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Phillips, Maile T, Meiring, James E, Voysey, Merryn, Warren, Joshua L, Baker, Stephen, Basnyat, Buddha, Clemens, John D, Dolecek, Christiane, Dunstan, Sarah J, Dougan, Gordon et al (show 7 more authors) , Gordon, Melita A ORCID: 0000-0002-0629-0884, Thindwa, Deus, Heyderman, Robert S, Holt, Kathryn E, Qadri, Firdausi, Pollard, Andrew J and Pitzer, Virginia E (2021) A Bayesian approach for estimating typhoid fever incidence from large-scale facility-based passive surveillance data. STATISTICS IN MEDICINE, 40 (26). pp. 5853-5870.

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Meiring, James E, Shakya, Mila, Khanam, Farhana, Voysey, Merryn, Phillips, Maile T, Tonks, Susan, Thindwa, Deus, Darton, Thomas C, Dongol, Sabina, Karkey, Abilasha et al (show 13 more authors) , Zaman, K, Baker, Stephen, Dolecek, Christiane, Dunstan, Sarah J, Dougan, Gordon, Holt, Kathryn E, Heyderman, Robert S, Qadri, Firdausi, Pitzer, Virginia E, Basnyat, Buddha, Gordon, Melita A ORCID: 0000-0002-0629-0884, Clemens, John and Pollard, Andrew J (2021) Burden of enteric fever at three urban sites in Africa and Asia: a multicentre population-based study. LANCET GLOBAL HEALTH, 9 (12). E1688-E1696.

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Baker, Kate S ORCID: 0000-0001-5850-1949, Jauneikaite, Elita, Nunn, Jamie G, Midega, Janet T, Atun, Rifat, Holt, Kathryn E, Walia, Kamini, Howden, Benjamin P, Tate, Heather, Okeke, Iruka N et al (show 18 more authors) , Carattoli, Alessandra, Hsu, Li Yang, Hopkins, Katie L, Muloi, Dishon M, Wheeler, Nicole E, Aanensen, David M, Mason, Lewis CE ORCID: 0000-0001-5049-1352, Rodgus, Jonah, Hendriksen, Rene S, Essack, Sabiha Y, Egyir, Beverly, Halpin, Alison L, MacCannell, Duncan R, Campos, Josefina, Srikantiah, Padmini, Feasey, Nicholas A, Peacock, Sharon J and SEDRIC Genomics Surveillance Working Group, (2023) Evidence review and recommendations for the implementation of genomics for antimicrobial resistance surveillance: reports from an international expert group. The Lancet. Microbe, 4 (12). S2666-5247(23)00281-1-S2666-5247(23)00281-1.

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Carey, Megan E ORCID: 0000-0002-7797-9080, Dyson, Zoe A ORCID: 0000-0002-8887-3492, Ingle, Danielle J, Amir, Afreenish, Aworh, Mabel K, Chattaway, Marie Anne, Chew, Ka Lip, Crump, John A ORCID: 0000-0002-4529-102X, Feasey, Nicholas A, Howden, Benjamin P ORCID: 0000-0003-0237-1473 et al (show 105 more authors) , Keddy, Karen H, Maes, Mailis, Parry, Christopher M ORCID: 0000-0001-7563-7282, Van Puyvelde, Sandra ORCID: 0000-0001-8434-5732, Webb, Hattie E ORCID: 0000-0002-1190-7930, Afolayan, Ayorinde Oluwatobiloba ORCID: 0000-0003-1405-2365, Alexander, Anna P, Anandan, Shalini, Andrews, Jason R ORCID: 0000-0002-5967-251X, Ashton, Philip M, Basnyat, Buddha, Bavdekar, Ashish, Bogoch, Isaac I, Clemens, John D, da Silva, Kesia Esther, De, Anuradha ORCID: 0000-0002-8701-4100, de Ligt, Joep, Diaz Guevara, Paula Lucia ORCID: 0000-0002-8252-5622, Dolecek, Christiane, Dutta, Shanta, Ehlers, Marthie M, Francois Watkins, Louise ORCID: 0000-0002-1165-1162, Garrett, Denise O, Godbole, Gauri, Gordon, Melita A ORCID: 0000-0002-0629-0884, Greenhill, Andrew R, Griffin, Chelsey, Gupta, Madhu, Hendriksen, Rene S, Heyderman, Robert S, Hooda, Yogesh, Hormazabal, Juan Carlos, Ikhimiukor, Odion O ORCID: 0000-0002-3738-4584, Iqbal, Junaid ORCID: 0000-0002-5014-2176, Jacob, Jobin John, Jenkins, Claire, Jinka, Dasaratha Ramaiah ORCID: 0000-0002-8184-279X, John, Jacob ORCID: 0000-0003-3654-5099, Kang, Gagandeep ORCID: 0000-0002-3656-564X, Kanteh, Abdoulie, Kapil, Arti, Karkey, Abhilasha, Kariuki, Samuel ORCID: 0000-0003-3209-9503, Kingsley, Robert A, Koshy, Roshine Mary, Lauer, AC, Levine, Myron M, Lingegowda, Ravikumar Kadahalli, Luby, Stephen P, Mackenzie, Grant Austin, Mashe, Tapfumanei, Msefula, Chisomo ORCID: 0000-0003-2304-886X, Mutreja, Ankur, Nagaraj, Geetha, Nagaraj, Savitha, Nair, Satheesh ORCID: 0000-0002-7297-1485, Naseri, Take K, Nimarota-Brown, Susana, Njamkepo, Elisabeth, Okeke, Iruka N ORCID: 0000-0002-1694-7587, Perumal, Sulochana Putli Bai, Pollard, Andrew J, Pragasam, Agila Kumari, Qadri, Firdausi, Qamar, Farah N, Rahman, Sadia Isfat Ara, Rambocus, Savitra Devi, Rasko, David A, Ray, Pallab, Robins-Browne, Roy, Rongsen-Chandola, Temsunaro, Rutanga, Jean Pierre ORCID: 0000-0002-5273-6170, Saha, Samir K ORCID: 0000-0003-3820-0748, Saha, Senjuti ORCID: 0000-0001-6087-6766, Saigal, Karnika, Sajib, Mohammad Saiful Islam, Seidman, Jessica C, Shakya, Jivan, Shamanna, Varun, Shastri, Jayanthi, Shrestha, Rajeev, Sia, Sonia, Sikorski, Michael J, Singh, Ashita, Smith, Anthony M, Tagg, Kaitlin A, Tamrakar, Dipesh, Tanmoy, Arif Mohammed, Thomas, Maria, Thomas, Mathew S, Thomsen, Robert, Thomson, Nicholas R, Tupua, Siaosi, Vaidya, Krista, Valcanis, Mary, Veeraraghavan, Balaji, Weill, François-Xavier, Wright, Jackie, Dougan, Gordon, Argimón, Silvia, Keane, Jacqueline A, Aanensen, David M ORCID: 0000-0001-6688-0854, Baker, Stephen, Holt, Kathryn E ORCID: 0000-0003-3949-2471 and Global Typhoid Genomics Consortium Group Authorship, (2023) Global diversity and antimicrobial resistance of typhoid fever pathogens: Insights from a meta-analysis of 13,000 <i>Salmonella</i> Typhi genomes. eLife, 12. e85867-.

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Hawkey, Jane, Paranagama, Kalani, Baker, Kate S ORCID: 0000-0001-5850-1949, Bengtsson, Rebecca J, Weill, Francois-Xavier, Thomson, Nicholas R, Baker, Stephen, Cerdeira, Louise, Iqbal, Zamin, Hunt, Martin et al (show 5 more authors) , Ingle, Danielle J, Dallman, Timothy J, Jenkins, Claire, Williamson, Deborah A and Holt, Kathryn E (2021) Global population structure and genotyping framework for genomic surveillance of the major dysentery pathogen, <i>Shigella sonnei</i>. NATURE COMMUNICATIONS, 12 (1). 2684-.

Azarian, Taj, Sherry, Norelle L, Baker, Kate ORCID: 0000-0001-5850-1949, Holt, Kathryn E and Okeke, Iruka N (2022) Making microbial genomics work for clinical and public health microbiology. MICROBIAL GENOMICS, 8 (9). mgen000900-.

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Wong, Vanessa K, Holt, Kathryn E, Okoro, Chinyere, Baker, Stephen, Pickard, Derek J, Marks, Florian, Page, Andrew J, Olanipekun, Grace, Munir, Huda, Alter, Roxanne et al (show 21 more authors) , Fey, Paul D, Feasey, Nicholas A, Weill, Francois-Xavier, Le Hello, Simon, Hart, Peter J, Kariuki, Samuel, Breiman, Robert F, Gordon, Melita A ORCID: 0000-0002-0629-0884, Heyderman, Robert S, Jacobs, Jan, Lunguya, Octavie, Msefula, Chisomo, MacLennan, Calman A, Keddy, Karen H, Smith, Anthony M, Onsare, Robert S, De Pinna, Elizabeth, Nair, Satheesh, Amos, Ben, Dougan, Gordon and Obaro, Stephen (2016) Molecular Surveillance Identifies Multiple Transmissions of Typhoid in West Africa. PLOS NEGLECTED TROPICAL DISEASES, 10 (9). e0004781-.

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Pham Thanh, Duy, Thompson, Corinne N, Rabaa, Maia A ORCID: 0000-0003-0529-2228, Sona, Soeng, Sopheary, Sun, Kumar, Varun, Moore, Catrin ORCID: 0000-0002-8639-9846, Tran Vu Thieu, Nga, Wijedoru, Lalith, Holt, Kathryn E ORCID: 0000-0003-3949-2471 et al (show 8 more authors) , Wong, Vanessa, Pickard, Derek, Thwaites, Guy E ORCID: 0000-0002-2858-2087, Day, Nicholas, Dougan, Gordon, Turner, Paul ORCID: 0000-0002-1013-7815, Parry, Christopher M ORCID: 0000-0001-7563-7282 and Baker, Stephen ORCID: 0000-0003-1308-5755 (2016) The Molecular and Spatial Epidemiology of Typhoid Fever in Rural Cambodia. PLoS neglected tropical diseases, 10 (6). e0004785-.

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Wong, Vanessa K, Baker, Stephen, Pickard, Derek J, Parkhill, Julian, Page, Andrew J, Feasey, Nicholas A, Kingsley, Robert A, Thomson, Nicholas R, Keane, Jacqueline A, Weill, François-Xavier et al (show 64 more authors) , Edwards, David J, Hawkey, Jane, Harris, Simon R, Mather, Alison E, Cain, Amy K, Hadfield, James, Hart, Peter J, Thieu, Nga Tran Vu, Klemm, Elizabeth J, Glinos, Dafni A, Breiman, Robert F, Watson, Conall H, Kariuki, Samuel, Gordon, Melita ORCID: 0000-0002-0629-0884, Heyderman, Robert S, Okoro, Chinyere, Jacobs, Jan, Lunguya, Octavie, Edmunds, W John, Msefula, Chisomo, Chabalgoity, Jose A, Kama, Mike, Jenkins, Kylie, Dutta, Shanta, Marks, Florian, Campos, Josefina, Thompson, Corinne, Obaro, Stephen, MacLennan, Calman A, Dolecek, Christiane, Keddy, Karen H, Smith, Anthony M, Parry, Christopher M ORCID: 0000-0001-7563-7282, Karkey, Abhilasha, Mulholland, E Kim, Campbell, James I, Dongol, Sabina, Basnyat, Buddha, Dufour, Muriel, Bandaranayake, Don, Naseri, Take Toleafoa, Singh, Shalini Pravin, Hatta, Mochammad, Newton, Paul, Onsare, Robert S, Isaia, Lupeoletalalei, Dance, David, Davong, Viengmon, Thwaites, Guy, Wijedoru, Lalith, Crump, John A, De Pinna, Elizabeth, Nair, Satheesh, Nilles, Eric J, Thanh, Duy Pham, Turner, Paul, Soeng, Sona, Valcanis, Mary, Powling, Joan, Dimovski, Karolina, Hogg, Geoff, Farrar, Jeremy, Holt, Kathryn E and Dougan, Gordon (2015) Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter- and intracontinental transmission events. Nature Genetics, 47 (06). pp. 632-639.

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Darton, Thomas C, Meiring, James E, Tonks, Susan, Khan, Md Arifuzzaman, Khanam, Farhana, Shakya, Mila, Thindwa, Deus, Baker, Stephen, Basnyat, Buddha, Clemens, John D et al (show 10 more authors) , Dougan, Gordon, Dolecek, Christiane, Dunstan, Sarah J, Gordon, Melita A ORCID: 0000-0002-0629-0884, Heyderman, Robert S, Holt, Kathryn E, Pitzer, Virginia E, Qadri, Firdausi, Zaman, K and Pollard, Andrew J (2017) The STRATAA study protocol: a programme to assess the burden of enteric fever in Bangladesh, Malawi and Nepal using prospective population census, passive surveillance, serological studies and healthcare utilisation surveys. BMJ OPEN, 7 (6). e016283-.

Torraca, Vincenzo, Brokatzky, Dominik, Miles, Sydney L, Chong, Charlotte E ORCID: 0000-0001-8402-3936, De Silva, P Malaka ORCID: 0000-0002-0579-0131, Baker, Stephen, Jenkins, Claire, Holt, Kathryn E, Baker, Kate S ORCID: 0000-0001-5850-1949 and Mostowy, Serge (2023) Shigella Serotypes Associated With Carriage in Humans Establish Persistent Infection in Zebrafish. JOURNAL OF INFECTIOUS DISEASES, 228 (8). pp. 1108-1118.

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Holt, Kathryn E ORCID: 0000-0003-3949-2471, Thieu Nga, Tran Vu, Thanh, Duy Pham, Vinh, Ha, Kim, Dong Wook ORCID: 0000-0001-5351-7597, Vu Tra, My Phan, Campbell, James I, Hoang, Nguyen Van Minh, Vinh, Nguyen Thanh, Minh, Pham Van et al (show 20 more authors) , Thuy, Cao Thu, Nga, Tran Thi Thu, Thompson, Corinne, Dung, Tran Thi Ngoc, Nhu, Nguyen Thi Khanh, Vinh, Phat Voong, Tuyet, Pham Thi Ngoc, Phuc, Hoang Le, Lien, Nguyen Thi Nam, Phu, Bui Duc, Ai, Nguyen Thi Thuy, Tien, Nguyen Manh, Dong, Nguyen, Parry, Christopher M ORCID: 0000-0001-7563-7282, Hien, Tran Tinh, Farrar, Jeremy J ORCID: 0000-0002-2700-623X, Parkhill, Julian ORCID: 0000-0002-7069-5958, Dougan, Gordon, Thomson, Nicholas R ORCID: 0000-0002-4432-8505 and Baker, Stephen ORCID: 0000-0003-1308-5755 (2013) Tracking the establishment of local endemic populations of an emergent enteric pathogen. Proceedings of the National Academy of Sciences of the United States of America, 110 (43). pp. 17522-17527.

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Wong, Vanessa K, Baker, Stephen ORCID: 0000-0003-1308-5755, Connor, Thomas R ORCID: 0000-0003-2394-6504, Pickard, Derek, Page, Andrew J, Dave, Jayshree, Murphy, Niamh, Holliman, Richard, Sefton, Armine, Millar, Michael et al (show 4 more authors) , Dyson, Zoe A ORCID: 0000-0002-8887-3492, Dougan, Gordon, Holt, Kathryn E ORCID: 0000-0003-3949-2471 and International Typhoid Consortium, (2016) An extended genotyping framework for Salmonella enterica serovar Typhi, the cause of human typhoid. Nature communications, 7 (1). 12827-.