CLIMB-COVID: continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance by Nicholls, Samuel M, Poplawski, Radoslaw, Bull, Matthew J, Underwood, Anthony, Chapman, Michael, Abu-Dahab, Khalil, Taylor, Ben, Colquhoun, Rachel M, Rowe, Will P M, Jackson, Ben, Hill, Verity, O'Toole, Áine, Rey, Sara, Southgate, Joel, Amato, Roberto, Livett, Rich, Gonçalves, Sónia, Harrison, Ewan M, Peacock, Sharon J, Aanensen, David M, Rambaut, Andrew, Connor, Thomas R, Loman, Nicholas J

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Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England by Volz, Erik, Mishra, Swapnil, Chand, Meera, Barrett, Jeffrey C., Johnson, Robert, Geidelberg, Lily, Hinsley, Wes R., Laydon, Daniel J., Dabrera, Gavin, O’Toole, Áine, Amato, Robert, Ragonnet-Cronin, Manon, Harrison, Ian, Jackson, Ben, Ariani, Cristina V., Boyd, Olivia, Loman, Nicholas J., McCrone, John T., Gonçalves, Sónia, Jorgensen, David, Myers, Richard, Hill, Verity, Jackson, David K., Gaythorpe, Katy, Groves, Natalie, Sillitoe, John, Kwiatkowski, Dominic P., Flaxman, Seth, Ratmann, Oliver, Bhatt, Samir, Hopkins, Susan, Gandy, Axel, Rambaut, Andrew, Ferguson, Neil M.

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Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B.1.1.7 by Curran, Martin D., Roy, Sunando, Shaaban, Sharif, de Cesare, Mariateresa, Stark, Richard, Palmer, Steve, Jeffries, Aaron R., da Silva Filipe, Ana, Davis, Thomas, Collins, Jennifer, Williams, Thomas, Haldenby, Sam T., Cook, Kate, Davies, Robert, Kay, Sally, Poplawski, Radoslaw, Reynolds, Nicola, Moll, Robin J., Thornton, Alicia, Gatica-Wilcox, Bree, Louka, Stavroula F., Kraemer, Moritz U.G., Freeman, Timothy M., Abudahab, Khalil, Menegazzo, Mirko, Mason, Jenifer, Holmes, Alison, Curran, Tanya, Mookerjee, Siddharth, Munn, Robert, Davies, Alisha, Smith, Nikki, Cormie, Claire, Lo, Stephanie, Auckland, Cressida, Mollett, Guy, Harper, Katherine L., Bonner, Stephen, Padgett, Debra, Burton-Fanning, Shirelle, Bedford, Luke, Coupland, Lindsay, Wright, Victoria, Ball, Jonathan, Boswell, Tim, Duckworth, Nichola, Williams, Rebecca, Cogger, Benjamin J., Farr, Ben W., Thurston, Scott A.J., Bronner, Iraad F., Aigrain, Louise, Gallagher, Michael D., Miah, Shahjahan, Ramsay, Mary, Schaefer, Ulf, Manesis, Nikos, Allara, Elias, Nichols, Jenna, Vamos, Edith E., Hughes, Margaret, Wilson, Harry D., Wilson, Rebekah E., Thompson, Thomas, O’Brien, Sarah, Rudder, Steven, McCluggage, Kathryn, Bonfield, James, Liddle, Jennifier, Rowe, Will, Bevan, Paul, Clark, Richard, Cutts, Tim, Densem, Aiden, Dodd, David, Griffiths, Coline, Kay, Keely, Lensing, Stefanie, Lewis-Wade, Amanah, Mamun, Irfan, Martin, Matt, McClintock, Jo, Nathwani, Claire, Nicholson, Jon, Patel, Gaurang, Petersen, Arabella, Reynolds, Joe, Rudd, Luke, Sadri, Ramin, Sizer, Dale, Soria, Carmen Diaz, Sousa, Catarina, Squares, Janet, Stickland, Tim, Still, Ian, Symons, Edward, Uphill, James, Van, Philip Jansen, Voak, Paul, Corti, Davide

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Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic by Jackson, Ben, Boni, Maciej F., Bull, Matthew J., Colleran, Amy, Colquhoun, Rachel M., Darby, Alistair C., Haldenby, Sam, Hill, Verity, Lucaci, Anita, McCrone, John T., Nicholls, Samuel M., O’Toole, Áine, Pacchiarini, Nicole, Poplawski, Radoslaw, Scher, Emily, Todd, Flora, Webster, Hermione J., Whitehead, Mark, Wierzbicki, Claudia, Loman, Nicholas J., Connor, Thomas R., Robertson, David L., Pybus, Oliver G., Rambaut, Andrew

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SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2 by Eales, Oliver, Page, Andrew J, de Oliveira Martins, Leonardo, Wang, Haowei, Bodinier, Barbara, Haw, David, Jonnerby, Jakob, Atchison, Christina, Ashby, Deborah, Barclay, Wendy, Taylor, Graham, Cooke, Graham, Ward, Helen, Darzi, Ara, Riley, Steven, Chadeau-Hyam, Marc, Donnelly, Christl A, Elliott, Paul

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Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning by Nickbakhsh, Sema, Hughes, Joseph, Christofidis, Nicolaos, Griffiths, Emily, Shaaban, Sharif, Enright, Jessica, Smollett, Katherine, Nomikou, Kyriaki, Palmalux, Natasha, Tong, Lily, Carmichael, Stephen, Sreenu, Vattipally B., Orton, Richard, Goldstein, Emily J., Tomb, Rachael M., Templeton, Kate, Gunson, Rory N., da Silva Filipe, Ana, Milosevic, Catriona, Thomson, Emma, Robertson, David L., Holden, Matthew T. G., Illingworth, Christopher J. R., Smith-Palmer, Alison

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Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes by McHugh, M.P., Rambaut, Andrew, Snell, Luke B., Jackson, David K., Moore, Catherine, Jackson, Leigh M., Aanensen, David M., Barrett, Jeffrey C., Bashton, Matthew, Wang, Dennis, Thomas, Claire, Simpson, David A., Paterson, Steve, Pybus, Oliver G., Taylor, Joshua F., Crown, Matthew R., Monahan, Irene M., Silviera, Siona, Harvey, William T., O'Toole, Áine, Kitchman, Katie, Dervisevic, Samir, Barrow, Magdalena, Xu-McCrae, Li, Cox, Alison, Withell, Karen T., Denton-Smith, Rebecca, Sloan, Tim J., Pymont, Hannah M., Crudgington, Dorian, Iturriza-Gomara, Miren, Rooke, Stefan, Yebra, Gonzalo, Blane, Beth, Green, Angie, Kay, Sally, Reynolds, Nicola, Hollis, Amy, Yew, Wen C., Hey, Jessica, Jones, Hannah, Hornsby, Hailey R., Pohare, Manoj, Boyd, Olivia, Jackson, Chris, Vattipally, Sreenu, de Oliveira Martins, Leonardo, Jackson, Ben, Medd, Nathan, Smith, Ken, Guest, Martyn, Kitchen, Christine, Churcher, Carol M., Delgado Callico, Laia, Judges, Sarah, Bolt, Frances, De Lacy, Elen, Foulser, Luke, Boswell, Tim, Howson-Wells, Hannah C., Khakh, Manjinder, Lister, Michelle M., Helmer, Thomas, Hughes, Warwick, Lee, Jack CD, Shah, Divya, Ohemeng-Kumi, Natasha, Sluga, Graciela, Ahmad, Shazaad SY, Barton, Edward, Scott, Garren, Johnson, Kate, Lawton, Andrew I., Ashfield, Paula, Best, Angus, Crawford, Liam, Ensell, Leah, Easton, Lisa J., Nicodemi, Roberto, Beggs, Andrew, Dias, Joana, Park, Emily J., Francois, Sarah, Ragonnet-Cronin, Manon, Nichols, Jenna, Nomikou, Kyriaki, Tsatsani, Ioulia, Hubb, Jonathan, Manesis, Nikos, Aydin, Alp, Foster-Nyarko, Ebenezer, Prosolek, Sophie J., Mariappan, Arun, Bayzid, Nadua, Cotic, Marius, Michelsen, Michelle L., Eccles, Richard, Gemmell, Matthew, Gregory, Richard, Bronner, Iraad F.

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MAJORA: Continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance by Nicholls, Samuel M, Poplawski, Radoslaw, Bull, Matthew J, Underwood, Anthony, Chapman, Michael, Abu-Dahab, Khalil, Taylor, Ben, Jackson, Ben, Rey, Sara, Amato, Roberto, Livett, Rich, Gonçalves, Sónia, Harrison, Ewan M, Peacock, Sharon J, Aanensen, David M, Rambaut, Andrew, Connor, Thomas R, Loman, Nicholas J, The Covid-19 Genomics Uk (Cog-Uk) Consortium

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