Items where Data Creator is Holt, Kathryn E."
Number of items: 43.
24 November 2015
The introduction and establishment of fluoroquinolone resistant Shigella sonnei into Bhutan. (2015)
Chung The, Hao, Rabaa, Maia A., Pham Thanh, Duy, Ruekit, Sirigade, Wangchuk, Sonam, Dorji, Tshering, Pem Tshering, Kinzang, Nguyen Thi Nguyen, To, Voong Vinh, Phat, Ha Thanh, Tuyen, Nguyen Ngoc Minh, Chau, Turner, Paul, Sar, Poda, Thwaites, Guy, Holt, Kathryn E., Thomson, Nicholas R., Bodhidatta, Ladaporn, Mason, Carl Jeffries, Baker, Stephen
12 February 2016
Bacteria genomic rates data: First release. (2016)
Duchêne, Sebastian, Holt, Kathryn E., Weill, François-Xavier, Le Hello, Simon, Hawkey, Jane, Edwards, David J., Fourment, Mathieu, Holmes, Edward C.
24 May 2017
Evolutionary dynamics and genomic features of the Elizabethkingia anophelis 2015 to 2016 Wisconsin outbreak strain. (2017)
Perrin, Amandine, Larsonneur, Elise, Nicholson, Ainsley C., Edwards, David J., Gundlach, Kristin M., Whitney, Anne M., Gulvik, Christopher A., Bell, Melissa E., Rendueles, Olaya, Cury, Jean, Hugon, Perrine, Clermont, Dominique, Enouf, Vincent, Loparev, Vladimir, Juieng, Phalasy, Monson, Timothy, Warshauer, David, Elbadawi, Lina I., Walters, Maroya Spalding, Crist, Matthew B., Noble-Wang, Judith, Borlaug, Gwen, Rocha, Eduardo P. C., Criscuolo, Alexis, Touchon, Marie, Davis, Jeffrey P., Holt, Kathryn E., McQuiston, John R., Brisse, Sylvain
13 July 2018
Population genomics of hypervirulent Klebsiella pneumoniae clonal-group 23 reveals early emergence and rapid global dissemination. (2018)
M. C. Lam, Margaret, Wyres, Kelly L., Duchêne, Sebastian, Wick, Ryan R., Judd, Louise M., Gan, Yunn-Hwen, Hoh, Chu-Han, Archuleta, Sophia, Molton, James S., Kalimuddin, Shirin, Koh, Tse Hsien, Passet, Virginie, Brisse, Sylvain, Holt, Kathryn E.
1 February 2019
Clinical and laboratory-induced colistin-resistance mechanisms in Acinetobacter baumannii. (2019)
Boinett, Christine J., Cain, Amy K., Hawkey, Jane, Do Hoang, Nhu Tran, Khanh, Nhu Nguyen Thi, Thanh, Duy Pham, Dordel, Janina, Campbell, James I., Lan, Nguyen Phu Huong, Mayho, Matthew, Langridge, Gemma C., Hadfield, James, Chau, Nguyen Van Vinh, Thwaites, Guy E., Parkhill, Julian, Thomson, Nicholas R., Holt, Kathryn E., Baker, Stephen
15 February 2019
Convergence of virulence and MDR in a single plasmid vector in MDR Klebsiella pneumoniae ST15. (2019)
Lam, Margaret M C, Wyres, Kelly L, Wick, Ryan R, Judd, Louise M, Fostervold, Aasmund, Holt, Kathryn E., Löhr, Iren Høyland
15 April 2019
Distinct evolutionary dynamics of horizontal gene transfer in drug resistant and virulent clones of Klebsiella pneumoniae. (2019)
Wyres, Kelly L, Wick, Ryan R, Judd, Louise M, Froumine, Roni, Tokolyi, Alex, Gorrie, Claire L, Lam, Margaret MC, Duchêne, Sebastián, Jenney, Adam, Holt, Kathryn
20 May 2019
Global phylogenomics of multidrug-resistant Salmonella enterica serotype Kentucky ST198. (2019)
Hawkey, Jane, Le Hello, Simon, Doublet, Benoît, Granier, Sophie A, Hendriksen, Rene S, Fricke, W Florian, Ceyssens, Pieter-Jan, Gomart, Camille, Billman-Jacobe, Helen, Holt, Kathryn E., Weill, François-Xavier
12 September 2019
Informal genomic surveillance of regional distribution of Salmonella Typhi genotypes and antimicrobial resistance via returning travellers. (2019)
Ingle, Danielle J., Nair, Satheesh, Hartman, Hassan, Ashton, Philip M., Dyson, Zoe A., Day, Martin, Freedman, Joanne, Chattaway, Marie A., Holt, Kathryn E., Dallman, Timothy J.
16 January 2020
Data for, "Genomic surveillance for hypervirulence and multi-drug resistance in invasive Klebsiella pneumoniae from south and southeast Asia.". (2020)
Wyres, Kelly L., Nguyen, To N. T., Lam, Margaret M. C., Judd, Louise M., van Vinh Chau, Nguyen, Dance, David A. B., Ip, Margaret, Karkey, Abhilasha, Ling, Clare L., Miliya, Thyl, Newton, Paul N., Lan, Nguyen Phu Huong, Sengduangphachanh, Amphone, Turner, Paul, Veeraraghavan, Balaji, Vinh, Phat Voong, Vongsouvath, Manivanh, Thomson, Nicholas R., Baker, Stephen, Holt, Kathryn E.
10 March 2020
Population structure and antimicrobial resistance patterns of Salmonella Typhi isolates in urban Dhaka, Bangladesh from 2004 to 2016. (2020)
Rahman, Sadia Isfat Ara, Dyson, Zoe A., Klemm, Elizabeth J., Khanam, Farhana, Holt, Kathryn E., Chowdhury, Emran Kabir, Dougan, Gordon, Qadri, Firdausi
15 July 2021
Additional file 2 of Genomic surveillance of antimicrobial resistant bacterial colonisation and infection in intensive care patients. (2021)
Wyres, Kelly L., Hawkey, Jane, Mirčeta, Mirianne, Judd, Louise M., Wick, Ryan R., Gorrie, Claire L., Pratt, Nigel F., Garlick, Jill S., Watson, Kerrie M., Pilcher, David V., McGloughlin, Steve A., Abbott, Iain J., Macesic, Nenad, Spelman, Denis W., Jenney, Adam W. J., Holt, Kathryn E.
24 January 2022
Assembly and polishing details for the real-read tests. (2022)
Wick, Ryan R, Holt, Kathryn E
Confusion matrices for the simulated-read tests. (2022)
Wick, Ryan R, Holt, Kathryn E
Genome details for the simulated-read tests. (2022)
Wick, Ryan R., Holt, Kathryn E.
Predictors of assembly quality. (2022)
Wick, Ryan R, Holt, Kathryn E
Raw results for the real-read tests. (2022)
Wick, Ryan R, Holt, Kathryn E
Raw results for the simulated-read tests. (2022)
Wick, Ryan R, Holt, Kathryn E
28 March 2022
Accession numbers and data for S. Typhi sequences used in this study. (2022)
Dyson, Zoe Anne, Malau, Elisheba, Horwood, Paul F, Ford, Rebecca, Siba, Valentine, Yoannes, Mition, Pomat, William, Passey, Megan, Judd, Louise M, Ingle, Danielle J, Williamson, Deborah A, Dougan, Gordon, Greenhill, Andrew R, Holt, Kathryn E
Excluded repeat and phage regions in PNG MDUST348 2.1.7.2 completed reference sequence. (2022)
Dyson, Zoe Anne, Malau, Elisheba, Horwood, Paul F, Ford, Rebecca, Siba, Valentine, Yoannes, Mition, Pomat, William, Passey, Megan, Judd, Louise M, Ingle, Danielle J, Williamson, Deborah A, Dougan, Gordon, Greenhill, Andrew R, Holt, Kathryn E
Outgroups used for phylogenetic tree rooting. (2022)
Dyson, Zoe Anne, Malau, Elisheba, Horwood, Paul F, Ford, Rebecca, Siba, Valentine, Yoannes, Mition, Pomat, William, Passey, Megan, Judd, Louise M, Ingle, Danielle J, Williamson, Deborah A, Dougan, Gordon, Greenhill, Andrew R, Holt, Kathryn E
24 August 2022
Additional file 1 of ESBL plasmids in Klebsiella pneumoniae: diversity, transmission and contribution to infection burden in the hospital setting. (2022)
Hawkey, Jane, Wyres, Kelly L., Judd, Louise M., Harshegyi, Taylor, Blakeway, Luke, Wick, Ryan R., Jenney, Adam W. J., Holt, Kathryn E.
Additional file 3 of ESBL plasmids in Klebsiella pneumoniae: diversity, transmission and contribution to infection burden in the hospital setting. (2022)
Hawkey, Jane, Wyres, Kelly L., Judd, Louise M., Harshegyi, Taylor, Blakeway, Luke, Wick, Ryan R., Jenney, Adam W. J., Holt, Kathryn E.
Additional file 4 of ESBL plasmids in Klebsiella pneumoniae: diversity, transmission and contribution to infection burden in the hospital setting. (2022)
Hawkey, Jane, Wyres, Kelly L., Judd, Louise M., Harshegyi, Taylor, Blakeway, Luke, Wick, Ryan R., Jenney, Adam W. J., Holt, Kathryn E.
13 March 2023
Nanopore-only assemblies for genomic surveillance of the global priority drug-resistant pathogen, Klebsiella pneumoniae. (2023)
Foster-Nyarko, Ebenezer, Holt, Kathryn E., Cottingham, Hugh, Wick, Ryan, Judd, Louise M., Lam, Margaret, Wyres, Kelly L., Stanton, Thomas, Tsang, Kara K., David, Sophia, Bridel, Sébastien, Palma, Federica, Aanensen, David M, Brisse, Sylvain
5 February 2024
Supplemental Data for "A validated pangenome-scale metabolic model for the Klebsiella pneumoniae species complex.". (2024)
Cooper, Helena B., Vezina, Ben, Hawkey, Jane, Passet, Virginie, López-Fernández, Sebastián, Monk, Jonathan M., Brisse, Sylvain, Holt, Kathryn E., Wyres, Kelly L.
12 March 2024
amrnet/amrnet: AMRnet-v1.0. (2024)
Cerdeira, Louise, Sharma, Vandana, Maranga, Mary, Carey, Megan, Dyson, Zoe Anne, Holt, Kathryn E.
4 September 2024
klebgenomics/Kleborate: v3.0.0. (2024)
Ryan Wick, Holt, Kathryn E., marlam89, kelwyres, Maranga, Mary, Petit III, Robert A., da Silva, Anders Goncalves, Deveaud, Eric, Lampa, Samuel, Stanton, Tom
10 January 2025
AmpliconTyper. (2025)
Spadar, Anton, Mahindroo, Jaspreet, Troman, Catherine, Owusu, Michael, Adu-Sarkodie, Yaw, Abraham, Dilip, Blossom Benny, Govindan, Karthikeyan, Mohan, Venkata Raghava, Dyson, Zoe Anne, Grassly, Nicholas, Holt, Kathryn E.