Genomic reconstruction of the SARS-CoV-2 epidemic in England

Vöhringer, Harald; Sanderson, Theo; Sinnott, Matthew; De Maio, Nicola; Nguyen, Thuy; Goater, Richard; Schwach, Frank; Harrison, Ian; Hellewell, Joel; V. Ariani, Cristina; Gonçalves, Sónia; K. Jackson, David; Johnston, Ian; W. Jung, Alexander; Saint, Callum; Sillitoe, John; Suciu, Maria; Goldman, Nick; Panovska‐Griffiths, Jasmina; Abnizova, Irina; Aigrain, Louise; Alderton, Alex; Ali, Mozam; Allen, Laura; Amato, Roberto; Anderson, Ralph; V. Ariani, Cristina; Austin-Guest, Siobhan; Bala, Sendu; C. Barrett, Jeffrey; R. Bassett, Andrew; Battleday, Kristina; R. Beal, James; A. Beale, Mathew; Beaver, Charlotte; Bellany, Sam; Bellerby, Tristram; Bellis, Katie; Berger, Duncan; Berriman, Matthew; Betteridge, Emma; Bevan, Paul; Binley, Simon; Bishop, Jason; Blackburn, Kirsty; Bonfield, James; Boughton, Nick; Bowker, Sam; Brendler-Spaeth, Timothy; F. Bronner, Iraad; Brooklyn, Tanya; K. Buddenborg, Sarah; Bush, R.L.; Caetano, Catarina; Cagan, Alex; Carter, Nicola; Cartwright, Joanna; Monteiro, Tiago; Chapman, Liz; Chillingworth, Tracey-Jane; Clapham, Peter; Clark, Richard; Clarke, Adrian; Clarke, Catriona; Cole, Daryl; Cook, Elizabeth; Coppola, Maria; Cornell, Linda; Cornwell, Clare; Corton, Craig; Crackett, Abby; Cranage, Alison; Craven, Harriet; Craw, Sarah; Crawford, Mark; Cutts, Tim; Dabrowska, Monika; Davies, Matt; M. Davies, Robert; Dawson, Joseph; Day, Callum; Densem, Aiden; Dibling, Thomas; Dockree, Cat; C. Dodd, D.; Kumar Dogga, Sunil; J. Dorman, Matthew; Dougan, Gordon; Dougherty, Martin; Dove, Alexander; Drummond, Lucy; Drury, Eleanor; Dudek, Monika; Durham, Jillian; Durrant, Laura; Easthope, Elizabeth; Eckert, Sabine; Ellis, Peter; W. Farr, Ben; Fenton, Michael; Ferrero, Marcella; Flack, Neil; Fordham, Howerd; Forsythe, Grace; Foulser, Luke; Francis, Matt; Fraser, Audrey; Freeman, Adam; Galvin, Anastasia; Garcia-Casado, Maria; Gedny, Alex; T. Girgis, Sophia; Glover, James; Gonçalves, Sónia; Goodwin, Scott; Gould, Oliver; Gourtovaia, Marina; Gray, Andy; Gray, Emma; Griffiths, Chris; Gu, Yong; Guerin, Florence; Hamilton, Will; Hanks, Hannah; M. Harrison, Ewan; Harrott, Alexandria; Harry, Edward; Harvison, Julia; T. Heath, Paul; Hernández-Koutoucheva, Anastasia; Hobbs, Rhiannon; Holland, Dave; Holmes, Sarah; Hornett, Gary; Hough, Nicholas; Huckle, Liz; Hughes-Hallet, Lena; Hunter, Adam; Inglis, Stephen; Iqbal, Sameena; Jackson, Adam; K. Jackson, David; James, Keith; Jamrozy, Dorota; Jimenez Verdejo, Carlos; Jones, Matthew; Kallepally, Kalyan; Kane, Leanne; Kay, Keely; Kay, Sally; Keatley, Jon; Keith, Alan; King, Alison; Kitchin, Lucy; Kleanthous, Matt; Klimekova, Martina; Korlević, Petra; Krasheninnkova, Ksenia; Lane, Greg; Langford, Cordelia; Laverack, Adam; Law, Katharine; Lawniczak, Mara; V. Lensing, Stefanie; Leonard, Steven; Letchford, Laura; Lewis, Kevin; Lewis-Wade, Amanah; Liddle, Jennifer; Lin, Quan; Lindsay, Sarah; Linsdell, Sally; Livett, Rich; W. Lo, Stephanie; Long, Rhona; Lovell, Jamie; Lovell, Jon; Ludden, Catherine; Mack, James; Maddison, Mark; Makunin, Aleksei; Mamun, Irfan; Mansfield, Jenny; Marriott, Neil; Martin, Matt; Mayho, Matthew; McCarthy, Shane; McClintock, Jo; McGuigan, Samantha; McHugh, Sandra; McMinn, Liz; Meadows, Carl; Mobley, Emily; J. Moll, Robin; Morra, Maria; Morrow, Leanne; Murie, Kathryn; Nash, Sian; Nathwani, Claire; Naydenova, Plamena; Neaverson, Alexandra; Nelson, Rachel; Nerou, Ed; Nicholson, Jon; Nimz, Tabea; Noell, Guillaume; O’Meara, Sarah; Ohan, Valeriu; Oliver, Karen; Olney, Charles; Ormond, Doug; Oszlánczi, Ágnes; Palmer, Steve; Fei Pang, Yoke; Pardubska, Barbora; Park, Naomi; Parmar, Aaron; Patel, Gaurang; Patel, Minal; Payne, Maggie; J. Peacock, Sharon; Petersen, Arabella; Plowman, Deborah; Preston, Tom; Prestwood, Liam; Puethe, Christoph; A. Quail, Michael; Rajan, Diana; Rajatileka, Shavanthi; Rance, Richard; Rawlings, Suzannah; Redshaw, Nicholas; Reynolds, Joe; Reynolds, Mark; Rice, Simon; Richardson, Matt; Roberts, Connor; Robinson, Katrina; Robinson, Melanie; M. Robinson, David; Rogers, Hazel; Martin Rojo, Eduardo; Roopra, Daljit; E. Rose, Mark; Rudd, Luke; Sadri, Ramin; Salmon, Nicholas; Saul, David; Schwach, Frank; Scott, Carol; Seekings, Phil; Shirley, Lesley; Simms, Alison; Sinnott, Matthew; Sivadasan, Shanthi; Siwek, Bart; Sizer, Dale; Skeldon, Kenneth; Skelton, Jason; Slater-Tunstill, Joanna; Sloper, Lisa; Smerdon, Nathalie; Smith, Chris; Smith, Christen; Smith, James; Smith, Katie; Smith, Michelle; B. Smith, Sean; Smith, Tina; Sneade, Leighton; Soria, C.; Sousa, Catarina; Souster, Emily; Sparkes, Andrew; Spencer-Chapman, Michael; Squares, Janet; Stanley, Robert; Steed, Claire; Stickland, Tim; Still, Ian; R. Stratton, Michael; Strickland, Michelle; Swann, Allen; Świątkowska, Agnieszka; Sycamore, Neil; Swift, Emma; Symons, Edward; Szluha, Suzanne; Taluy, Emma; Tao, Nunu; Taylor, Katy; Taylor, Sam; Thompson, Stacey; A. Thompson, Mark; Thomson, M.; M. Thomson, Nicholas; Thurston, Scott; Tonkin‐Hill, Gerry; Toombs, Dee; Topping, Benjamin; M. Tovar-Corona, Jaime; Ungureanu, Daniel; Uphill, James; Urbanová, Jana; Jansen Van Vuuren, Philip; E. Vancollie, Valerie; Voak, Paul; Walker, Danielle; Walker, Matthew; Waller, Matt; H. Ward, Gary; Weatherhogg, Charlie; Webb, Niki; Weldon, Danni; Wells, Alan; Wells, Eloise; Westwood, Luke; Whipp, Theo; Whiteley, Thomas; Whitton, Georgia; Whitwham, Andrew; Widaa, Sara; Williams, Mia; Wilson, Mark; Wright, Sean; acquisition, leadership and supervision, metadata curation, project administration, samples and logistics, sequencing and analysis, software and analysis tools, and visualization, Funding; C. Robson, Samuel; acquisition, leadership and supervision, metadata curation, project administration, samples and logistics, sequencing and analysis, and software and analysis tools, Funding; R. Connor, Thomas; J. Loman, Nicholas; and supervision, metadata curation, project administration, samples and logistics, sequencing and analysis, software and analysis tools, and visualization, Leadership; Golubchik, Tanya; acquisition, leadership and supervision, metadata curation, samples and logistics, sequencing and analysis, and visualization, Funding; T. Martinez Nunez, Rocio; acquisition, leadership and supervision, project administration, samples and logistics, sequencing and analysis, and software and analysis tools, Funding; Bonsall, David; acquisition, leadership and supervision, project administration, sequencing and analysis, software and analysis tools, and visualization, Funding; Rambaut, Andrew; acquisition, metadata curation, project administration, samples and logistics, sequencing and analysis, and software and analysis tools, Funding; B. Snell, Luke; and supervision, metadata curation, project administration, samples and logistics, software and analysis tools, and visualization, Leadership; acquisition, leadership and supervision, metadata curation, project administration, and samples and logistics, Funding; Ludden, Catherine; acquisition, leadership and supervision, metadata curation, samples and logistics, and sequencing and analysis, Funding; Corden, Sally; Nastouli, Eleni; acquisition, leadership and supervision, metadata curation, sequencing and analysis, and software and analysis tools, Funding; Nebbia, Gaia; acquisition, leadership and supervision, project administration, samples and logistics, and sequencing and analysis, Funding; and supervision, metadata curation, project administration, samples and logistics, and sequencing and analysis, Leadership; Lythgoe, Katrina; Estée Török, M.; Goodfellow, Ian; and supervision, metadata curation, project administration, samples and logistics, and visualization, Leadership; Prieto, Jacqui; Saeed, Kordo; and supervision, metadata curation, project administration, sequencing and analysis, and software and analysis tools, Leadership; and supervision, metadata curation, samples and logistics, sequencing and analysis, and visualization, Leadership; Houlihan, Catherine; and supervision, metadata curation, sequencing and analysis, software and analysis tools, and visualization, Leadership; Frampton, Dan; curation, project administration, samples and logistics, sequencing and analysis, and software and analysis tools, Metadata; L. Hamilton, William; A. Witney, Adam; acquisition, samples and logistics, sequencing and analysis, and visualization, Funding; Bucca, Giselda; acquisition, leadership and supervision, metadata curation and project administration, Funding; F. Pope, Cassie; acquisition, leadership and supervision, metadata curation, and samples and logistics, Funding; Moore, Catherine; acquisition, leadership and supervision, metadata curation, and sequencing and analysis, Funding; C. Thomson, Emma; acquisition, leadership and supervision, project administration, and samples and logistics, Funding; M. Harrison, Ewan; acquisition, leadership and supervision, sequencing and analysis, and visualization, Funding; P. Smith, Colin; and supervision, metadata curation, project administration, and sequencing and analysis, Leadership; Rogan, Fiona; and supervision, metadata curation, project administration, and samples and logistics, Leadership; M. Beckwith, Shaun; Murray, Abigail; Singleton, Dawn; Eastick, Kirstine; A. Sheridan, Liz; Randell, Paul; Jackson, Leigh; Gonçalves, Sónia; and supervision, metadata curation, samples and logistics, and sequencing and analysis, Leadership; Fairley, Derek; Loose, Matthew; Watkins, Joanne; and supervision, metadata curation, samples and logistics, and visualization, Leadership; Moses, Samuel; and supervision, metadata curation, sequencing and analysis, and software and analysis tools, Leadership; Nicholls, Sam; Bull, Matthew; and supervision, project administration, samples and logistics, and sequencing and analysis, Leadership; Smith, Darren; and supervision, sequencing and analysis, software and analysis tools, and visualization, Leadership; M. Aanensen, David; curation, project administration, samples and logistics, and sequencing and analysis, Metadata; Aggarwal, Dinesh; G. Shepherd, James; D. Curran, Martin; Parmar, Surendra; curation, project administration, sequencing and analysis, and software and analysis tools, Metadata; D. Parker, Matthew; curation, samples and logistics, sequencing and analysis, and software and analysis tools, Metadata; Williams, Catryn; curation, samples and logistics, sequencing and analysis, and visualization, Metadata; Glaysher, Sharon; curation, sequencing and analysis, software and analysis tools, and visualization, Metadata; Underwood, Anthony; Bashton, Matthew; Pacchiarini, Nicole; F. Loveson, Katie; Byott, Matthew; administration, sequencing and analysis, software and analysis tools, and visualization, Project; M. Carabelli, Alessandro; acquisition, leadership and supervision, and metadata curation, Funding; Templeton, Kate; acquisition, leadership and supervision, and project administration, Funding; I. de Silva, Thushan; Wang, Dennis; F. Langford, Cordelia; acquisition, leadership and supervision, and samples and logistics, Funding; Gunson, Rory; acquisition, leadership and supervision, and sequencing and analysis, Funding; Cottrell, Simon; O’Grady, Justin; Kwiatkowski, Dominic; and supervision, metadata curation and project administration, Leadership; Lillie, Patrick; and supervision, metadata curation, and samples and logistics, Leadership; Cortes, Nicholas; Moore, Nathan; Thomas, Claire; Burns, Phillipa; Mahungu, Tabitha; Liggett, Steven; and supervision, metadata curation, and sequencing and analysis, Leadership; H. Beckett, Angela; T. G. Holden, Matthew; and supervision, project administration, and samples and logistics, Leadership; J. Levett, Lisa; Osman, Husam; O. Hassan-Ibrahim, Mohammed; and supervision, project administration, and sequencing and analysis, Leadership; Simpson, David; and supervision, samples and logistics, and sequencing and analysis, Leadership; Chand, Meera; Gupta, Ravi; C. Darby, Alistair; Paterson, Steve; and supervision, sequencing and analysis, and software and analysis tools, Leadership; G. Pybus, Oliver; Volz, Erik; De Angelis, Daniela; L. Robertson, David; J. Page, Andrew; and supervision, sequencing and analysis, and visualization, Leadership; R. Bassett, Andrew; curation, project administration, and samples and logistics, Metadata; Wong, Nick; Taha, Yusri; J. Erkiert, Michelle; H. Spencer Chapman, Michael; curation, project administration, and sequencing and analysis, Metadata; Dewar, Rebecca; McHugh, M.; curation, project administration, and software and analysis tools, Metadata; Mookerjee, Siddharth; curation, project administration and visualization, Metadata; Aplin, Stephen; Harvey, Matthew; Sass, Thea; Umpleby, Helen; Wheeler, Helen; curation, samples and logistics, and sequencing and analysis, Metadata; McKenna, James; Warne, Ben; F. Taylor, Joshua; Chaudhry, Yasmin; Izuagbe, Rhys; S. Jahun, Aminu; R. Young, Gregory; McMurray, Claire; M. McCann, Clare; Nelson, Andrew; Elliott, Scott; curation, samples and logistics, and visualization, Metadata; Lowe, Hannah; curation, sequencing and analysis, and software and analysis tools, Metadata; Price, Anna; Crown, Matthew; Rey, Sara; Roy, Sunando; Temperton, Ben; curation, sequencing and analysis, and visualization, Metadata; Shaaban, Sharif; R. Hesketh, Andrew; administration, samples and logistics, and sequencing and analysis, Project; G. Laing, Kenneth; M. Monahan, Irene; Heaney, Judith; administration, samples and logistics, and visualization, Project; Pelosi, Emanuela; Silviera, Siona; Wilson-Davies, Eleri; and logistics, software and analysis tools, and visualization, Samples; Fryer, Helen; and analysis, software and analysis tools, and visualization, Sequencing; Adams, Helen; du Plessis, Louis; Johnson, Rob; T. Harvey, William; Hughes, Joseph; Orton, Richard; G. Spurgin, Lewis; Bourgeois, Yann; Ruis, Chris; O’Toole, Áine; Sanderson, Theo; acquisition, and leadership and supervision, Funding; Fraser, Christophe; Edgeworth, Jonathan; Breuer, Judith; L. Michell, Stephen; A. Todd, John; acquisition and project administration, Funding; P.T. Mo, John; Buck, David; and supervision, and metadata curation, Leadership; Gajee, Kavitha; L. Kay, Gemma; and supervision, and project administration, Leadership; J. Peacock, Sharon; Heyburn, David; and supervision, and samples and logistics, Leadership; Kitchman, Katie; McNally, Alan; T. Pritchard, David; Dervisevic, Samir; Muir, Peter; Robinson, Esther; Vipond, Barry; Ramadan, Newara; Jeanes, Christopher; Catalan, Jana; Jones, Neil; and supervision, and sequencing and analysis, Leadership; da Silva Filipe, Ana; Williams, Chris; Fuchs, Marc; Miskelly, Julia; R. Jeffries, Aaron; R. Park, Naomi; curation, and samples and logistics, Metadata; Ash, Amy; Koshy, Cherian; Barrow, Magdalena; L. Buchan, Sarah; Mantzouratou, Anna; Clark, Gemma; W. Holmes, Christopher; Campbell, Sharon; Davis, Thomas; Keong Tan, Ngee; R. Brown, Julianne; Harris, Kathryn; P. Kidd, Stephen; R. Grant, Paul; Xu-McCrae, Li; D. Cox, Alison; Madona, Pinglawathee; Pond, Marcus; Randell, Paul; T. Withell, Karen; Williams, Cheryl; Graham, Clive; Denton-Smith, Rebecca; Swindells, Emma; Turnbull, Robyn; J. Sloan, Tim; Bosworth, Andrew; Hutchings, Stephanie; M. Pymont, Hannah; Casey, Anna; Ratcliffe, Liz; R. Jones, Christopher; Knight, Bridget; Haque, Tanzina; Hart, Jennifer; Irish-Tavares, Dianne; Witele, Eric; Mower, Craig; K. Watson, Louisa; Collins, Jennifer; Eltringham, Gary; Crudgington, Dorian; Macklin, Ben; Iturriza‐Gómara, Miren; O. Lucaci, Anita; Patrick McClure, C.; curation, and sequencing and analysis, Metadata; Carlile, Matthew; Holmes, Nadine; Moore, Christopher; Storey, Nathaniel; Rooke, Stefan; Yebra, Gonzalo; Craine, Noel; Perry, Malorie; Alikhan, Nabil-Fareed; Bridgett, Stephen; F. Cook, Kate; Fearn, Christopher; Goudarzi, Salman; A Lyons, Ronan; Williams, Thomas; Haldenby, Sam; curation, and software and analysis tools, Metadata; M. Davies, Robert; administration, and samples and logistics, Project; Batra, Rahul; Blane, Beth; Spyer, Moira; Smith, Perminder; Yavus, Mehmet; Williams, Rachel; I. K. Mahanama, Adhyana; Samaraweera, Buddhini; T. Girgis, Sophia; E. Hansford, Samantha; Green, Angie; L. Bellis, Katherine; J. Dorman, Matthew; administration, and sequencing and analysis, Project; Quick, Joshua; administration, and software and analysis tools, Project; Poplawski, Radoslaw; and logistics, and sequencing and analysis, Samples; Reynolds, Nicola; Mack, Andrew; Morriss, Arthur; Whalley, Thomas; Patel, Bindi; Georgana, Iliana; Hosmillo, Myra; L. Pinckert, Malte; Stockton, Joanne; Henderson, John; Hollis, Amy; T. Stanley, William; C. Yew, Wen; Myers, Richard; Thornton, Alicia; Adams, Alexander; Annett, Tara; Asad, Hibo; Birchley, Alec; Coombes, Jason; M. Evans, Johnathan; Fina, Laia; Gatica-Wilcox, Bree; Gilbert, Lauren; Graham, Lee; Hey, Jessica; Hilvers, Ember; Jones, Sophie; Jones, Hannah; Kumziene-Summerhayes, Sara; McKerr, Caoimhe; Powell, Jessica; Pugh, Georgia; Taylor, Sarah; J. Trotter, Alexander; A. Williams, Charlotte; M. Kermack, Leanne; H. Foulkes, Benjamin; Gallis, Marta; Hornsby, Hailey; F. Louka, Stavroula; Pohare, Manoj; Wolverson, Paige; Zhang, Peijun; MacIntyre-Cockett, George; Trebes, Amy; J. Moll, Robin; Ferguson, Lynne; J. Goldstein, Emily; Maclean, Alasdair; Tomb, Rachael; and logistics, and software and analysis tools, Samples; Starinskij, Igor; and analysis, and software and analysis tools, Sequencing; Thomson, Laura; Southgate, Joel; U. G. Kraemer, Moritz; Raghwani, Jayna; E. Zarebski, Alex; Boyd, Olivia; Geidelberg, Lily; J. Illingworth, Chris; Jackson, Chris; J. Pascall, David; B. Sreenu, Vattipally; M. Freeman, Timothy; N. Hsu, Sharon; B. Lindsey, Benjamin; M. Tovar-Corona, Jaime; and analysis, and visualization, Sequencing; Cox, MacGregor; and analysis tools, and visualization, Software; Abudahab, Khalil; Menegazzo, Mirko; Taylor, Ben; Yeats, Corin; Mukaddas, Afrida; Wright, Derek; de Oliveira Martins, Leonardo; Colquhoun, Rachel; Hill, Verity; Jackson, Ben; T. McCrone, J.; Medd, Nathan; Scher, Emily; Keatley, Jon-Paul; and supervision, Leadership; Curran, Tanya; Morgan, Sian; H. Maxwell, Patrick; G. C. Smith, Kenneth; Eldirdiri, Sahar; Kenyon, Anita; Holmes, Alison; Price, James; Wyatt, Tim; E. Mather, Alison; Skvortsov, Timofey; A. Hartley, John; curation, Metadata; F. Guest, Martyn; Kitchen, Christine; Merrick, Ian; J. Munn, Robert; Bertolusso, Beatrice; Lynch, Jessica; Vernet, Gabrielle; A. Kirk, Stuart; Wastnedge, Elizabeth; Stanley, Rachael; Idle, Giles; Bradley, Declan; Poyner, Jennifer; Mori, Matilde; administration, Project; R. Jones, Owen; Wright, Victoria; Brooks, Ellena; Churcher, Carol; Fragakis, Mireille; Galai, Katerina; Jermy, Andrew; Judges, Sarah; M. McManus, Georgina; S. Smith, Kim; Westwick, Elaine; W. Attwood, Stephen; Bolt, Frances; Davies, Alisha; De Lacy, Elen; Downing, Fatima; Edwards, Sue; Meadows, Lizzie; Jeremiah, Sarah; Smith, Darren; and logistics, Samples; Charalampous, Themoula; Patel, Amita; Berry, Louise; Boswell, Tim; M. Fleming, Vicki; C. Howson‐Wells, Hannah; Joseph, Amelia; Khakh, Manjinder; M. Lister, Michelle; Bird, Paul; Fallon, Karlie; Helmer, Thomas; McMurray, Claire; Odedra, Mina; R. Shaw, Jessica; W. Tang, Julian; J. Willford, Nicholas; Blakey, Victoria; Raviprakash, Veena; Sheriff, Nicola; Williams, Lesley-Anne; Feltwell, Theresa; Bedford, Luke; S. Cargill, James; Hughes, Warwick; P. Moore, Jonathan; Stonehouse, Susanne; Atkinson, Laura; C. D. Lee, Jack; Shah, Divya; Alcolea, Adela; Ohemeng-Kumi, Natasha; Ramble, John; Sehmi, Jasveen; Williams, Rebecca; Chatterton, Wendy; Pusok, Monika; V. Everson, William; Castigador, Anibolina; MacNaughton, Emily; El Bouzidi, Kate; Lampejo, Temi; Sudhanva, Malur; Breen, Cassie; Sluga, Graciela; Ahmad, Shazaad; P. George, Ryan; W. Machin, Nicholas; Binns, Debbie; James, Victoria; Blacow, Rachel; Coupland, Lindsay; Smith, Louise; Barton, Edward; Padgett, Debra; Scott, Garren; Cross, Aidan; Mirfenderesky, Mariyam; Greenaway, Jane; Cole, Kevin; Clarke, Phillip; Duckworth, Nichola; Walsh, Sarah; Bicknell, Kelly; Impey, Robert; Wyllie, Sarah; Hopes, Richard; Bishop, Chloe; Chalker, Vicki; Gifford, Laura; Molnár, Zoltán; Auckland, Cressida; Evans, Cariad; JOHNSON, KATE; G. Partridge, David; Raza, Mohammad; Baker, Paul; Bonner, Stephen; Essex, Sarah; J. Murray, Leanne; I. Lawton, Andrew; Burton-Fanning, Shirelle; Payne, Brendan; Waugh, Sheila; N. Gomes, Andrea; Kimuli, Maimuna; R. Murray, Darren; Ashfield, Paula; Dobie, Donald; Ashford, Fiona; Best, Angus; Crawford, Liam; Cumley, Nicola; Mayhew, Megan; Megram, Oliver; Mirza, Jeremy; Moles-Garcia, Emma; Percival, Benita; Ensell, Leah; L. Lowe, Helen; Maftei, Laurentiu; Mondani, Matteo; J. Chaloner, Nicola; J. Cogger, Benjamin; J. Easton, Lisa; Huckson, Hannah; R. Lewis, J.; Lowdon, Sarah; S. Malone, Cassandra; Munemo, Florence; Mutingwende, Manasa; Nicodemi, Roberto; Podplomyk, Olga; Somassa, Thomas; D. Beggs, Andrew; Richter, Alex; Cormie, Claire; Angélica Andrade Dias, Joana; Forrest, Sally; E. Higginson, Ellen; Maes, Mailis; Young, Jamie; K. Davidson, Rose; Jackson, Kathryn; Turtle, Lance; J. Keeley, Alexander; K. Ball, Jonathan; Byaruhanga, Timothy; Chappell, Joseph; Dey, Jayasree; D. Hill, Jack; J. Park, Emily; Fanaie, Arezou; A. Hilson, Rachel; Yaze, Geraldine; and analysis, Sequencing; Afifi, Safiah; Beer, Robert; Maksimovic, Joshua; McCluggage Masters, Kathryn; Spellman, Karla; Bresner, Catherine; Fuller, William; Marchbank, Angela; Workman, Trudy; Shelest, Ekaterina; Debebe, Johnny; Sang, Fei; Escalera Zamudio, Marina; François, Sarah; Gutiérrez, Bernardo; I. Vasylyeva, Tetyana; Flaviani, Flavia; Ragonnet‐Cronin, Manon; Smollett, Katherine; Broos, Alice; Mair, Daniel; Nichols, Jenna; Nomikou, Kyriaki; Tong, L.; Tsatsani, Ioulia; O’Brien, S.; Rushton, Steven; Sanderson, Roy; Perkins, Jon; Cotton, Seb; Gallagher, Abbie; Allara, Elias; Pearson, Clare; Bibby, David; Dabrera, Gavin; Ellaby, Nicholas; Gallagher, Eileen; Hubb, Jonathan; Lackenby, Angie; Lee, David; Manesis, Nikos; Mbisa, Tamyo; G. Platt, Steven; A. Twohig, Katherine; Morgan, Mari; Aydin, Alp; Baker, David; Foster-Nyarko, Ebenezer; J. Prosolek, Sophie; Rudder, Steven; Baxter, Chris; Carvalho, Silvia; Lavin, Deborah; Mariappan, Arun; Radulescu, Clara; Singh, Aditi; Tang, Miao; Morcrette, Helen; Bayzid, Nadua; Cotic, Marius; E. Balcazar, Carlos; D. Gallagher, Michael; Maloney, Daniel; D. Stanton, Thomas; A. Williamson, Kathleen; Manley, Robin; L. Michelsen, Michelle; Sambles, Christine; J. Studholme, David; Warwick-Dugdale, Joanna; Eccles, Richard; Gemmell, Matthew; D. Gregory, Richard; Hughes, Margaret; Nelson, Charlotte; Rainbow, Lucille; E. Vamos, Edith; J. Webster, Hermione; Whitehead, Mark; Wierzbicki, Claudia; Angyal, Adrienn; R. Green, Luke; Whiteley, Max; F. Bronner, Iraad; W. Farr, Ben; V. Lensing, Stefanie; McCarthy, Shane; A. Quail, Michael; Redshaw, Nicholas; A. J. Thurston, Scott; and analysis tools, Software; Rowe, Will; Gaskin, Amy; Le-Viet, Thanh; Liddle, Jennifier; Birney, Ewan; Volz, Erik; Funk, Sebastian; Kwiatkowski, Dominic; Chand, Meera; Martincorena, Iñigo; C. Barrett, Jeffrey; Gerstung, Moritz

doi:10.1038/s41586-021-04069-y

Public

Genomic reconstruction of the SARS-CoV-2 epidemic in England

Published in Nature • Oct 14, 2021

Authors:

Harald Vöhringer

Theo Sanderson

Matthew Sinnott

Abstract

The evolution of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus leads to new variants that warrant timely epidemiological characterization. Here we use the dense genomic surveillance data generated by the COVID-19 Genomics UK Consortium to reconstruct the dynamics of 71 diffe...

Subject

Transmissibility (structural dynamics)

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)

Coronavirus disease 2019 (COVID-19)

Research Assistant

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