, Ana da Silva, Hoffmann, Bernd, Jacquot, Maude, Singer, Joshua B., De Clercq, Kris, Botner, Anette, Sailleau, Corinne, Viarouge, Cyril, Batten, Carrie, Puggioni, Giantonella, Ligios, Ciriaco, Savini, Giovanni, van Rijn, Piet A., Mertens, Peter P. C., Biek, Roman, Palmarini, Massimo

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A clinical and molecular epidemiological survey of hepatitis C in Blantyre, Malawi, suggests a historic mechanism of transmission von Stockdale, Alexander J., Kreuels, Benno, Shawa, Isaac T., Meiring, James E., Thindwa, Deus, Silungwe, Niza M., Chetcuti, Karen, Joekes, Elizabeth, Mbewe, Maurice, Mbale, Blessings, Patel, Pratiksha, Kachala, Rabson, Patel, Priyanka D., Malewa, Jane, Finch, Peter, Davis, Chris, Shah, Rajiv, Tong, Lily, Silva Filipe, Ana, Thomson, Emma C., Geretti, Anna Maria, Gordon, Melita A.

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