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3. Constructing custom-made radiotranscriptomic signatures of vascular inflammation from routine CT angiograms: a prospective outcomes validation study in COVID-19

Author

Ahern, David J, Ai, Zhichao, Ainsworth, Mark, Allan, Chris, Allcock, Alice, Angus, Brian, Ansari, M Azim, Arancibia-Cárcamo, Carolina, Aschenbrenner, Dominik, Attar, Moustafa, Baillie, J Kenneth, Barnes, Eleanor, Bashford-Rogers, Rachael, Bashyal, Archana, Beer, Sally, Berridge, Georgina, Beveridge, Amy, Bibi, Sagida, Bicanic, Tihana, Blackwell, Luke, Bowness, Paul, Brent, Andrew, Brown, Andrew, Broxholme, John, Buck, David, Burnham, Katie, Byrne, Helen, Camara, Susana, Ferreira, Ivan Candido, Charles, Philip, Chen, Wentao, Chen, Yi-Ling, Chong, Amanda, Clutterbuck, Elizabeth, Coles, Mark, Conlon, Christopher, Cornall, Richard, Cribbs, Adam, Curion, Fabiola, Davenport, Emma, Davidson, Neil, Davis, Simon, Dendrou, Calliope, Dequaire, Julie, Dib, Lea, Docker, James, Dold, Christina, Dong, Tao, Downes, Damien, Drakesmith, Hal, Dunachie, Susanna, Duncan, David, Eijsbouts, Chris, Esnouf, Robert, Espinosa, Alexis, Etherington, Rachel, Fairfax, Benjamin, Fairhead, Rory, Fang, Hai, Fassih, Shayan, Felle, Sally, Fernandez Mendoza, Maria, Ferreira, Ricardo, Fischer, Roman, Foord, Thomas, Forrow, Aden, Frater, John, Fries, Anastasia, Gallardo Sanchez, Veronica, Garner, Lucy, Geeves, Clementine, Georgiou, Dominique, Godfrey, Leila, Golubchik, Tanya, Gomez Vazquez, Maria, Green, Angie, Harper, Hong, Harrington, Heather, Heilig, Raphael, Hester, Svenja, Hill, Jennifer, Hinds, Charles, Hird, Clare, Ho, Ling-Pei, Hoekzema, Renee, Hollis, Benjamin, Hughes, Jim, Hutton, Paula, Jackson-Wood, Matthew, Jainarayanan, Ashwin, James-Bott, Anna, Jansen, Kathrin, Jeffery, Katie, Jones, Elizabeth, Jostins, Luke, Kerr, Georgina, Kim, David, Klenerman, Paul, Knight, Julian, Kumar, Vinod, Kumar Sharma, Piyush, Kurupati, Prathiba, Kwok, Andrew, Lee, Angela, Linder, Aline, Lockett, Teresa, Lonie, Lorne, Lopopolo, Maria, Lukoseviciute, Martyna, Luo, Jian, Marinou, Spyridoula, Marsden, Brian, Martinez, Jose, Matthews, Philippa, Mazurczyk, Michalina, McGowan, Simon, McKechnie, Stuart, Mead, Adam, Mentzer, Alexander, Mi, Yuxin, Monaco, Claudia, Montadon, Ruddy, Napolitani, Giorgio, Nassiri, Isar, Novak, Alex, O'Brien, Darragh, O'Connor, Daniel, O'Donnell, Denise, Ogg, Graham, Overend, Lauren, Park, Inhye, Pavord, Ian, Peng, Yanchun, Penkava, Frank, Pereira Pinho, Mariana, Perez, Elena, Pollard, Andrew, Powrie, Fiona, Psaila, Bethan, Quan, T Phuong, Repapi, Emmanouela, Revale, Santiago, Silva-Reyes, Laura, Richard, Jean-Baptiste, Rich-Griffin, Charlotte, Ritter, Thomas, Rollier, Christine, Rowland, Matthew, Ruehle, Fabian, Salio, Mariolina, Sansom, Stephen Nicholas, Sanches Peres, Raphael, Santos Delgado, Alberto, Sauka-Spengler, Tatjana, Schwessinger, Ron, Scozzafava, Giuseppe, Screaton, Gavin, Seigal, Anna, Semple, Malcolm, Sergeant, Martin, Simoglou Karali, Christina, Sims, David, Skelly, Donal, Slawinski, Hubert, Sobrinodiaz, Alberto, Sousos, Nikolaos, Stafford, Lizzie, Stockdale, Lisa, Strickland, Marie, Sumray, Otto, Sun, Bo, Taylor, Chelsea, Taylor, Stephen, Taylor, Adan, Thongjuea, Supat, Thraves, Hannah, Todd, John, Tomic, Adriana, Tong, Orion, Trebes, Amy, Trzupek, Dominik, Tucci, Felicia Anna, Turtle, Lance, Udalova, Irina, Uhlig, Holm, van Grinsven, Erinke, Vendrell, Iolanda, Verheul, Marije, Voda, Alexandru, Wang, Guanlin, Wang, Lihui, Wang, Dapeng, Watkinson, Peter, Watson, Robert, Weinberger, Michael, Whalley, Justin, Witty, Lorna, Wray, Katherine, Xue, Luzheng, Yuen Yeung, Hing, Yin, Zixi, Young, Rebecca, Youngs, Jonathan, Zhang, Ping, Zurke, Yasemin-Xiomara, Banning, Adrian, Antonopoulos, Alexios, Bajaj, Amrita, Kelion, Andrew, Deshpande, Aparna, Kardos, Attila, Hudson, Benjamin, Koo, Bon-Kwon, Shirodaria, Cheerag, Xie, Cheng, Kotanidis, Christos, Mahon, Ciara, Berry, Colin, Adlam, David, Newby, David, Connolly, Derek, Scaletta, Diane, Alexander, Donna, Nicol, Ed, McAlindon, Elisa, Oikonomou, Evangelos, Pugliese, Francesca, Pontone, Gianluca, Benedetti, Giulia, He, Guo-Wei, West, Henry, Kondo, Hidekazu, Benedek, Imre, Das, Intrajeet, Deanfield, John, Graby, John, Greenwood, John, Rodrigues, Jonathan, Ge, Junbo, Channon, Keith, Fabritz, Larissa, Fan, Li-Juan, Kingham, Lucy, Guglielmo, Marco, Lyasheva, Maria, Schmitt, Matthias, Beer, Meinrad, Anderson, Michelle, Desai, Milind, Marwan, Mohamed, Takahashi, Naohiko, Mehta, Nehal, Dai, Neng, Screaton, Nicholas, Sabharwal, Nikant, Maurovich-Horvat, Pál, Rao, Praveen, Kotronias, Rafail, Kharbanda, Rajesh, Preston, Rebecca, Wood, Richard, Blankstein, Ron, Rajani, Ronak, Mirsadraee, Saeed, Munir, Shahzad, Thomas, Sheena, Neubauer, Stefan, Klömpken, Steffen, Petersen, Steffen, Achenbach, Stephan, Anthony, Susan, Mak, Sze, Mittal, Tarun, Benedek, Theodora, Sharma, Vinoda, Lin, Wen-Hua, Kotanidis, Christos P, Rodrigues, Jonathan C L, O’Connor, Daniel, Siddique, Muhammad, Lockstone, Helen, Oikonomou, Evangelos K, Badi, Ileana, Lumley, Sheila F, Constantinides, Bede, Sanderson, Nicholas, Rodger, Gillian, Chau, Kevin K, Lodge, Archie, Tsakok, Maria, Gleeson, Fergus, Indrajeet, Das, Hudson, Benjamin J, Srivastava, Vivek, Farid, Shakil, Krasopoulos, George, Sayeed, Rana, Newby, David E, Channon, Keith M, and Antoniades, Charalambos

Published
2022
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4. Peer support for people living with hepatitis B virus—A foundation for treatment expansion

Author

Downs, Louise O., primary, Kabagambe, Kenneth, additional, Williams, Sarah, additional, Waddilove, Elizabeth, additional, Delphin, Marion, additional, Lumley, Sheila F., additional, Ndungutse, Richard, additional, Kimono, Beatrice, additional, Newton, Robert, additional, Ko, Joy, additional, Martyn, Emily, additional, Carter, Jessica, additional, Kemper, Agnieszka, additional, Monteiro, Fernando, additional, O'Regan, Sive, additional, Surey, Julian, additional, Sultan, Binta, additional, Story, Alistair, additional, MacDonald, Douglas, additional, Tu, Thomas, additional, Seeley, Janet, additional, Dusheiko, Geoffrey, additional, Maponga, Tongai, additional, Andersson, Monique I., additional, Spearman, C. Wendy, additional, Tucker, Joseph D., additional, Cohen, Chari, additional, Wang, Su, additional, Adda, Danjuma, additional, Freeland, Catherine, additional, Halford, Rachel, additional, Jack, Kathryn, additional, Ghosh, Indrajit, additional, Elsharkawy, Ahmed M., additional, Matthews, Philippa C., additional, and Flanagan, Stuart, additional

Published
2024
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5. COVID-19: Rapid antigen detection for SARS-CoV-2 by lateral flow assay: A national systematic evaluation of sensitivity and specificity for mass-testing

Author

Affron, Dominic, Afrough, Babak, Agasu, Anita, Ainsworth, Mark, Allanson, Alison, Allen, Katherine, Allen, Collette, Archer, Lorraine, Ashbridge, Natasha, Aurfan, Iman, Avery, Miriam, Badenoch, Ellena, Bagga, Priya, Balaji, Rishab, Baldwin, Ella, Barraclough, Sophie, Beane, Carol, Bell, John, Benford, Tracy, Bird, Susan, Bishop, Marina, Bloss, Angela, Body, Richard, Boulton, Rosie, Bown, Abbie, Bratten, Carla, Bridgeman, Chris, Britton, Dominic, Brooks, Tim, Broughton-Smith, Margaret, Brown, Pauline, Buck, Beverley, Butcher, Elaine, Byrne, Wendy, Calderon, Gloria, Campbell, Siobhan, Carr, Olivia, Carter, Penny, Carter, Daniel, Cathrall, Megan, Catton, Matthew, Chadwick, Jim, Chapman, David, Chau, Kevin K., Chaudary, Tanzina, Chidavaenzi, Shaolin, Chilcott, Samatha, Choi, Bea, Claasen, Hannah, Clark, Simon, Clarke, Richard, Clarke, Dawn, Clayton, Richard, Collins, Kayleigh, Colston, Rima, Connolly, James, Cook, Eloïse, Corcoran, Marie, Corley, Ben, Costello, Laura, Coulson, Caroline, Crook, Ant, Crook, Derrick W., D'Arcangelo, Silvia, Darby, Mary-Anne, Davis, John, de Koning, Rosaline, Derbyshire, Pauline, Devall, Pam, Dolman, Mark, Draper, Natalie, Driver, Mark, Dyas, Sarah, Eaton, Emily, Edwards, Joy, Elderfield, Ruth, Ellis, Kate, Ellis, Graham, Elwell, Sue, Evans, Rachel, Evans, Becky, Evans, Marion, Evans, Ranoromanana, Eyre, David, Fahey, Codie, Fenech, Vanessa, Field, Janet, Field, Alice, Foord, Tom, Fowler, Tom, French, Mollie, Fuchs, Hannah, Gan, Jasmine, Gernon, Joseph, Ghadiali, Geeta, Ghuman, Narindar, Gibbons, Kerry, Gill, Gurvinder, Gilmour, Kate, Goel, Anika, Gordon, Sally, Graham, Tillie, Grassam-Rowe, Alexander, Green, David, Gronert, Anna, Gumsley-Read, Tegan, Hall, Claire, Hallis, Bassam, Hammond, Sally, Hammond, Peter, Hanney, Beth, Hardy, Victoria, Harker, Gabriella, Harris, Andrew, Havinden-Williams, May, Hazell, Elena, Henry, Joanne, Hicklin, Kim, Hollier, Kelly, Holloway, Ben, Hoosdally, Sarah J., Hopkins, Susan, Hughes, Lucy, Hurdowar, Steve, Hurford, Sally-Anne, Jackman, Joanne, Jackson, Harriet, Johns, Ruth, Johnston, Susan, Jones, Juliet, Kanyowa, Tinashe, Keating-Fedders, Katie, Kempson, Sharon, Khan, Iftikhar, Khulusi, Beinn, Knight, Thomas, Krishna, Anuradha, Lahert, Patrick, Lampshire, Zoe, Lasserson, Daniel, Lee, Kirsten, Lee, Lennard Y.W., Legard, Arabella, Leggio, Cristina, Liu, Justin, Lockett, Teresa, Logue, Christopher, Lucas, Vanessa, Lumley, Sheila F., Maripuri, Vindhya, Markham, Des, Marshall, Emma, Matthews, Philippa C., Mckee, Sarah, McKee, Deborah F., McLeod, Neil, McNulty, Antoinette, Mellor, Freddie, Michel, Rachel, Mighiu, Alex, Miller, Julie, Mirza, Zarina, Mistry, Heena, Mitchell, Jane, Moeser, Mika Erik, Moore, Sophie, Muthuswamy, Akhila, Myers, Daniel, Nanson, Gemma, Newbury, Mike, Nicol, Scott, Nuttall, Harry, Nwanaforo, Jewel Jones, Oliver, Louise, Osbourne, Wendy, Osbourne, Jake, Otter, Ashley, Owen, Jodie, Panchalingam, Sulaksan, Papoulidis, Dimitris, Pavon, Juan Dobaldo, Peace, Arro, Pearson, Karen, Peck, Liam, Pegg, Ashley, Pegler, Suzannah, Permain, Helen, Perumal, Prem, Peto, Leon, Peto, Tim E.A., Pham, Thanh, Pickford, Hayleah L., Pinkerton, Mark, Platton, Michelle, Price, Ashley, Protheroe, Emily, Purnell, Hellen, Rawden, Lottie, Read, Sara, Reynard, Charles, Ridge, Susan, Ritter, Tom G., Robinson, James, Robinson, Patrick, Rodger, Gillian, Rowe, Cathy, Rowell, Bertie, Rowlands, Alexandra, Sampson, Sarah, Saunders, Kathryn, Sayers, Rachel, Sears, Jackie, Sedgewick, Richard, Seeney, Laura, Selassie, Amanda, Shail, Lloyd, Shallcross, Jane, Sheppard, Lucy, Sherkat, Anna, Siddiqui, Shelha, Sienkiewicz, Alex, Sinha, Lavanya, Smith, Jennifer, Smith, Ella, Stanton, Emma, Starkey, Thomas, Stawiarski, Aleksander, Sterry, Amelia, Stevens, Joe, Stockbridge, Mark, Stoesser, Nicole, Sukumaran, Anila, Sweed, Angela, Tatar, Sami, Thomas, Hema, Tibbins, Carly, Tiley, Sian, Timmins, Julie, Tomas-Smith, Cara, Topping, Oliver, Turek, Elena, Neibler, Toi, Trigg-Hogarth, Kate, Truelove, Elizabeth, Turnbull, Chris, Tyrrell, David, Vaughan, Alison, Vertannes, John, Vipond, Richard, Wagstaff, Linda, Waldron, Joanne, Walker, Philip, Walker, Ann Sarah, Walters, Mary, Wang, Jenny Y, Watson, Ellie, Webberley, Kate, Webster, Kimerbley, Westland, Grace, Wickens, Ian, Willcocks, Jane, Willis, Herika, Wilson, Stephen, Wilson, Barbara, Woodhead, Louise, Wright, Deborah, Xavier, Bindhu, Yelnoorkar, Fiona, Zeidan, Lisa, Zinyama, Rangeni, and Peto, Tim

Published
2021
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6. Performance characteristics of five immunoassays for SARS-CoV-2: a head-to-head benchmark comparison

Author

Ainsworth, Mark, Andersson, Monique, Auckland, Kathryn, Baillie, J Kenneth, Barnes, Eleanor, Beer, Sally, Beveridge, Amy, Bibi, Sagida, Blackwell, Luke, Borak, Martyna, Bown, Abbie, Brooks, Tim, Burgess-Brown, Nicola A, Camara, Susana, Catton, Matthew, Chau, Kevin K., Christott, Thomas, Clutterbuck, Elizabeth, Coker, Jesse, Cornall, Richard J, Cox, Stuart, Crawford-Jones, David, Crook, Derrick W, D'Arcangelo, Silvia, Dejnirattsai, Wanwisa, Dequaire, Julie M M, Dimitriadis, Stavros, Dingle, Kate E, Doherty, George, Dold, Christina, Dong, Tao, Dunachie, Susanna J, Ebner, Daniel, Emmenegger, Marc, Espinosa, Alexis, Eyre, David W, Fairhead, Rory, Fassih, Shayan, Feehily, Conor, Felle, Sally, Fernandez-Cid, Alejandra, Fernandez Mendoza, Maria, Foord, Thomas H, Fordwoh, Thomas, Fox McKee, Deborah, Frater, John, Gallardo Sanchez, Veronica, Gent, Nick, Georgiou, Dominique, Groves, Christopher J, Hallis, Bassam, Hammond, Peter M, Hatch, Stephanie B., Harvala, Heli J, Hill, Jennifer, Hoosdally, Sarah J, Horsington, Bryn, Howarth, Alison, James, Tim, Jeffery, Katie, Jones, Elizabeth, Justice, Anita, Karpe, Fredrik, Kavanagh, James, Kim, David S, Kirton, Richard, Klenerman, Paul, Knight, Julian C, Koukouflis, Leonidas, Kwok, Andrew, Leuschner, Ullrich, Levin, Robert, Linder, Aline, Lockett, Teresa, Lumley, Sheila F, Marinou, Spyridoula, Marsden, Brian D, Martinez, Jose, Martins Ferreira, Lucas, Mason, Lara, Matthews, Philippa C, Mentzer, Alexander J, Mobbs, Alexander, Mongkolsapaya, Juthathip, Morrow, Jordan, Mukhopadhyay, Shubhashish M M, Neville, Matthew J, Oakley, Sarah, Oliveira, Marta, Otter, Ashley, Paddon, Kevin, Pascoe, Jordan, Peng, Yanchun, Perez, Elena, Perumal, Prem K, Peto, Timothy E A, Pickford, Hayleah, Ploeg, Rutger J, Pollard, Andrew J, Richardson, Anastasia, Ritter, Thomas G, Roberts, David J, Rodger, Gillian, Rollier, Christine S, Rowe, Cathy, Rudkin, Justine K, Screaton, Gavin, Semple, Malcolm G, Sienkiewicz, Alex, Silva-Reyes, Laura, Skelly, Donal T, Sobrino Diaz, Alberto, Stafford, Lizzie, Stockdale, Lisa, Stoesser, Nicole, Street, Teresa, Stuart, David I, Sweed, Angela, Taylor, Adan, Thraves, Hannah, Tsang, Hoi P, Verheul, Marije K, Vipond, Richard, Walker, Timothy M, Wareing, Susan, Warren, Yolanda, Wells, Charlie, Wilson, Clare, Withycombe, Kate, and Young, Rebecca K

Published
2020
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8. Corrigendum to A systematic review and meta-analysis of the risk of hepatitis B virus (HBV) resistance in people treated with entecavir or tenofovir.: Journal of Clinical Virology 174 (2024) 105711

Author

Lumley, Sheila F., Delphin, Marion, Mokaya, Jolynne, Tan, Cedric C.S., Martyn, Emily, Anderson, Motswedi, Li, Ka Chun, Waddilove, Elizabeth, Sukali, Gloria, Downs, Louise O., Said, Khadija, Okanda, Dorcas, Campbell, Cori, Harriss, Eli, Shimakawa, Yusuke, and Matthews, Philippa C.

Published
2024
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10. A systematic review and meta-analysis of the risk of hepatitis B virus (HBV) genotypic resistance in people treated with entecavir or tenofovir

Author

Lumley, Sheila F, primary, Delphin, Marion, additional, Mokaya, Jolynne F, additional, Tan, Cedric CS, additional, Martyn, Emily, additional, Anderson, Motswedi, additional, Li, Ka Chun, additional, Waddilove, Elizabeth, additional, Sukali, Gloria, additional, Downs, Louise O, additional, Said, Kadija, additional, Okanda, Dorcas, additional, Campbell, Cori, additional, Harriss, Eli, additional, Shimakawa, Yusuke, additional, and Matthews, Philippa C, additional

Published
2023
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11. Transmission of community- and hospital-acquired SARS-CoV-2 in hospital settings in the UK: A cohort study

Author

Mo, Yin, Eyre, David W., Lumley, Sheila F., Walker, Timothy M., Shaw, Robert H., O'Donnell, Denise, Butcher, Lisa, Jeffery, Katie, Donnelly, Christl A., and Cooper, Ben S.

Subjects
Epidemics -- Statistics -- Risk factors -- United Kingdom, Cross infection -- Statistics -- Risk factors, Nosocomial infections -- Statistics -- Risk factors, Disease transmission -- Risk factors -- Statistics, Biological sciences
Abstract

Background Nosocomial spread of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has been widely reported, but the transmission pathways among patients and healthcare workers (HCWs) are unclear. Identifying the risk factors and drivers for these nosocomial transmissions is critical for infection prevention and control interventions. The main aim of our study was to quantify the relative importance of different transmission pathways of SARS-CoV-2 in the hospital setting. Methods and findings This is an observational cohort study using data from 4 teaching hospitals in Oxfordshire, United Kingdom, from January to October 2020. Associations between infectious SARS-CoV-2 individuals and infection risk were quantified using logistic, generalised additive and linear mixed models. Cases were classified as community- or hospital-acquired using likely incubation periods of 3 to 7 days. Of 66,184 patients who were hospitalised during the study period, 920 had a positive SARS-CoV-2 PCR test within the same period (1.4%). The mean age was 67.9 (±20.7) years, 49.2% were females, and 68.5% were from the white ethnic group. Out of these, 571 patients had their first positive PCR tests while hospitalised (62.1%), and 97 of these occurred at least 7 days after admission (10.5%). Among the 5,596 HCWs, 615 (11.0%) tested positive during the study period using PCR or serological tests. The mean age was 39.5 (±11.1) years, 78.9% were females, and 49.8% were nurses. For susceptible patients, 1 day in the same ward with another patient with hospital-acquired SARS-CoV-2 was associated with an additional 7.5 infections per 1,000 susceptible patients (95% credible interval (CrI) 5.5 to 9.5/1,000 susceptible patients/day) per day. Exposure to an infectious patient with community-acquired Coronavirus Disease 2019 (COVID-19) or to an infectious HCW was associated with substantially lower infection risks (2.0/1,000 susceptible patients/day, 95% CrI 1.6 to 2.2). As for HCW infections, exposure to an infectious patient with hospital-acquired SARS-CoV-2 or to an infectious HCW were both associated with an additional 0.8 infection per 1,000 susceptible HCWs per day (95% CrI 0.3 to 1.6 and 0.6 to 1.0, respectively). Exposure to an infectious patient with community-acquired SARS-CoV-2 was associated with less than half this risk (0.2/1,000 susceptible HCWs/day, 95% CrI 0.2 to 0.2). These assumptions were tested in sensitivity analysis, which showed broadly similar results. The main limitations were that the symptom onset dates and HCW absence days were not available. Conclusions In this study, we observed that exposure to patients with hospital-acquired SARS-CoV-2 is associated with a substantial infection risk to both HCWs and other hospitalised patients. Infection control measures to limit nosocomial transmission must be optimised to protect both staff and patients from SARS-CoV-2 infection., Author(s): Yin Mo 1,2,3,4,*, David W. Eyre 5,6,7,8, Sheila F. Lumley 6, Timothy M. Walker 1,6,10, Robert H. Shaw 6, Denise O'Donnell 6, Lisa Butcher 6, Katie Jeffery 6,9, Christl [...]

Published
2021
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12. Quantitative SARS-CoV-2 anti-spike responses to Pfizer–BioNTech and Oxford–AstraZeneca vaccines by previous infection status

Author

Eyre, David W., Lumley, Sheila F., Wei, Jia, Cox, Stuart, James, Tim, Justice, Anita, Jesuthasan, Gerald, O'Donnell, Denise, Howarth, Alison, Hatch, Stephanie B., Marsden, Brian D., Jones, E. Yvonne, Stuart, David I., Ebner, Daniel, Hoosdally, Sarah, Crook, Derrick W., Peto, Tim E.A., Walker, Timothy M., Stoesser, Nicole E., Matthews, Philippa C., Pouwels, Koen B., Walker, A. Sarah, and Jeffery, Katie

Published
2021
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14. Pan-genotypic probe-based enrichment to improve efficiency of Hepatitis B virus sequencing

Author

Lumley, Sheila F, primary, Jennings, Daisy, additional, Waddilove, Elizabeth, additional, Trebes, Amy, additional, Delphin, Marion, additional, Downs, Louise O, additional, MacIntyre-Cockett, George, additional, Wu, Yanxia, additional, Chaudron, Sandra, additional, de Lara, Catherine, additional, Chai, Haiting, additional, Maponga, Tongai G, additional, Martin, Jacqueline, additional, Collier, Jane, additional, Ip, Camilla LC, additional, Barnes, Eleanor, additional, Bonsall, David, additional, Piazza, Paolo, additional, Ansari, M. Azim, additional, and Matthews, Philippa C, additional

Published
2023
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15. Constructing custom-made radiotranscriptomic signatures of vascular inflammation from routine CT angiograms: a prospective outcomes validation study in COVID-19

Author

Kotanidis, Christos P, primary, Xie, Cheng, additional, Alexander, Donna, additional, Rodrigues, Jonathan C L, additional, Burnham, Katie, additional, Mentzer, Alexander, additional, O’Connor, Daniel, additional, Knight, Julian, additional, Siddique, Muhammad, additional, Lockstone, Helen, additional, Thomas, Sheena, additional, Kotronias, Rafail, additional, Oikonomou, Evangelos K, additional, Badi, Ileana, additional, Lyasheva, Maria, additional, Shirodaria, Cheerag, additional, Lumley, Sheila F, additional, Constantinides, Bede, additional, Sanderson, Nicholas, additional, Rodger, Gillian, additional, Chau, Kevin K, additional, Lodge, Archie, additional, Tsakok, Maria, additional, Gleeson, Fergus, additional, Adlam, David, additional, Rao, Praveen, additional, Indrajeet, Das, additional, Deshpande, Aparna, additional, Bajaj, Amrita, additional, Hudson, Benjamin J, additional, Srivastava, Vivek, additional, Farid, Shakil, additional, Krasopoulos, George, additional, Sayeed, Rana, additional, Ho, Ling-Pei, additional, Neubauer, Stefan, additional, Newby, David E, additional, Channon, Keith M, additional, Deanfield, John, additional, Antoniades, Charalambos, additional, Ahern, David J, additional, Ai, Zhichao, additional, Ainsworth, Mark, additional, Allan, Chris, additional, Allcock, Alice, additional, Angus, Brian, additional, Ansari, M Azim, additional, Arancibia-Cárcamo, Carolina, additional, Aschenbrenner, Dominik, additional, Attar, Moustafa, additional, Baillie, J Kenneth, additional, Barnes, Eleanor, additional, Bashford-Rogers, Rachael, additional, Bashyal, Archana, additional, Beer, Sally, additional, Berridge, Georgina, additional, Beveridge, Amy, additional, Bibi, Sagida, additional, Bicanic, Tihana, additional, Blackwell, Luke, additional, Bowness, Paul, additional, Brent, Andrew, additional, Brown, Andrew, additional, Broxholme, John, additional, Buck, David, additional, Byrne, Helen, additional, Camara, Susana, additional, Ferreira, Ivan Candido, additional, Charles, Philip, additional, Chen, Wentao, additional, Chen, Yi-Ling, additional, Chong, Amanda, additional, Clutterbuck, Elizabeth, additional, Coles, Mark, additional, Conlon, Christopher, additional, Cornall, Richard, additional, Cribbs, Adam, additional, Curion, Fabiola, additional, Davenport, Emma, additional, Davidson, Neil, additional, Davis, Simon, additional, Dendrou, Calliope, additional, Dequaire, Julie, additional, Dib, Lea, additional, Docker, James, additional, Dold, Christina, additional, Dong, Tao, additional, Downes, Damien, additional, Drakesmith, Hal, additional, Dunachie, Susanna, additional, Duncan, David, additional, Eijsbouts, Chris, additional, Esnouf, Robert, additional, Espinosa, Alexis, additional, Etherington, Rachel, additional, Fairfax, Benjamin, additional, Fairhead, Rory, additional, Fang, Hai, additional, Fassih, Shayan, additional, Felle, Sally, additional, Fernandez Mendoza, Maria, additional, Ferreira, Ricardo, additional, Fischer, Roman, additional, Foord, Thomas, additional, Forrow, Aden, additional, Frater, John, additional, Fries, Anastasia, additional, Gallardo Sanchez, Veronica, additional, Garner, Lucy, additional, Geeves, Clementine, additional, Georgiou, Dominique, additional, Godfrey, Leila, additional, Golubchik, Tanya, additional, Gomez Vazquez, Maria, additional, Green, Angie, additional, Harper, Hong, additional, Harrington, Heather, additional, Heilig, Raphael, additional, Hester, Svenja, additional, Hill, Jennifer, additional, Hinds, Charles, additional, Hird, Clare, additional, Hoekzema, Renee, additional, Hollis, Benjamin, additional, Hughes, Jim, additional, Hutton, Paula, additional, Jackson-Wood, Matthew, additional, Jainarayanan, Ashwin, additional, James-Bott, Anna, additional, Jansen, Kathrin, additional, Jeffery, Katie, additional, Jones, Elizabeth, additional, Jostins, Luke, additional, Kerr, Georgina, additional, Kim, David, additional, Klenerman, Paul, additional, Kumar, Vinod, additional, Kumar Sharma, Piyush, additional, Kurupati, Prathiba, additional, Kwok, Andrew, additional, Lee, Angela, additional, Linder, Aline, additional, Lockett, Teresa, additional, Lonie, Lorne, additional, Lopopolo, Maria, additional, Lukoseviciute, Martyna, additional, Luo, Jian, additional, Marinou, Spyridoula, additional, Marsden, Brian, additional, Martinez, Jose, additional, Matthews, Philippa, additional, Mazurczyk, Michalina, additional, McGowan, Simon, additional, McKechnie, Stuart, additional, Mead, Adam, additional, Mi, Yuxin, additional, Monaco, Claudia, additional, Montadon, Ruddy, additional, Napolitani, Giorgio, additional, Nassiri, Isar, additional, Novak, Alex, additional, O'Brien, Darragh, additional, O'Connor, Daniel, additional, O'Donnell, Denise, additional, Ogg, Graham, additional, Overend, Lauren, additional, Park, Inhye, additional, Pavord, Ian, additional, Peng, Yanchun, additional, Penkava, Frank, additional, Pereira Pinho, Mariana, additional, Perez, Elena, additional, Pollard, Andrew, additional, Powrie, Fiona, additional, Psaila, Bethan, additional, Quan, T Phuong, additional, Repapi, Emmanouela, additional, Revale, Santiago, additional, Silva-Reyes, Laura, additional, Richard, Jean-Baptiste, additional, Rich-Griffin, Charlotte, additional, Ritter, Thomas, additional, Rollier, Christine, additional, Rowland, Matthew, additional, Ruehle, Fabian, additional, Salio, Mariolina, additional, Sansom, Stephen Nicholas, additional, Sanches Peres, Raphael, additional, Santos Delgado, Alberto, additional, Sauka-Spengler, Tatjana, additional, Schwessinger, Ron, additional, Scozzafava, Giuseppe, additional, Screaton, Gavin, additional, Seigal, Anna, additional, Semple, Malcolm, additional, Sergeant, Martin, additional, Simoglou Karali, Christina, additional, Sims, David, additional, Skelly, Donal, additional, Slawinski, Hubert, additional, Sobrinodiaz, Alberto, additional, Sousos, Nikolaos, additional, Stafford, Lizzie, additional, Stockdale, Lisa, additional, Strickland, Marie, additional, Sumray, Otto, additional, Sun, Bo, additional, Taylor, Chelsea, additional, Taylor, Stephen, additional, Taylor, Adan, additional, Thongjuea, Supat, additional, Thraves, Hannah, additional, Todd, John, additional, Tomic, Adriana, additional, Tong, Orion, additional, Trebes, Amy, additional, Trzupek, Dominik, additional, Tucci, Felicia Anna, additional, Turtle, Lance, additional, Udalova, Irina, additional, Uhlig, Holm, additional, van Grinsven, Erinke, additional, Vendrell, Iolanda, additional, Verheul, Marije, additional, Voda, Alexandru, additional, Wang, Guanlin, additional, Wang, Lihui, additional, Wang, Dapeng, additional, Watkinson, Peter, additional, Watson, Robert, additional, Weinberger, Michael, additional, Whalley, Justin, additional, Witty, Lorna, additional, Wray, Katherine, additional, Xue, Luzheng, additional, Yuen Yeung, Hing, additional, Yin, Zixi, additional, Young, Rebecca, additional, Youngs, Jonathan, additional, Zhang, Ping, additional, Zurke, Yasemin-Xiomara, additional, Banning, Adrian, additional, Antonopoulos, Alexios, additional, Kelion, Andrew, additional, Kardos, Attila, additional, Hudson, Benjamin, additional, Koo, Bon-Kwon, additional, Kotanidis, Christos, additional, Mahon, Ciara, additional, Berry, Colin, additional, Newby, David, additional, Connolly, Derek, additional, Scaletta, Diane, additional, Nicol, Ed, additional, McAlindon, Elisa, additional, Oikonomou, Evangelos, additional, Pugliese, Francesca, additional, Pontone, Gianluca, additional, Benedetti, Giulia, additional, He, Guo-Wei, additional, West, Henry, additional, Kondo, Hidekazu, additional, Benedek, Imre, additional, Das, Intrajeet, additional, Graby, John, additional, Greenwood, John, additional, Rodrigues, Jonathan, additional, Ge, Junbo, additional, Channon, Keith, additional, Fabritz, Larissa, additional, Fan, Li-Juan, additional, Kingham, Lucy, additional, Guglielmo, Marco, additional, Schmitt, Matthias, additional, Beer, Meinrad, additional, Anderson, Michelle, additional, Desai, Milind, additional, Marwan, Mohamed, additional, Takahashi, Naohiko, additional, Mehta, Nehal, additional, Dai, Neng, additional, Screaton, Nicholas, additional, Sabharwal, Nikant, additional, Maurovich-Horvat, Pál, additional, Kharbanda, Rajesh, additional, Preston, Rebecca, additional, Wood, Richard, additional, Blankstein, Ron, additional, Rajani, Ronak, additional, Mirsadraee, Saeed, additional, Munir, Shahzad, additional, Klömpken, Steffen, additional, Petersen, Steffen, additional, Achenbach, Stephan, additional, Anthony, Susan, additional, Mak, Sze, additional, Mittal, Tarun, additional, Benedek, Theodora, additional, Sharma, Vinoda, additional, and Lin, Wen-Hua, additional

Published
2022
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16. Fatal COVID-19 outcomes are associated with an antibody response targeting epitopes shared with endemic coronaviruses

Author

McNaughton, Anna L, Paton, Robert S, Edmans, Matthew, Youngs, Jonathan, Wellens, Judith, Phalora, Prabhjeet, Fyfe, Alex, Belij-Rammerstorfer, Sandra, Bolton, Jai S, Ball, Jonathan, Carnell, George W, Dejnirattisai, Wanwisa, Dold, Christina, Eyre, David W, Hopkins, Philip, Howarth, Alison, Kooblall, Kreepa, Klim, Hannah, Leaver, Susannah, Lee, Lian Ni, López-Camacho, César, Lumley, Sheila F, Macallan, Derek C, Mentzer, Alexander J, Provine, Nicholas M, Ratcliff, Jeremy, Slon-Compos, Jose, Skelly, Donal, Stolle, Lucas, Supasa, Piyada, Temperton, Nigel, Walker, Chris, Wang, Beibei, Wyncoll, Duncan, Oxford Protective T Cell Immunology for COVID-19 (OPTIC) consortium, Scottish National Blood Transfusion Service (SNBTS) consortium, Simmonds, Peter, Lambe, Teresa, Baillie, John Kenneth, Semple, Malcolm G, Openshaw, Peter Jm, International Severe Acute Respiratory and emerging Infection Consortium Coronavirus Clinical Characterisation Consortium (ISARIC4C) investigators, Obolski, Uri, Turner, Marc, Carroll, Miles, Mongkolsapaya, Juthathip, Screaton, Gavin, Kennedy, Stephen H, Jarvis, Lisa, Barnes, Eleanor, Dunachie, Susanna, Lourenço, José, Matthews, Philippa C, Bicanic, Tihana, Klenerman, Paul, Gupta, Sunetra, Thompson, Craig P, Carnell, George [0000-0001-8875-0989], and Apollo - University of Cambridge Repository

Subjects
Infectious disease, Epitopes, SARS-CoV-2, FOS: Clinical medicine, Adaptive immunity, Immunology, Antibody Formation, Spike Glycoprotein, Coronavirus, COVID-19, Humans, Imprinting, Antibodies, Viral
Abstract

The role of immune responses to previously seen endemic coronavirus epitopes in severe acute respiratory coronavirus 2 (SARS-CoV-2) infection and disease progression has not yet been determined. Here, we show that a key characteristic of fatal outcomes with coronavirus disease 2019 (COVID-19) is that the immune response to the SARS-CoV-2 spike protein is enriched for antibodies directed against epitopes shared with endemic beta-coronaviruses and has a lower proportion of antibodies targeting the more protective variable regions of the spike. The magnitude of antibody responses to the SARS-CoV-2 full-length spike protein, its domains and subunits, and the SARS-CoV-2 nucleocapsid also correlated strongly with responses to the endemic beta-coronavirus spike proteins in individuals admitted to an intensive care unit (ICU) with fatal COVID-19 outcomes, but not in individuals with nonfatal outcomes. This correlation was found to be due to the antibody response directed at the S2 subunit of the SARS-CoV-2 spike protein, which has the highest degree of conservation between the beta-coronavirus spike proteins. Intriguingly, antibody responses to the less cross-reactive SARS-CoV-2 nucleocapsid were not significantly different in individuals who were admitted to an ICU with fatal and nonfatal outcomes, suggesting an antibody profile in individuals with fatal outcomes consistent with an "original antigenic sin" type response.

Published
2022
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17. Fatal COVID-19 outcomes are associated with an antibody response targeting epitopes shared with endemic coronaviruses

Author

McNaughton, Anna L., primary, Paton, Robert S., additional, Edmans, Matthew, additional, Youngs, Jonathan, additional, Wellens, Judith, additional, Phalora, Prabhjeet, additional, Fyfe, Alex, additional, Belij-Rammerstorfer, Sandra, additional, Bolton, Jai S., additional, Ball, Jonathan, additional, Carnell, George W., additional, Dejnirattisai, Wanwisa, additional, Dold, Christina, additional, Eyre, David W., additional, Hopkins, Philip, additional, Howarth, Alison, additional, Kooblall, Kreepa, additional, Klim, Hannah, additional, Leaver, Susannah, additional, Lee, Lian Ni, additional, López-Camacho, César, additional, Lumley, Sheila F., additional, Macallan, Derek C., additional, Mentzer, Alexander J., additional, Provine, Nicholas M., additional, Ratcliff, Jeremy, additional, Slon-Compos, Jose, additional, Skelly, Donal, additional, Stolle, Lucas, additional, Supasa, Piyada, additional, Temperton, Nigel, additional, Walker, Chris, additional, Wang, Beibei, additional, Wyncoll, Duncan, additional, Simmonds, Peter, additional, Lambe, Teresa, additional, Baillie, John Kenneth, additional, Semple, Malcolm G., additional, Openshaw, Peter J.M., additional, Obolski, Uri, additional, Turner, Marc, additional, Carroll, Miles, additional, Mongkolsapaya, Juthathip, additional, Screaton, Gavin, additional, Kennedy, Stephen H., additional, Jarvis, Lisa, additional, Barnes, Eleanor, additional, Dunachie, Susanna, additional, Lourenço, José, additional, Matthews, Philippa C., additional, Bicanic, Tihana, additional, Klenerman, Paul, additional, Gupta, Sunetra, additional, and Thompson, Craig P., additional

Published
2022
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18. Fatal COVID-19 outcomes are associated with an antibody response targeting epitopes shared with endemic coronaviruses

Author

McNaughton, Anna L., Paton, Robert S., Edmans, Matthew, Youngs, Jonathan C.W., Wellens, Judith, Phalora, Prabhjeet, Fyfe, Alex, Belij-Rammerstorfer, Sandra, Bolton, Jai S., Ball, Jonathan, Carnell, George W., Dejnirattisai, Wanwisa, Dold, Christina, Eyre, David W., Hopkins, Philip, Howarth, Alison, Kooblall, Kreepa, Klim, Hannah, Leaver, Susannah, Lee, Lian N., López-Camacho, César, Lumley, Sheila F., Macallan, Derek C., Mentzer, Alexander J., Provine, Nicholas M., Ratcliff, Jeremy, Slon-Campos, Jose L., Skelly, Donal T., Stolle, Lucas B., Supasa, Piyada, Temperton, Nigel J., Walker, Chris, Wang, Beibei, Wyncoll, Duncan, Simmonds, Peter, Lambe, Teresa, Ballie, John K., Semple, Malcolm G., Openshaw, Peter J.M., Obolski, Uri, Turner, Marc, Carroll, Miles, Mongkolsapaya, Juthathip, Screaton, Gavin, Kennedy, Stephen H., Jarvis, Lisa M., Barnes, Eleanor, Dunachie, Susanna, Lourenço, José, Matthews, Philippa C., Bicanic, Tihana, Klenerman, Paul, Gupta, Sunetra, Thompson, Craig P., McNaughton, Anna L., Paton, Robert S., Edmans, Matthew, Youngs, Jonathan C.W., Wellens, Judith, Phalora, Prabhjeet, Fyfe, Alex, Belij-Rammerstorfer, Sandra, Bolton, Jai S., Ball, Jonathan, Carnell, George W., Dejnirattisai, Wanwisa, Dold, Christina, Eyre, David W., Hopkins, Philip, Howarth, Alison, Kooblall, Kreepa, Klim, Hannah, Leaver, Susannah, Lee, Lian N., López-Camacho, César, Lumley, Sheila F., Macallan, Derek C., Mentzer, Alexander J., Provine, Nicholas M., Ratcliff, Jeremy, Slon-Campos, Jose L., Skelly, Donal T., Stolle, Lucas B., Supasa, Piyada, Temperton, Nigel J., Walker, Chris, Wang, Beibei, Wyncoll, Duncan, Simmonds, Peter, Lambe, Teresa, Ballie, John K., Semple, Malcolm G., Openshaw, Peter J.M., Obolski, Uri, Turner, Marc, Carroll, Miles, Mongkolsapaya, Juthathip, Screaton, Gavin, Kennedy, Stephen H., Jarvis, Lisa M., Barnes, Eleanor, Dunachie, Susanna, Lourenço, José, Matthews, Philippa C., Bicanic, Tihana, Klenerman, Paul, Gupta, Sunetra, and Thompson, Craig P.

Abstract

The role of immune responses to previously seen endemic coronavirus epitopes in severe acute respiratory coronavirus 2 (SARS-CoV-2) infection and disease progression has not yet been determined. Here, we show that a key characteristic of fatal coronavirus disease (COVID-19) outcomes is that the immune response to the SARS-CoV-2 spike protein is enriched for antibodies directed against epitopes shared with endemic beta-coronaviruses, and has a lower proportion of antibodies targeting the more protective variable regions of the spike. The magnitude of antibody responses to the SARS-CoV-2 full-length spike protein, its domains and subunits, and the SARS-CoV-2 nucleocapsid also correlated strongly with responses to the endemic beta-coronavirus spike proteins in individuals admitted to intensive care units (ICU) with fatal COVID-19 outcomes, but not in individuals with non-fatal outcomes. This correlation was found to be due to the antibody response directed at the S2 subunit of the SARS-CoV-2 spike protein, which has the highest degree of conservation between the beta-coronavirus spike proteins. Intriguingly, antibody responses to the less cross-reactive SARS-CoV-2 nucleocapsid were not significantly different in individuals who were admitted to ICU with fatal and non-fatal outcomes, suggesting an antibody profile in individuals with fatal outcomes consistent with an original antigenic sin type-response.

Published
2022

19. Are the Patterns of Cytomegalovirus Viral Load Seen After Solid Organ Transplantation Affected by Circadian Rhythm?

Author

Rafferty, Hannah, primary, Murray, Matthew J, additional, Tam, Jerry C H, additional, Macfarlane, Alastair, additional, Smith, Colette, additional, Lumley, Sheila F, additional, Atabani, Sowsan, additional, McKeating, Jane A, additional, Sharma, Dinesh, additional, Reeves, Matthew, additional, Whitmore, David, additional, and Griffiths, Paul, additional

Published
2022
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20. Changes in paediatric respiratory infections at a UK teaching hospital 2016–2021; impact of the SARS-CoV-2 pandemic

Author

Lumley, Sheila F., primary, Richens, Nicholas, additional, Lees, Emily, additional, Cregan, Jack, additional, Kalimeris, Elizabeth, additional, Oakley, Sarah, additional, Morgan, Marcus, additional, Segal, Shelley, additional, Dawson, Moya, additional, Walker, A. Sarah, additional, Eyre, David W., additional, Crook, Derrick W., additional, Beer, Sally, additional, Novak, Alex, additional, Stoesser, Nicole E., additional, and Matthews, Philippa C., additional

Published
2022
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23. Changes in paediatric respiratory infections at a UK teaching hospital 2016-2021; impact of the SARS-CoV-2 pandemic

Author

Lumley, Sheila F., primary, Richens, Nicholas, additional, Lees, Emily, additional, Cregan, Jack, additional, Kalimeris, Elizabeth, additional, Oakley, Sarah, additional, Morgan, Marcus, additional, Segal, Shelley, additional, Dawson, Moya, additional, Walker, A. Sarah, additional, Eyre, David W., additional, Crook, Derrick W., additional, Beer, Sally, additional, Novak, Alex, additional, Stoesser, Nicole E., additional, and Matthews, Philippa C., additional

Published
2021
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24. Epidemiological data and genome sequencing reveals that nosocomial transmission of SARS-CoV-2 is underestimated and mostly mediated by a small number of highly infectious individuals

Author

Lumley, Sheila F, primary, Constantinides, Bede, additional, Sanderson, Nicholas, additional, Rodger, Gillian, additional, Street, Teresa L, additional, Swann, Jeremy, additional, Chau, Kevin K, additional, O'Donnell, Denise, additional, Warren, Fiona, additional, Hoosdally, Sarah, additional, O'Donnell, Anne-Marie, additional, Walker, Timothy M, additional, Stoesser, Nicole E, additional, Butcher, Lisa, additional, Peto, Tim EA, additional, Crook, Derrick W, additional, Jeffery, Katie, additional, Matthews, Philippa C, additional, and Eyre, David W, additional

Published
2021
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25. COVID-19: Rapid antigen detection for SARS-CoV-2 by lateral flow assay: A national systematic evaluation of sensitivity and specificity for mass-testing

Author

Peto, Tim, primary, Affron, Dominic, additional, Afrough, Babak, additional, Agasu, Anita, additional, Ainsworth, Mark, additional, Allanson, Alison, additional, Allen, Katherine, additional, Allen, Collette, additional, Archer, Lorraine, additional, Ashbridge, Natasha, additional, Aurfan, Iman, additional, Avery, Miriam, additional, Badenoch, Ellena, additional, Bagga, Priya, additional, Balaji, Rishab, additional, Baldwin, Ella, additional, Barraclough, Sophie, additional, Beane, Carol, additional, Bell, John, additional, Benford, Tracy, additional, Bird, Susan, additional, Bishop, Marina, additional, Bloss, Angela, additional, Body, Richard, additional, Boulton, Rosie, additional, Bown, Abbie, additional, Bratten, Carla, additional, Bridgeman, Chris, additional, Britton, Dominic, additional, Brooks, Tim, additional, Broughton-Smith, Margaret, additional, Brown, Pauline, additional, Buck, Beverley, additional, Butcher, Elaine, additional, Byrne, Wendy, additional, Calderon, Gloria, additional, Campbell, Siobhan, additional, Carr, Olivia, additional, Carter, Penny, additional, Carter, Daniel, additional, Cathrall, Megan, additional, Catton, Matthew, additional, Chadwick, Jim, additional, Chapman, David, additional, Chau, Kevin K., additional, Chaudary, Tanzina, additional, Chidavaenzi, Shaolin, additional, Chilcott, Samatha, additional, Choi, Bea, additional, Claasen, Hannah, additional, Clark, Simon, additional, Clarke, Richard, additional, Clarke, Dawn, additional, Clayton, Richard, additional, Collins, Kayleigh, additional, Colston, Rima, additional, Connolly, James, additional, Cook, Eloïse, additional, Corcoran, Marie, additional, Corley, Ben, additional, Costello, Laura, additional, Coulson, Caroline, additional, Crook, Ant, additional, Crook, Derrick W., additional, D'Arcangelo, Silvia, additional, Darby, Mary-Anne, additional, Davis, John, additional, de Koning, Rosaline, additional, Derbyshire, Pauline, additional, Devall, Pam, additional, Dolman, Mark, additional, Draper, Natalie, additional, Driver, Mark, additional, Dyas, Sarah, additional, Eaton, Emily, additional, Edwards, Joy, additional, Elderfield, Ruth, additional, Ellis, Kate, additional, Ellis, Graham, additional, Elwell, Sue, additional, Evans, Rachel, additional, Evans, Becky, additional, Evans, Marion, additional, Evans, Ranoromanana, additional, Eyre, David, additional, Fahey, Codie, additional, Fenech, Vanessa, additional, Field, Janet, additional, Field, Alice, additional, Foord, Tom, additional, Fowler, Tom, additional, French, Mollie, additional, Fuchs, Hannah, additional, Gan, Jasmine, additional, Gernon, Joseph, additional, Ghadiali, Geeta, additional, Ghuman, Narindar, additional, Gibbons, Kerry, additional, Gill, Gurvinder, additional, Gilmour, Kate, additional, Goel, Anika, additional, Gordon, Sally, additional, Graham, Tillie, additional, Grassam-Rowe, Alexander, additional, Green, David, additional, Gronert, Anna, additional, Gumsley-Read, Tegan, additional, Hall, Claire, additional, Hallis, Bassam, additional, Hammond, Sally, additional, Hammond, Peter, additional, Hanney, Beth, additional, Hardy, Victoria, additional, Harker, Gabriella, additional, Harris, Andrew, additional, Havinden-Williams, May, additional, Hazell, Elena, additional, Henry, Joanne, additional, Hicklin, Kim, additional, Hollier, Kelly, additional, Holloway, Ben, additional, Hoosdally, Sarah J., additional, Hopkins, Susan, additional, Hughes, Lucy, additional, Hurdowar, Steve, additional, Hurford, Sally-Anne, additional, Jackman, Joanne, additional, Jackson, Harriet, additional, Johns, Ruth, additional, Johnston, Susan, additional, Jones, Juliet, additional, Kanyowa, Tinashe, additional, Keating-Fedders, Katie, additional, Kempson, Sharon, additional, Khan, Iftikhar, additional, Khulusi, Beinn, additional, Knight, Thomas, additional, Krishna, Anuradha, additional, Lahert, Patrick, additional, Lampshire, Zoe, additional, Lasserson, Daniel, additional, Lee, Kirsten, additional, Lee, Lennard Y.W., additional, Legard, Arabella, additional, Leggio, Cristina, additional, Liu, Justin, additional, Lockett, Teresa, additional, Logue, Christopher, additional, Lucas, Vanessa, additional, Lumley, Sheila F., additional, Maripuri, Vindhya, additional, Markham, Des, additional, Marshall, Emma, additional, Matthews, Philippa C., additional, Mckee, Sarah, additional, McKee, Deborah F., additional, McLeod, Neil, additional, McNulty, Antoinette, additional, Mellor, Freddie, additional, Michel, Rachel, additional, Mighiu, Alex, additional, Miller, Julie, additional, Mirza, Zarina, additional, Mistry, Heena, additional, Mitchell, Jane, additional, Moeser, Mika Erik, additional, Moore, Sophie, additional, Muthuswamy, Akhila, additional, Myers, Daniel, additional, Nanson, Gemma, additional, Newbury, Mike, additional, Nicol, Scott, additional, Nuttall, Harry, additional, Nwanaforo, Jewel Jones, additional, Oliver, Louise, additional, Osbourne, Wendy, additional, Osbourne, Jake, additional, Otter, Ashley, additional, Owen, Jodie, additional, Panchalingam, Sulaksan, additional, Papoulidis, Dimitris, additional, Pavon, Juan Dobaldo, additional, Peace, Arro, additional, Pearson, Karen, additional, Peck, Liam, additional, Pegg, Ashley, additional, Pegler, Suzannah, additional, Permain, Helen, additional, Perumal, Prem, additional, Peto, Leon, additional, Peto, Tim E.A., additional, Pham, Thanh, additional, Pickford, Hayleah L., additional, Pinkerton, Mark, additional, Platton, Michelle, additional, Price, Ashley, additional, Protheroe, Emily, additional, Purnell, Hellen, additional, Rawden, Lottie, additional, Read, Sara, additional, Reynard, Charles, additional, Ridge, Susan, additional, Ritter, Tom G., additional, Robinson, James, additional, Robinson, Patrick, additional, Rodger, Gillian, additional, Rowe, Cathy, additional, Rowell, Bertie, additional, Rowlands, Alexandra, additional, Sampson, Sarah, additional, Saunders, Kathryn, additional, Sayers, Rachel, additional, Sears, Jackie, additional, Sedgewick, Richard, additional, Seeney, Laura, additional, Selassie, Amanda, additional, Shail, Lloyd, additional, Shallcross, Jane, additional, Sheppard, Lucy, additional, Sherkat, Anna, additional, Siddiqui, Shelha, additional, Sienkiewicz, Alex, additional, Sinha, Lavanya, additional, Smith, Jennifer, additional, Smith, Ella, additional, Stanton, Emma, additional, Starkey, Thomas, additional, Stawiarski, Aleksander, additional, Sterry, Amelia, additional, Stevens, Joe, additional, Stockbridge, Mark, additional, Stoesser, Nicole, additional, Sukumaran, Anila, additional, Sweed, Angela, additional, Tatar, Sami, additional, Thomas, Hema, additional, Tibbins, Carly, additional, Tiley, Sian, additional, Timmins, Julie, additional, Tomas-Smith, Cara, additional, Topping, Oliver, additional, Turek, Elena, additional, Neibler, Toi, additional, Trigg-Hogarth, Kate, additional, Truelove, Elizabeth, additional, Turnbull, Chris, additional, Tyrrell, David, additional, Vaughan, Alison, additional, Vertannes, John, additional, Vipond, Richard, additional, Wagstaff, Linda, additional, Waldron, Joanne, additional, Walker, Philip, additional, Walker, Ann Sarah, additional, Walters, Mary, additional, Wang, Jenny Y, additional, Watson, Ellie, additional, Webberley, Kate, additional, Webster, Kimerbley, additional, Westland, Grace, additional, Wickens, Ian, additional, Willcocks, Jane, additional, Willis, Herika, additional, Wilson, Stephen, additional, Wilson, Barbara, additional, Woodhead, Louise, additional, Wright, Deborah, additional, Xavier, Bindhu, additional, Yelnoorkar, Fiona, additional, Zeidan, Lisa, additional, and Zinyama, Rangeni, additional

Published
2021
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26. D Radiotranscriptomic analysis of perivascular adipose tissue quantifies vascular inflammation in covid-19 from routine CT angiograms: Stratification of “new UK variant” Infection and prediction of in-hospital outcomes

Author

Kotanidis, Christos P, primary, Xie, Cheng, additional, Adlam, David, additional, Rodrigues, Jonathan CL, additional, Siddique, Muhammad, additional, Lockstone, Helen, additional, Thomas, Sheena, additional, Kotronias, Rafail, additional, Oikonomou, Evangelos K, additional, Lumley, Sheila F, additional, Neubauer, Stefan, additional, Newby, David E, additional, Channon, Keith M, additional, Deanfield, John, additional, and Antoniades, Charalambos, additional

Published
2021
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27. The Duration, Dynamics, and Determinants of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Antibody Responses in Individual Healthcare Workers

Author

Lumley, Sheila F, Wei, Jia, O’Donnell, Denise, Stoesser, Nicole E, Matthews, Philippa C, Howarth, Alison, Hatch, Stephanie B, Marsden, Brian D, Cox, Stuart, James, Tim, Peck, Liam J, Ritter, Thomas G, de Toledo, Zoe, Cornall, Richard J, Jones, E Yvonne, Stuart, David I, Screaton, Gavin, Ebner, Daniel, Hoosdally, Sarah, Crook, Derrick W, Conlon, Christopher P, Pouwels, Koen B, Walker, A Sarah, Peto, Tim E A, Walker, Timothy M, Jeffery, Katie, Eyre, David W, Abbott, Molly, Abhari, Roxanna, Abuelgasim, Hibatullah, Ahmed-Firani, Tariq, Alhussni, Ahmed, Argles, Isobel, Ashworth, Rebecca, Back, Francesca, Black, Susannah, Brennan, Isabelle, Cansdale, Lottie, Chakravorty, Triya, Choudhury, Zahra, Clay, Helen, Conway-Jones, Rebecca, Curtis, Aisling, Cutteridge, Joseph, Danbury, Hannah, Davies, Hettie, Denly, Lucy, Dequaire, Julie, Dimitrov, Stoyan, Dunlop, Ella, Dunn, Polly, East, Cameron, Eastwood, Ben, Edwardes, Chantal, Evans, Meirian, Fields, Charlotte, Flaherty, Sarah, Foord, Thomas, Freer, Rosie, Fuchs, Hannah, Grassam-Rowe, Alexander, Greenan-Barrett, Lewis, Gunnell, James, Harries, Callum, Harris, Edward, Hatton, Elizabeth, Hennessy, Conor, Holland, Christian, Holloway, Ben, Howgego, Gregory, Barnham, Isaac Jarratt, Johnson, Síle, Johnson, Thomas, Johnstone, Daniela, Jurdon, Rebecca, Kelly, Gabriella, Kerneis, Sven, Khulusi, Beinn, Killen, Annabel, Kourdov, Stefan, Kumarendran, Mary, Laurenson-Schafer, Hannah, Lawrence, Ruby, Lee, Charlotte, Livingstone, Angus, Lynch, Rosie, Madsen, Tara, Manji, Ali, Marsh, James, Mason, Chris, Mccance, Angus, Mcgivern, Euan, Mckinlay, Ailsa, Mighiu, Alexandra, Millar, Lancelot, Mohamed, Yethrib, Motohashi, Kenzo, Myat, San, Nezhentsev, Andrey, O’Byrne, Katherine, Okuwoga, Temitope, Oliver, Madeleine, Pattenden, Saxon, Perera, Vimukthi, Petit, Yva, Pickles, Florence, Pikoula, Maria, Randhawa, Govind, Ravi, Krupa, Reed, Lara, Rigler, Caitlin, Robinson, Charlotte, Rothwell, Evie, Santos-Paulo, Stephanie, Savva, Constantinos, Scharmeli, Alice, Scott, Samuel, Shabir, Zamin, Sharma, Ishta, Sheehan, Remarez, Shibu, Afrah, Somanathan, Arun, Sussmes, Samuel, Sweeney, Owen, Swift, Emily, Tadikamalla, Gayatri, Tamblyn, Morwenna, Taylor, Adan, Naudé, Rebecca Te Water, Thomas, Sarah, Thompson, Connor, Till, Lottie, Toward, Ross, Virgo, Charis, Vorley, Imogen, Waite, Seren, Ward, Harry, Ward, Jocelyn, Watson, Adam, Watson, Lily, Wedlich, Matthew, Wilkins, Laura, Wilson, Jack, Wilson, Joseph, Wong, William, Young, Rebecca, Doherty, George, Kavanagh, James, Chau, Kevin K, Fowler, Philip W, Swann, Jeremy, Volk, Denis, Yang-Turner, Fan, Skelly, Donal, Karpe, Fredrik, Neville, Matt J, Ferreira, Lucas Martins, Christott, Thomas, Rodger, Gillian, Pickford, Hayleah, Cameron, Sarah, Tamblin-Hopper, Phoebe, Amini, Ali, Andersson, Monique, Anson, Karen, Aston, Lisa, Axten, David, Barot, Simran, Bellinger, Trisha, Bialek, Adrian, Bodo, Noemi, Brent, Andrew, Campbell, Mark, Cox, Vanessa, Cronin, Tammy, Davies, Timothy, Deales, Alessio, Downs, Louise, Drennan, Philip, Dudareva, Maria, Gates, Laura, Gates, Michelle, Georgiou, Dominique, Gergely, Bernadett, Holland, Louise, Jones, Nicola, Jones, Sarah, Kerr, Sharon, Lawson, Elaine, Looms, Stacy, Luciw, Michael, Martins, Diva, Mcknight, Mary, Mentzer, Alexander, Millard, Rebecca, Mitchell, Tracey, Morgan, Lisa, Morrow, Jordan, Mortimore, Emma, Mullins, Harriet, Nevard, Heather, O’Donnell, Anne-Marie, Patel, Kaisha, Peto, Leon, Philips, Jane, Ponting, Jessica, Ray, Roshni, Robles, Maria, Rughani, Sonam, Sande, Nellia, Shaw, Robert, Simons, Emma-Jane, Sims, Elizabeth, Smit, Kyla, Smith, Lucianne, Szczurkowska, Justyna, Thompson, Zoe, Turford, Rachel, Vilca, Kim, Vogt, Alexander, Warren, Fiona, Warren, Laura, Wharton, Vicki, Whitty, Alison, Woodley, Heather, Wozniak, Barbara, Young, Bernadette, Justice, Anita, Jesuthasan, Gerald, Wareing, Susan, Fadzillah, Nurul Huda Mohamad, Cann, Kathryn, Kirton, Richard, Sutton, Claire, Salvagno, Claudia, D’Amato, Gabriella, Pill, Gemma, Butcher, Lisa, Rylance-Knight, Lydia, Tabirao, Merline, Moroney, Ruth, Wright, Sarah, and Group, Oxford University Hospitals Staff Testing

Subjects
0301 basic medicine, Microbiology (medical), Adult, medicine.medical_specialty, Health Personnel, Population, Antibodies, Viral, Immunoglobulin G, Serology, 03 medical and health sciences, 0302 clinical medicine, Seroepidemiologic Studies, Internal medicine, Correspondence, Credible interval, Major Article, Seroprevalence, Medicine, Humans, 030212 general & internal medicine, education, Survival analysis, Antibody, education.field_of_study, biology, business.industry, SARS-CoV-2, COVID-19, Bayes Theorem, Waning, Titer, 030104 developmental biology, Infectious Diseases, AcademicSubjects/MED00290, Reinfection, Antibody Formation, biology.protein, Longitudinal, business
Abstract

Background Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) immunoglobulin G (IgG) antibody measurements can be used to estimate the proportion of a population exposed or infected and may be informative about the risk of future infection. Previous estimates of the duration of antibody responses vary. Methods We present 6 months of data from a longitudinal seroprevalence study of 3276 UK healthcare workers (HCWs). Serial measurements of SARS-CoV-2 anti-nucleocapsid and anti-spike IgG were obtained. Interval censored survival analysis was used to investigate the duration of detectable responses. Additionally, Bayesian mixed linear models were used to investigate anti-nucleocapsid waning. Results Anti-spike IgG levels remained stably detected after a positive result, for example, in 94% (95% credibility interval [CrI] 91–96%) of HCWs at 180 days. Anti-nucleocapsid IgG levels rose to a peak at 24 (95% CrI 19–31) days post first polymerase chain reaction (PCR)-positive test, before beginning to fall. Considering 452 anti-nucleocapsid seropositive HCWs over a median of 121 days from their maximum positive IgG titer, the mean estimated antibody half-life was 85 (95% CrI 81–90) days. Higher maximum observed anti-nucleocapsid titers were associated with longer estimated antibody half-lives. Increasing age, Asian ethnicity, and prior self-reported symptoms were independently associated with higher maximum anti-nucleocapsid levels and increasing age and a positive PCR test undertaken for symptoms with longer anti-nucleocapsid half-lives. Conclusions SARS-CoV-2 anti-nucleocapsid antibodies wane within months and fall faster in younger adults and those without symptoms. However, anti-spike IgG remains stably detected. Ongoing longitudinal studies are required to track the long-term duration of antibody levels and their association with immunity to SARS-CoV-2 reinfection.

Published
2021

28. sj-pdf-3-jbr-10.1177_07487304211059315 ��� Supplemental material for Time of Day of Vaccination Affects SARS-CoV-2 Antibody Responses in an Observational Study of Health Care Workers

Author

Wang, Wei, Balfe, Peter, Eyre, David W., Lumley, Sheila F., O���Donnell, Denise, Warren, Fiona, Crook, Derrick W., Jeffery, Katie, Matthews, Philippa C., Klerman, Elizabeth B., and McKeating, Jane A.

Subjects
FOS: Clinical medicine, FOS: Biological sciences, 110306 Endocrinology, 69999 Biological Sciences not elsewhere classified, Neuroscience
Abstract

Supplemental material, sj-pdf-3-jbr-10.1177_07487304211059315 for Time of Day of Vaccination Affects SARS-CoV-2 Antibody Responses in an Observational Study of Health Care Workers by Wei Wang, Peter Balfe, David W. Eyre, Sheila F. Lumley, Denise O���Donnell, Fiona Warren, Derrick W. Crook, Katie Jeffery, Philippa C. Matthews, Elizabeth B. Klerman and Jane A. McKeating in Journal of Biological Rhythms

Published
2021
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29. sj-docx-1-jbr-10.1177_07487304211059315 ��� Supplemental material for Time of Day of Vaccination Affects SARS-CoV-2 Antibody Responses in an Observational Study of Health Care Workers

Author

Wang, Wei, Balfe, Peter, Eyre, David W., Lumley, Sheila F., O���Donnell, Denise, Warren, Fiona, Crook, Derrick W., Jeffery, Katie, Matthews, Philippa C., Klerman, Elizabeth B., and McKeating, Jane A.

Subjects
FOS: Clinical medicine, FOS: Biological sciences, 110306 Endocrinology, 69999 Biological Sciences not elsewhere classified, Neuroscience
Abstract

Supplemental material, sj-docx-1-jbr-10.1177_07487304211059315 for Time of Day of Vaccination Affects SARS-CoV-2 Antibody Responses in an Observational Study of Health Care Workers by Wei Wang, Peter Balfe, David W. Eyre, Sheila F. Lumley, Denise O���Donnell, Fiona Warren, Derrick W. Crook, Katie Jeffery, Philippa C. Matthews, Elizabeth B. Klerman and Jane A. McKeating in Journal of Biological Rhythms

Published
2021
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30. Additional file 1 of Stringent thresholds in SARS-CoV-2 IgG assays lead to under-detection of mild infections

Author

Eyre, David W., Lumley, Sheila F., O’Donnell, Denise, Stoesser, Nicole E., Matthews, Philippa C., Howarth, Alison, Hatch, Stephanie B., Marsden, Brian D., Cox, Stuart, James, Tim, Cornall, Richard J., Stuart, David I., Screaton, Gavin, Ebner, Daniel, Crook, Derrick W., Conlon, Christopher P., Jeffery, Katie, Walker, Timothy M., and Peto, Timothy E. A.

Subjects
Data_FILES
Abstract

Additional file 1.

Published
2021
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31. sj-docx-2-jbr-10.1177_07487304211059315 ��� Supplemental material for Time of Day of Vaccination Affects SARS-CoV-2 Antibody Responses in an Observational Study of Health Care Workers

Author

Wang, Wei, Balfe, Peter, Eyre, David W., Lumley, Sheila F., O���Donnell, Denise, Warren, Fiona, Crook, Derrick W., Jeffery, Katie, Matthews, Philippa C., Klerman, Elizabeth B., and McKeating, Jane A.

Subjects
FOS: Clinical medicine, FOS: Biological sciences, 110306 Endocrinology, 69999 Biological Sciences not elsewhere classified, Neuroscience
Abstract

Supplemental material, sj-docx-2-jbr-10.1177_07487304211059315 for Time of Day of Vaccination Affects SARS-CoV-2 Antibody Responses in an Observational Study of Health Care Workers by Wei Wang, Peter Balfe, David W. Eyre, Sheila F. Lumley, Denise O���Donnell, Fiona Warren, Derrick W. Crook, Katie Jeffery, Philippa C. Matthews, Elizabeth B. Klerman and Jane A. McKeating in Journal of Biological Rhythms

Published
2021
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32. Evidence of escape of SARS-CoV-2 variant B.1.351 from natural and vaccine-induced sera

Author

Zhou, Daming, primary, Dejnirattisai, Wanwisa, additional, Supasa, Piyada, additional, Liu, Chang, additional, Mentzer, Alexander J., additional, Ginn, Helen M., additional, Zhao, Yuguang, additional, Duyvesteyn, Helen M.E., additional, Tuekprakhon, Aekkachai, additional, Nutalai, Rungtiwa, additional, Wang, Beibei, additional, Paesen, Guido C., additional, Lopez-Camacho, Cesar, additional, Slon-Campos, Jose, additional, Hallis, Bassam, additional, Coombes, Naomi, additional, Bewley, Kevin, additional, Charlton, Sue, additional, Walter, Thomas S., additional, Skelly, Donal, additional, Lumley, Sheila F., additional, Dold, Christina, additional, Levin, Robert, additional, Dong, Tao, additional, Pollard, Andrew J., additional, Knight, Julian C., additional, Crook, Derrick, additional, Lambe, Teresa, additional, Clutterbuck, Elizabeth, additional, Bibi, Sagida, additional, Flaxman, Amy, additional, Bittaye, Mustapha, additional, Belij-Rammerstorfer, Sandra, additional, Gilbert, Sarah, additional, James, William, additional, Carroll, Miles W., additional, Klenerman, Paul, additional, Barnes, Eleanor, additional, Dunachie, Susanna J., additional, Fry, Elizabeth E., additional, Mongkolsapaya, Juthathip, additional, Ren, Jingshan, additional, Stuart, David I., additional, and Screaton, Gavin R., additional

Published
2021
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33. Reduced neutralization of SARS-CoV-2 B.1.1.7 variant by convalescent and vaccine sera

Author

Supasa, Piyada, primary, Zhou, Daming, additional, Dejnirattisai, Wanwisa, additional, Liu, Chang, additional, Mentzer, Alexander J., additional, Ginn, Helen M., additional, Zhao, Yuguang, additional, Duyvesteyn, Helen M.E., additional, Nutalai, Rungtiwa, additional, Tuekprakhon, Aekkachai, additional, Wang, Beibei, additional, Paesen, Guido C., additional, Slon-Campos, Jose, additional, López-Camacho, César, additional, Hallis, Bassam, additional, Coombes, Naomi, additional, Bewley, Kevin R., additional, Charlton, Sue, additional, Walter, Thomas S., additional, Barnes, Eleanor, additional, Dunachie, Susanna J., additional, Skelly, Donal, additional, Lumley, Sheila F., additional, Baker, Natalie, additional, Shaik, Imam, additional, Humphries, Holly E., additional, Godwin, Kerry, additional, Gent, Nick, additional, Sienkiewicz, Alex, additional, Dold, Christina, additional, Levin, Robert, additional, Dong, Tao, additional, Pollard, Andrew J., additional, Knight, Julian C., additional, Klenerman, Paul, additional, Crook, Derrick, additional, Lambe, Teresa, additional, Clutterbuck, Elizabeth, additional, Bibi, Sagida, additional, Flaxman, Amy, additional, Bittaye, Mustapha, additional, Belij-Rammerstorfer, Sandra, additional, Gilbert, Sarah, additional, Hall, David R., additional, Williams, Mark A., additional, Paterson, Neil G., additional, James, William, additional, Carroll, Miles W., additional, Fry, Elizabeth E., additional, Mongkolsapaya, Juthathip, additional, Ren, Jingshan, additional, Stuart, David I., additional, and Screaton, Gavin R., additional

Published
2021
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34. Quantitative SARS-CoV-2 anti-spike responses to Pfizer-BioNTech and Oxford-AstraZeneca vaccines by previous infection status

Author

Eyre, David W, primary, Lumley, Sheila F, additional, Wei, Jia, additional, Cox, Stuart, additional, James, Tim, additional, Justice, Anita, additional, Jesuthasan, Gerald, additional, O’Donnell, Denise, additional, Howarth, Alison, additional, Hatch, Stephanie B, additional, Marsden, Brian D, additional, Jones, E Yvonne, additional, Stuart, David I, additional, Ebner, Daniel, additional, Hoosdally, Sarah, additional, Crook, Derrick W, additional, Peto, Tim EA, additional, Walker, Timothy M, additional, Stoesser, Nicole E, additional, Matthews, Philippa C, additional, Pouwels, Koen B, additional, Walker, A Sarah, additional, and Jeffery, Katie, additional

Published
2021
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35. Differential occupational risks to healthcare workers from SARS-CoV-2: A prospective observational study

Author

Eyre, David W, Lumley, Sheila F, O’Donnell, Denise, Campbell, Mark, Sims, Elizabeth, Lawson, Elaine, Warren, Fiona, James, Tim, Cox, Stuart, Howarth, Alison, Doherty, George, Hatch, Stephanie B, Kavanagh, James, Chau, Kevin K, Fowler, Philip W, Swann, Jeremy, Volk, Denis, Yang-Turner, Fan, Stoesser, Nicole E, Matthews, Philippa C, Dudareva, Maria, Davies, Timothy, Shaw, Robert H, Peto, Leon, Downs, Louise O, Vogt, Alexander, Amini, Ali, Young, Bernadette C, Drennan, Philip, Mentzer, Alexander J, Skelly, Donal, Karpe, Fredrik, Neville, Matt J, Andersson, Monique, Brent, Andrew J, Jones, Nicola, Ferreira, Lucas Martins, Christott, Thomas, Marsden, Brian D, Hoosdally, Sarah, Cornall, Richard, Crook, Derrick W, Stuart, David, Screaton, Gavin, Peto, Timothy EA, Holthof, Bruno, O’Donnell, Anne-Marie, Ebner, Daniel, Conlon, Christopher P, Jeffery, Katie, and Walker, Timothy M

Subjects
medicine.medical_specialty, business.industry, Psychological intervention, Odds ratio, Logistic regression, Intensive care unit, law.invention, law, Emergency medicine, Health care, Medicine, Observational study, business, Personal protective equipment, Contact tracing
Abstract

BackgroundPersonal protective equipment (PPE) and social distancing are designed to mitigate risk of occupational SARS-CoV-2 infection in hospitals. Why healthcare workers nevertheless remain at increased risk is uncertain.MethodsWe conducted voluntary Covid-19 testing programmes for symptomatic and asymptomatic staff at a UK teaching hospital using nasopharyngeal PCR testing and immunoassays for IgG antibodies. A positive result by either modality determined a composite outcome. Risk-factors for Covid-19 were investigated using multivariable logistic regression.Results1083/9809(11.0%) staff had evidence of Covid-19 at some time and provided data on potential risk-factors. Staff with a confirmed household contact were at greatest risk (adjusted odds ratio [aOR] 4.63 [95%CI 3.30-6.50]). Higher rates of Covid-19 were seen in staff working in Covid-19-facing areas (21.2% vs. 8.2% elsewhere) (aOR 2.49 [2.00-3.12]). Controlling for Covid-19-facing status, risks were heterogenous across the hospital, with higher rates in acute medicine (1.50 [1.05-2.15]) and sporadic outbreaks in areas with few or no Covid-19 patients. Covid-19 intensive care unit (ICU) staff were relatively protected (0.46 [0.29-0.72]). Positive results were more likely in Black (1.61 [1.20-2.16]) and Asian (1.58 [1.34-1.86]) staff, independent of role or working location, and in porters and cleaners (1.93 [1.25-2.97]). Contact tracing around asymptomatic staff did not lead to enhanced case identification. 24% of staff/patients remained PCR-positive at ≥6 weeks post-diagnosis.ConclusionsIncreased Covid-19 risk was seen in acute medicine, among Black and Asian staff, and porters and cleaners. A bundle of PPE-related interventions protected staff in ICU.

Published
2020

36. Estimation of hepatitis B virus cccDNA persistence in chronic infection using within-host evolutionary rates

Author

Lythgoe, Katrina A, Lumley, Sheila F, McKeating, Jane A, and Matthews, Philippa C

Abstract

Hepatitis B virus (HBV) infection is a major global health problem with over 240 million infected individuals at risk of developing progressive liver disease and hepatocellular carcinoma. HBV is an enveloped DNA virus that establishes its genome as an episomal, covalently closed circular DNA (cccDNA) in the nucleus of infected hepatocytes. Currently available standard-of-care treatments for chronic hepatitis B (CHB) include nucleos(t)ide analogues (NA) that suppress HBV replication but do not target the cccDNA and hence rarely cure infection. There is considerable interest in determining the lifespan of cccDNA molecules to design and evaluate new curative treatments. We took a novel approach to this problem by developing a new mathematical framework to model changes in evolutionary rates during infection which, combined with previously determined within-host evolutionary rates of HBV, we used to determine the lifespan of cccDNA. We estimate that during HBe-antigen positive (HBeAgPOS) infection the cccDNA lifespan is 61 (36-236) days, whereas during the HBeAgNEG phase of infection it is only 26 (16-81) days. We found that cccDNA replicative capacity declined by an order of magnitude between HBeAgPOS and HBeAgNEG phases of infection. Our estimated lifespan of cccDNA is too short to explain the long durations of chronic infection observed in patients on NA treatment, suggesting that either a sub-population of long-lived hepatocytes harbouring cccDNA molecules persists during therapy, or that NA therapy does not suppress all viral replication. These results provide a greater understanding of the biology of the cccDNA reservoir and can aid the development of new curative therapeutic strategies for treating CHB.

Published
2020
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37. Antibody Status and Incidence of SARS-CoV-2 Infection in Health Care Workers

Author

Lumley, Sheila F., primary, O’Donnell, Denise, additional, Stoesser, Nicole E., additional, Matthews, Philippa C., additional, Howarth, Alison, additional, Hatch, Stephanie B., additional, Marsden, Brian D., additional, Cox, Stuart, additional, James, Tim, additional, Warren, Fiona, additional, Peck, Liam J., additional, Ritter, Thomas G., additional, de Toledo, Zoe, additional, Warren, Laura, additional, Axten, David, additional, Cornall, Richard J., additional, Jones, E. Yvonne, additional, Stuart, David I., additional, Screaton, Gavin, additional, Ebner, Daniel, additional, Hoosdally, Sarah, additional, Chand, Meera, additional, Crook, Derrick W., additional, O’Donnell, Anne-Marie, additional, Conlon, Christopher P., additional, Pouwels, Koen B., additional, Walker, A. Sarah, additional, Peto, Tim E.A., additional, Hopkins, Susan, additional, Walker, Timothy M., additional, Jeffery, Katie, additional, and Eyre, David W., additional

Published
2021
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38. Observational Cohort Study on the Incidence of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Infection and B.1.1.7 Variant Infection in Healthcare Workers by Antibody and Vaccination Status.

Author

Lumley, Sheila F, Rodger, Gillian, Constantinides, Bede, Sanderson, Nicholas, Chau, Kevin K, Street, Teresa L, O'Donnell, Denise, Howarth, Alison, Hatch, Stephanie B, Marsden, Brian D, Cox, Stuart, James, Tim, Warren, Fiona, Peck, Liam J, Ritter, Thomas G, Toledo, Zoe de, Warren, Laura, Axten, David, Cornall, Richard J, and Jones, E Yvonne

Subjects
*NATURAL immunity, *COVID-19, *IMMUNOGLOBULINS, *SCIENTIFIC observation, *SEQUENCE analysis, *CONFIDENCE intervals, *COVID-19 vaccines, *GENETIC variation, *DISEASE incidence, *ANTIBODY formation, *DESCRIPTIVE statistics, *POLYMERASE chain reaction, *LONGITUDINAL method, *POISSON distribution
Abstract

Background Natural and vaccine-induced immunity will play a key role in controlling the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic. SARS-CoV-2 variants have the potential to evade natural and vaccine-induced immunity. Methods In a longitudinal cohort study of healthcare workers (HCWs) in Oxfordshire, United Kingdom, we investigated the protection from symptomatic and asymptomatic polymerase chain reaction (PCR)-confirmed SARS-CoV-2 infection conferred by vaccination (Pfizer-BioNTech BNT162b2, Oxford-AstraZeneca ChAdOx1 nCOV-19) and prior infection (determined using anti-spike antibody status), using Poisson regression adjusted for age, sex, temporal changes in incidence and role. We estimated protection conferred after 1 versus 2 vaccinations and from infections with the B.1.1.7 variant identified using whole genome sequencing. Results In total, 13 109 HCWs participated; 8285 received the Pfizer-BioNTech vaccine (1407 two doses), and 2738 the Oxford-AstraZeneca vaccine (49 two doses). Compared to unvaccinated seronegative HCWs, natural immunity and 2 vaccination doses provided similar protection against symptomatic infection: no HCW vaccinated twice had symptomatic infection, and incidence was 98% lower in seropositive HCWs (adjusted incidence rate ratio 0.02 [95% confidence interval {CI} < .01–.18]). Two vaccine doses or seropositivity reduced the incidence of any PCR-positive result with or without symptoms by 90% (0.10 [95% CI.02–.38]) and 85% (0.15 [95% CI.08–.26]), respectively. Single-dose vaccination reduced the incidence of symptomatic infection by 67% (0.33 [95% CI.21–.52]) and any PCR-positive result by 64% (0.36 [95% CI.26–.50]). There was no evidence of differences in immunity induced by natural infection and vaccination for infections with S-gene target failure and B.1.1.7. Conclusions Natural infection resulting in detectable anti-spike antibodies and 2 vaccine doses both provide robust protection against SARS-CoV-2 infection, including against the B.1.1.7 variant. [ABSTRACT FROM AUTHOR]

Published
2022
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39. SARS-CoV-2 antibody prevalence, titres and neutralising activity in an antenatal cohort, United Kingdom, 14 April to 15 June 2020

Author

Lumley, Sheila F, primary, Eyre, David W, additional, McNaughton, Anna L, additional, Howarth, Alison, additional, Hoosdally, Sarah, additional, Hatch, Stephanie B, additional, Kavanagh, James, additional, Chau, Kevin K, additional, Downs, Louise O, additional, Cox, Stuart, additional, Dunn, Laura, additional, Justice, Anita, additional, Wareing, Susan, additional, Dingle, Kate, additional, Rudkin, Justine, additional, Auckland, Kathryn, additional, Fyfe, Alexander, additional, Bolton, Jai, additional, Paton, Robert, additional, Mentzer, Alexander J, additional, Jeffery, Katie, additional, Andersson, Monique I, additional, James, Tim, additional, Peto, Tim E A, additional, Marsden, Brian D, additional, Screaton, Gavin, additional, Cornall, Richard J, additional, Klenerman, Paul, additional, Ebner, Daniel, additional, Stuart, David I, additional, Crook, Derrick W, additional, Stoesser, Nicole, additional, Kennedy, Stephen H, additional, Thompson, Craig, additional, Gupta, Sunetra, additional, and Matthews, Philippa C, additional

Published
2020
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40. SARS-CoV-2 RNA detected in blood products from patients with COVID-19 is not associated with infectious virus

Author

Andersson, Monique I., primary, Arancibia-Carcamo, Carolina V., additional, Auckland, Kathryn, additional, Baillie, J. Kenneth, additional, Barnes, Eleanor, additional, Beneke, Tom, additional, Bibi, Sagida, additional, Brooks, Tim, additional, Carroll, Miles, additional, Crook, Derrick, additional, Dingle, Kate, additional, Dold, Christina, additional, Downs, Louise O., additional, Dunn, Laura, additional, Eyre, David W., additional, Gilbert Jaramillo, Javier, additional, Harvala, Heli, additional, Hoosdally, Sarah, additional, Ijaz, Samreen, additional, James, Tim, additional, James, William, additional, Jeffery, Katie, additional, Justice, Anita, additional, Klenerman, Paul, additional, Knight, Julian C., additional, Knight, Michael, additional, Liu, Xu, additional, Lumley, Sheila F., additional, Matthews, Philippa C., additional, McNaughton, Anna L., additional, Mentzer, Alexander J., additional, Mongkolsapaya, Juthathip, additional, Oakley, Sarah, additional, Oliveira, Marta S., additional, Peto, Timothy, additional, Ploeg, Rutger J., additional, Ratcliff, Jeremy, additional, Robbins, Melanie J., additional, Roberts, David J., additional, Rudkin, Justine, additional, Russell, Rebecca A., additional, Screaton, Gavin, additional, Semple, Malcolm G., additional, Skelly, Donal, additional, Simmonds, Peter, additional, Stoesser, Nicole, additional, Turtle, Lance, additional, Wareing, Susan, additional, and Zambon, Maria, additional

Published
2020
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42. Stringent thresholds for SARS-CoV-2 IgG assays result in under-detection of cases reporting loss of taste/smell

Author

Eyre, David W, primary, Lumley, Sheila F, additional, O’Donnell, Denise, additional, Stoesser, Nicole E, additional, Matthews, Philippa C, additional, Howarth, Alison, additional, Hatch, Stephanie B, additional, Marsden, Brian D, additional, Cox, Stuart, additional, James, Tim, additional, Cornall, Richard J, additional, Stuart, David I, additional, Screaton, Gavin, additional, Ebner, Daniel, additional, Crook, Derrick W, additional, Conlon, Christopher P, additional, Jeffery, Katie, additional, Walker, Timothy M, additional, and Peto, Timothy EA, additional

Published
2020
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43. SARS-CoV-2 RNA detected in blood samples from patients with COVID-19 is not associated with infectious virus

Author

Andersson, Monique I, primary, Arancibia-Cárcamo, Carolina V, additional, Auckland, Kathryn, additional, Baillie, J Kenneth, additional, Barnes, Eleanor, additional, Beneke, Tom, additional, Bibi, Sagida, additional, Carroll, Miles, additional, Crook, Derrick, additional, Dingle, Kate, additional, Dold, Christina, additional, Downs, Louise O, additional, Dunn, Laura, additional, Eyre, David W, additional, Jaramillo, Javier Gilbert, additional, Harvala, Heli, additional, Hoosdally, Sarah, additional, Ijaz, Samreen, additional, James, Tim, additional, James, William, additional, Jeffery, Katie, additional, Justice, Anita, additional, Klenerman, Paul, additional, Knight, Julian, additional, Knight, Michael, additional, Liu, Xu, additional, Lumley, Sheila F, additional, Matthews, Philippa C, additional, McNaughton, Anna L, additional, Mentzer, Alexander J, additional, Mongkolsapaya, Juthathip, additional, Oakley, Sarah, additional, Oliveira, Marta S, additional, Peto, Timothy, additional, Ploeg, Rutger J, additional, Ratcliff, Jeremy, additional, Roberts, David J, additional, Rudkin, Justine, additional, Russell, Rebecca A, additional, Screaton, Gavin, additional, Semple, Malcolm G, additional, Skelly, Donal, additional, Simmonds, Peter, additional, Stoesser, Nicole, additional, Turtle, Lance, additional, Wareing, Sue, additional, and Zambon, Maria, additional

Published
2020
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44. Hepatitis B virus seroepidemiology data for Africa: Modelling intervention strategies based on a systematic review and meta-analysis

Author

McNaughton, Anna L., primary, Lourenço, José, additional, Bester, Phillip Armand, additional, Mokaya, Jolynne, additional, Lumley, Sheila F., additional, Obolski, Uri, additional, Forde, Donall, additional, Maponga, Tongai G., additional, Katumba, Kenneth R., additional, Goedhals, Dominique, additional, Gupta, Sunetra, additional, Seeley, Janet, additional, Newton, Robert, additional, Ocama, Ponsiano, additional, and Matthews, Philippa C., additional

Published
2020
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46. Metagenomic Nanopore Sequencing of Influenza Virus Direct from Clinical Respiratory Samples

Author

Lewandowski, Kuiama, primary, Xu, Yifei, additional, Pullan, Steven T., additional, Lumley, Sheila F., additional, Foster, Dona, additional, Sanderson, Nicholas, additional, Vaughan, Alison, additional, Morgan, Marcus, additional, Bright, Nicole, additional, Kavanagh, James, additional, Vipond, Richard, additional, Carroll, Miles, additional, Marriott, Anthony C., additional, Gooch, Karen E., additional, Andersson, Monique, additional, Jeffery, Katie, additional, Peto, Timothy E. A., additional, Crook, Derrick W., additional, Walker, A. Sarah, additional, and Matthews, Philippa C., additional

Published
2019
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47. Time of Day of Vaccination Affects SARS-CoV-2 Antibody Responses in an Observational Study of Health Care Workers.

Author

Wang, Wei, Balfe, Peter, Eyre, David W., Lumley, Sheila F., O'Donnell, Denise, Warren, Fiona, Crook, Derrick W., Jeffery, Katie, Matthews, Philippa C., Klerman, Elizabeth B., and McKeating, Jane A.

Subjects
COVID-19, MEDICAL personnel, SARS-CoV-2, ANTIBODY formation, VACCINE effectiveness, VACCINATION
Abstract

The COVID-19 pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a global crisis with unprecedented challenges for public health. Vaccinations against SARS-CoV-2 have slowed the incidence of new infections and reduced disease severity. As the time of day of vaccination has been reported to influence host immune responses to multiple pathogens, we quantified the influence of SARS-CoV-2 vaccination time, vaccine type, participant age, sex, and days post-vaccination on anti-Spike antibody responses in health care workers. The magnitude of the anti-Spike antibody response is associated with the time of day of vaccination, vaccine type, participant age, sex, and days post-vaccination. These results may be relevant for optimising SARS-CoV-2 vaccine efficacy. [ABSTRACT FROM AUTHOR]

Published
2022
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48. Hepatitis B Virus Adaptation to the CD8+ T Cell Response: Consequences for Host and Pathogen

Author

Lumley, Sheila F., McNaughton, Anna L., Klenerman, Paul, Lythgoe, Katrina A., and Matthews, Philippa C.

Subjects
human leukocyte antigen, Immunology, evolution, Review, adaptation, adaptive immunity, CD8+ T cells, hepatitis B virus, digestive system diseases, diversity
Abstract

Chronic viral hepatitis infections are a major public health concern, with an estimated 290 million individuals infected with hepatitis B virus (HBV) globally. This virus has been a passenger in human populations for >30,000 years, and remains highly prevalent in some settings. In order for this endemic pathogen to persist, viral adaptation to host immune responses is pre-requisite. Here, we focus on the interplay between HBV infection and the CD8+ T cell response. We present the evidence that CD8+ T cells play an important role in control of chronic HBV infection and that the selective pressure imposed on HBV through evasion of these immune responses can potentially influence viral diversity, chronicity, and the outcome of infection, and highlight where there are gaps in current knowledge. Understanding the nature and mechanisms of HBV evolution and persistence could shed light on differential disease outcomes, including cirrhosis and hepatocellular carcinoma, and help reach the goal of global HBV elimination by guiding the design of new strategies, including vaccines and therapeutics.

Published
2018

49. Electronic Health Informatics Data To Describe Clearance Dynamics of Hepatitis B Surface Antigen (HBsAg) and e Antigen (HBeAg) in Chronic Hepatitis B Virus Infection

Author

Downs, Louise O., primary, Smith, David A., additional, Lumley, Sheila F., additional, Patel, Meha, additional, McNaughton, Anna L., additional, Mokaya, Jolynne, additional, Ansari, M. Azim, additional, Salih, Hizni, additional, Várnai, Kinga A., additional, Freeman, Oliver, additional, Cripps, Sarah, additional, Phillips, Jane, additional, Collier, Jane, additional, Woods, Kerrie, additional, Channon, Keith, additional, Davies, Jim, additional, Barnes, Eleanor, additional, Jeffery, Katie, additional, and Matthews, Philippa C., additional

Published
2019
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50. HBV seroepidemiology data for Africa provides insights into transmission and prevention

Author

McNaughton, Anna L, primary, Lourenço, José, additional, Bester, Phillip Armand, additional, Mokaya, Jolynne, additional, Lumley, Sheila F, additional, Forde, Donall, additional, Maponga, Tongai G, additional, Katumba, Kenneth R, additional, Goedhals, Dominique, additional, Gupta, Sunetra, additional, Seeley, Janet, additional, Newton, Robert, additional, Ocama, Ponsiano, additional, and Matthews, Philippa C, additional

Published
2019
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