Data Creators(s) Item Type No Grouping

PolyTB: A web-based resource designed to explore Mycobacterium tuberculosis complex (MTBC) genomic variation at a global scale. (2014) Coll, Francesc; Preston, Mark; Guerra-Assunção, José Afonso; Hill-Cawthorn, Grant; Harris, David; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Drobniewski, Francis; Gagneux, Sebastien; Glynn, Judith R.; Pain, Arnab; Parkhill, Julian; McNerney, Ruth; Martin, Nigel; Clark, Taane

Integrated view of Vibrio cholerae in the Americas. (2017) Domman, Daryl; Quilici, Marie-Laure; Dorman, Matthew J.; Njamkepo, Elisabeth; Mutreja, Ankur; Mather, Alison E.; Delgado, Gabriella; Morales-Espinosa, Rosario; Grimont, Patrick A. D.; Lizárraga-Partida, Marcial Leonardo; Bouchier, Christiane; Aanensen, David M.; Kuri-Morales, Pablo; Tarr, Cheryl L.; Dougan, Gordon; Parkhill, Julian; Campos, Josefina; Cravioto, Alejandro; Weill, François-Xavier; Thomson, Nicholas R.

Supporting data for 'High quality reference genomes for toxigenic and non-toxigenic Vibrio cholerae serogroup O139'. (2019) Dorman, Matthew J; Domman, Daryl; Uddin, Muhammad Ikhtear; Sharmin, Salma; Hassan Afrad, Mokibul; Begum, Yasmin Ara; Qadri, Firdausi; Thomson, Nicholas R

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

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

Profile of the organisms selected for sequencing. (2021) Guevara, Paula Diaz; Maes, Mailis; Thanh, Duy Pham; Duarte, Carolina; Rodriguez, Edna Catering; Montaño, Lucy Angeline; Dan, Thanh Ho Ngoc; Nguyen, To Nguyen Thi; Carey, Megan E; Campos, Josefina; Chinen, Isabel; Perez, Enrique; Baker, Stephen

Additional file 2 of A genome-wide One Health study of Klebsiella pneumoniae in Norway reveals overlapping populations but few recent transmission events across reservoirs. (2025) Hetland, Marit A. K.; Winkler, Mia A.; Kaspersen, Håkon P.; Håkonsholm, Fredrik; Bakksjø, Ragna-Johanne; Bernhoff, Eva; Delgado-Blas, Jose F.; Brisse, Sylvain; Correia, Annapaula; Fostervold, Aasmund; Lam, Margaret M. C.; Lunestad, Bjørn-Tore; Marathe, Nachiket P.; Raffelsberger, Niclas; Samuelsen, Ørjan; Sunde, Marianne; Sundsfjord, Arnfinn; Urdahl, Anne Margrete; Wick, Ryan R.; Löhr, Iren H.; Holt, Kathryn E.

Acinetobacter baumannii GC1 recombination analysis. (2016) Holt, Kathryn E.

Convergent evolution of artemisinin and chloroquine resistance in Ethiopian Plasmodium falciparum parasites. (2025) Letebo, Alemayehu; Vanheer, Leen N.; Engdaw, Mengst; Alemayehu, Dawit Hailu; Deressa, Jimma Dinsa; Adnew, Bethlehem; Ayele, Abaysew; Keffale, Migbaru; Demisse, Mulugeta; Seyoum, Tamrayehu; Shiferaw, Meklit; Sime, Heven; Gebreegziabxier, Atsbeha; Shimelash, Amanuel; Tafa, Elias B.; Chali, Wakweya; Alemayehu, Lina; Kassa, Fikregabrail Aberra; Zeleke, Ayalew Jejaw; Hamza, Tajudin Abdurhaman; Tamirat, Abel Beliyu; Misganaw, Tadesse; Bogale, Alayu; Abriham, Zufan Yiheyis; Nasir, Yasin; Jebessa, Gutema; Ejigu, Legesse Alamerie; Yohannes, Metmiku; Kebede, Betelhem Akililu; Ayele, Matiwos Kidane; Abdo, Melat; Habtamu, Getinet; Gizat, Addisu; Phelan, Jody; Matlock, Bryce; Fidock, David A.; Campino, Susana; Assefa, Ashenafi; Koepfli, Cristian; Massebo, Fekadu; Tadesse, Fitsum G.

Plasmodium falciparum sequencing Bijagos Archipelago 2018. (2022) London School of Hygiene & Tropical Medicine

Contexts, Facilitators, and Barriers to Integrating Portable Genomic Sequencing in Outbreak Response: A Qualitative Study from Coastal Kenya. (2025) Makena, Evelyn; Wang, Ling; Okanda, Dorcas; Carter, Daniel; Leggio, Cristina; Odhiambo, Juliet; Munyoki, Catherine; Abdalla, Abbbas; Agoti, Charles N.; Gatie, Victor; Adam, Ahmed; Wasike, Hildergard; Kassim, Salim; Onwonga, Vera; Robaa, Abdi; Ndia, Millicent; Kiiru, John; Kingwara, Leonard; Madada, Rukia; Lang'at, Paul; Hargreaves, James R.; Hughes, Gwenda; Eunice Wangeci, Kagucia; Haque, Farhana; Githinji, George

Files for "Evolution and epidemiology of multidrug resistant Klebsiella pneumoniae in the UK and Ireland". (2016) Moradigaravand, Danesh; Martin, Veronique; Peacock, Sharon J.; Parkhill, Julian

Whole genome sequences for M.tuberculosis isolates from the TDR strain bank. (2015) 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; Pain, Arnab; Rigouts, Leen; Clark, Taane description

jodyphelan/malaria-db. (2023) Phelan, Jody; Manko, Emilia

jodyphelan/malaria-profiler. (2023) Phelan, Jody; Thorpe, Joseph

Wolbachia endosymbionts in two Anopheles species indicates independent acquisitions and lack of prophage elements. (2022) Quek, Shannon; Cerdeira, Louise; Jeffries, Claire L.; Tomlinson, Sean; Walker, Thomas; Hughes, Grant L.; Heinz, Eva

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

Dataset for "Genomic characterisation of Salmonella enterica serovar Wangata isolates obtained from different sources reveals low genomic diversity". (2020) Simpson, Kelly M J; Mor, Siobhan M; Ward, Michael P; Collins, Julie; Flint, James; Hill-Cawthorne, Grant A; El Ghany, Moataz Abd

TBProfiler for automated calling of the association with drug resistance of variants in Mycobacterium tuberculosis. S1 File. (2022) Verboven, Lennert; Phelan, Jody; Heupink, Tim H.; Van Rie, Annelies

TBProfiler for automated calling of the association with drug resistance of variants in Mycobacterium tuberculosis. S2 File. (2022) Verboven, Lennert; Phelan, Jody; Heupink, Tim H.; Van Rie, Annelies

linfeng-wang/GMM4TB. (2023) Wang, Linfeng

Genome details for the simulated-read tests. (2022) Wick, Ryan R.; Holt, Kathryn E.

Polypolish: Short-read polishing of long-read bacterial genome assemblies. (2022) Wick, Ryan R.; Holt, Kathryn E.

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

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

Transmission analysis of a large TB outbreak in London: a mathematical modelling study using genomic data. (2020) Xu, Yuanwei; Stockdale, Jessica E; Naidu, Vijay; Hatherell, Hollie; Stimson, James; Stagg, Helen R; Abubakar, Ibrahim; Colijn, Caroline