Genetic mutations underlying isoniazid-resistant Mycobacterium tuberculosis in Khyber Pakhtunkhwa, Pakistan by Khan, Anwar Sheed, Phelan, Jody E., Khan, Muhammad Tahir, Ali, Sajid, Qasim, Muhammad, Mohammad, Noor, Napier, Gary, Ahmad, Sajjad, Alam, Jamshed, Khattak, Baharullah, Campino, Susana, Clark, Taane G., Khan, Taj Ali

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Using genomics to understand the origin and dispersion of multidrug and extensively drug resistant tuberculosis in Portugal by Perdigão, João, Gomes, Pedro, Miranda, Anabela, Maltez, Fernando, Machado, Diana, Silva, Carla, Phelan, Jody E., Brum, Laura, Campino, Susana, Couto, Isabel, Viveiros, Miguel, Clark, Taane G., Portugal, Isabel

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Mycobacterium tuberculosis whole genome sequencing provides insights into the Manila strain and drug-resistance mutations in the Philippines by Phelan, Jody E., Lim, Dodge R., Mitarai, Satoshi, de Sessions, Paola Florez, Tujan, Ma. Angelica A., Reyes, Lorenzo T., Medado, Inez Andrea P., Palparan, Alma G., Naim, Ahmad Nazri Mohamed, Jie, Song, Segubre-Mercado, Edelwisa, Simoes, Beatriz, Campino, Susana, Hafalla, Julius C., Murase, Yoshiro, Morishige, Yuta, Hibberd, Martin L., Kato, Seiya, Ama, Ma. Cecilia G., Clark, Taane G.

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Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages by Phelan, Jody E, Coll, Francesc, Bergval, Indra, Anthony, Richard M, Warren, Rob, Sampson, Samantha L, Gey van Pittius, Nicolaas C, Glynn, Judith R, Crampin, Amelia C, Alves, Adriana, Bessa, Theolis Barbosa, Campino, Susana, Dheda, Keertan, Grandjean, Louis, Hasan, Rumina, Hasan, Zahra, Miranda, Anabela, Moore, David, Panaiotov, Stefan, Perdigao, Joao, Portugal, Isabel, Sheen, Patricia, de Oliveira Sousa, Erivelton, Streicher, Elizabeth M, van Helden, Paul D, Viveiros, Miguel, Hibberd, Martin L, Pain, Arnab, McNerney, Ruth, Clark, Taane G

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A next generation targeted amplicon sequencing method to screen for insecticide resistance mutations in Aedes aegypti populations reveals a rdl mutation in mosquitoes from Cabo Ver... by Emma L. Collins, Jody E. Phelan, Magdalena Hubner, Anton Spadar, Monica Campos, Daniel Ward, Holly Acford-Palmer, Ana Rita Gomes, Keily Silva, Lara Ferrero Gomez, Taane G. Clark, Susana Campino

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TB-ML—a framework for comparing machine learning approaches to predict drug resistance of Mycobacterium tuberculosis by Libiseller-Egger, Julian, Wang, Linfeng, Deelder, Wouter, Campino, Susana, Clark, Taane G, Phelan, Jody E

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Molecular characterization of drug-resistant Mycobacterium tuberculosis among Filipino patients derived from the national tuberculosis prevalence survey Philippines 2016 by Montoya, Jaime C., Malabad, John Carlo M., Ang, Concepcion F., Reyes, Lorenzo T., Basilio, Ramon P., Lim, Dodge R., Amarillo, Maria Lourdes E., Ama, Ma Cecilia G., Phelan, Jody E., Hibberd, Martin L., Clark, Taane G.

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TGV: suite of tools to visualize transmission graphs by Phelan, Jody E, Niazi, Fatima, Wang, Linfeng, Ngwana-Joseph, Gabrielle C, Sobkowiak, Benjamin, Cohen, Ted, Campino, Susana, Clark, Taane G

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Whole genome sequencing reveals large deletions and other loss of function mutations in Mycobacterium tuberculosis drug resistance genes by Gomes, Laura C, Campino, Susana, Marinho, Cláudio R F, Clark, Taane G, Phelan, Jody E

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The Evolution and Transmission Dynamics of Multidrug-Resistant Tuberculosis in an Isolated High-Plateau Population of Tibet, China by Jiang, Qi, Liu, Hai-Can, Liu, Qing-Yun, Phelan, Jody E, Tao, Feng-Xi, Zhao, Xiu-Qin, Wang, Jian, Glynn, Judith R, Takiff, Howard E, Clark, Taane G, Wan, Kang-Lin, Gao, Qian

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Second-line drug resistance markers as proxy indicators of time to sputum culture conversion among second-line drug resistant tuberculosis patients tested in Uganda: A cross-sectio... by Mujuni, Dennis, Ssengooba, Willy, Ibanda, Ivan, Kabugo, Joel Solomon, Kasemire, Dianah Linda, Nampewo, Elizabeth, Nsawotebba, Andrew, Phelan, Jody E, Tugumisirize, Didas, Orena, Beatrice, Byabajungu, Henry, Ntenkaire, Nathan, Nadunga, Diana, Tumwine, Julius, Musisi, Kenneth, Joloba, Moses, Kim, Seungmo, Kokas, Ikwap, Mukani, William Olaho, Kungu, Joseph, Afayoa, Mathias

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An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets by Ward, Daniel, Higgins, Matthew, Phelan, Jody E, Hibberd, Martin L, Campino, Susana, Clark, Taane G

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Genome-wide analysis of Mycobacterium tuberculosis polymorphisms reveals lineage-specific associations with drug resistance by Oppong, Yaa E A, Phelan, Jody, Perdigão, João, Machado, Diana, Miranda, Anabela, Portugal, Isabel, Viveiros, Miguel, Clark, Taane G, Hibberd, Martin L

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Genetic risk of obesity as a modifier of associations between neighbourhood environment and body mass index: an observational study of 335 046 UK Biobank participants by Mason, Kate E, Palla, Luigi, Pearce, Neil, Phelan, Jody, Cummins, Steven

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Identification and validation of a novel panel of Plasmodium knowlesi biomarkers of serological exposure by Herman, Lou S, Fornace, Kimberly, Phelan, Jody, Grigg, Matthew J, Anstey, Nicholas M, William, Timothy, Moon, Robert W, Blackman, Michael J, Drakeley, Chris J, Tetteh, Kevin K A

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Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance by Phelan, Jody, Coll, Francesc, McNerney, Ruth, Ascher, David B, Pires, Douglas E V, Furnham, Nick, Coeck, Nele, Hill-Cawthorne, Grant A, Nair, Mridul B, Mallard, Kim, Ramsay, Andrew, Campino, Susana, Hibberd, Martin L, Pain, Arnab, Rigouts, Leen, Clark, Taane G

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PowerBacGWAS: a computational pipeline to perform power calculations for bacterial genome-wide association studies by Coll, Francesc, Gouliouris, Theodore, Bruchmann, Sebastian, Phelan, Jody, Raven, Kathy E., Clark, Taane G., Parkhill, Julian, Peacock, Sharon J.

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Epidemiology of SARS-CoV-2 infection among staff and students in a cohort of English primary and secondary schools during 2020–2021 by Hargreaves, James R., Langan, Sinéad M., Oswald, William E., Halliday, Katherine E., Sturgess, Joanna, Phelan, Jody, Nguipdop-Djomo, Patrick, Ford, Benjamin, Allen, Elizabeth, Sundaram, Neisha, Ireland, Georgina, Poh, John, Ijaz, Samreen, Diamond, Ian, Rourke, Emma, Dawe, Fiona, Judd, Alison, Warren-Gash, Charlotte, Clark, Taane G., Glynn, Judith R., Edmunds, W. John, Bonell, Chris, Mangtani, Punam, Ladhani, Shamez N., Abramsky, Tanya, Ahmad, Shazaad, Aiano, Felicity, Baawuah, Frances, Bankiewicz, Urszula, Batt, Sarah, Beckmann, Joanne, Bhavsar, Ami, Brent, Bernadette, Brent, Andrew, Brouwer, Simon, Brown, Kevin, Browne, Richard, Childs, Kevin, Cook, Sarah, Cousens, Simon, Day, Ieuan, Felton, Antonio, Fine, Paul, Foster, David, Garstang, Joanna, Gates, David, Grant, Claire, Griffiths-Tong, Bethany, Hele, Claire, Hemsi, Rowan, Jones, Pete, Jordan, Helena, Kucharski, Adam, Lacey, Andrea, Leeson, Rebecca, Lelii, Ffion, Lovely, Philip, Lunskey, Madeleine, McLanachan, Chris, Munday, James, Okike, Ifeanyichukwu, O'Reilly, Kathleen, Parker, Penelope, Powell, Annabel, Proud, Sarah, Ramsay, Mary, Rudd, Lee, Russell, Timothy, Shute, Justin, Tilouche, Nerissa, Virgin, Charmaine, Wyatt, Sian-Elin, YEO, KELLY

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Factors associated with COVID-19 vaccine uptake in adolescents: a national cross-sectional study, August 2021–January 2022, England by Aiano, Felicity, Ireland, Georgina, Powell, Annabel, Campbell, Colin N J, Judd, Alison, Davies, Byron, Saib, Anisah, Mangtani, Punam, Nguipdop-Djomo, Patrick, Ladhani, Shamez N

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