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Spatial Analysis of Drug-Susceptible and Multidrug-Resistant Cases of Tuberculosis, Ho Chi Minh City, Vietnam, 2020-2023.
Published in:
Emerging Infectious Diseases, 2024, v. 30, n. 3, p. 499, doi. 10.3201/eid3003.231309
By:
- Spies, Ruan;
- Hong, Hanh N.;
- Trieu, Phu P.;
- Lan, Luong K.;
- Lan, Kim;
- Hue, N. N.;
- Huong, Nguyen T. L.;
- Thao, Tran T. L. N.;
- Quang, Nguyen L.;
- Anh, Thu D. D.;
- Vinh, Truong V.;
- Ha, Dang T. M.;
- Dat, Phan T.;
- Hai, Nguyen P.;
- Van, Le H.;
- Thwaites, Guy E.;
- Thuong, Nguyen T. T.;
- Watson, James A.;
- Walker, Timothy M.
Publication type:
Article
In silico evaluation of WHO-endorsed molecular methods to detect drug resistant tuberculosis.
Published in:
Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-21025-6
By:
- Brankin, Alice;
- Seifert, Marva;
- Georghiou, Sophia B.;
- Walker, Timothy M.;
- Uplekar, Swapna;
- Suresh, Anita;
- Colman, Rebecca E.
Publication type:
Article
High fluoroquinolone resistance proportions among multidrug-resistant tuberculosis driven by dominant L2 Mycobacterium tuberculosis clones in the Mumbai Metropolitan Region.
Published in:
Genome Medicine, 2022, v. 14, n. 1, p. 1, doi. 10.1186/s13073-022-01076-0
By:
- Dreyer, Viola;
- Mandal, Ayan;
- Dev, Prachi;
- Merker, Matthias;
- Barilar, Ivan;
- Utpatel, Christian;
- Nilgiriwala, Kayzad;
- Rodrigues, Camilla;
- Crook, Derrick W.;
- the CRyPTIC Consortium;
- Peto, Timothy E. A.;
- Walker, A. Sarah;
- Hoosdally, Sarah J.;
- Gibertoni Cruz, Ana L.;
- Carter, Joshua;
- Earle, Sarah;
- Kouchaki, Samaneh;
- Yang, Yang;
- Walker, Timothy M.;
- Fowler, Philip W.
Publication type:
Article
Correction: Tuberculosis in Ukrainian War Refugees and Migrants in the Czech Republic and Slovakia: A Molecular Epidemiological Study.
Published in:
2024
By:
- Dohál, Matúš;
- Dvořáková, Věra;
- Šperková, Miluše;
- Ghodousi, Arash;
- Omrani, Maryam;
- Porvazník, Igor;
- Rasmussen, Erik M.;
- Škereňová, Mária;
- Krivošová, Michaela;
- Konstantynovska, Olha;
- Walker, Timothy M.;
- Nikolayevskyy, Vladyslav;
- Cirillo, Daniela M.;
- Solovič, Ivan;
- Mokrý, Juraj
Publication type:
Correction Notice
Tuberculosis in Ukrainian War Refugees and Migrants in the Czech Republic and Slovakia: A Molecular Epidemiological Study.
Published in:
Journal of Epidemiology & Global Health, 2024, v. 14, n. 1, p. 35, doi. 10.1007/s44197-023-00166-5
By:
- Dohál, Matúš;
- Dvořáková, Věra;
- Šperková, Miluše;
- Pinková, Martina;
- Ghodousi, Arash;
- Omrani, Maryam;
- Porvazník, Igor;
- Rasmussen, Erik Michael;
- Škereňová, Mária;
- Krivošová, Michaela;
- Wallenfels, Jiří;
- Konstantynovska, Olha;
- Walker, Timothy M.;
- Nikolayevskyy, Vladyslav;
- Cirillo, Daniela Maria;
- Solovič, Ivan;
- Mokrý, Juraj
Publication type:
Article
A crowd of BashTheBug volunteers reproducibly and accurately measure the minimum inhibitory concentrations of 13 antitubercular drugs from photographs of 96-well broth microdilution plates.
Published in:
eLife, 2022, p. 1, doi. 10.7554/eLife.75046
By:
- Fowler, Philip W.;
- Wright, Carla;
- Spiers, Helen;
- Tingting Zhu;
- Baeten, Elisabeth M. L.;
- Hoosdally, Sarah W.;
- Gibertoni Cruz, Ana L.;
- Roohi, Aysha;
- Kouchaki, Samaneh;
- Walker, Timothy M.;
- Peto, Timothy E. A.;
- Miller, Grant;
- Lintott, Chris;
- Clifton, David;
- Crook, Derrick W.;
- Walker, A. Sarah
Publication type:
Article
A crowd of BashTheBug volunteers reproducibly and accurately measure the minimum inhibitory concentrations of 13 antitubercular drugs from photographs of 96-well broth microdilution plates.
Published in:
eLife, 2022, p. 1
By:
- Fowler, Philip W.;
- Wright, Carla;
- Spiers, Helen;
- Tingting Zhu;
- Baeten, Elisabeth M. L.;
- Hoosdally, Sarah W.;
- Gibertoni Cruz, Ana Luíza;
- Roohi, Aysha;
- Kouchaki, Samaneh;
- Walker, Timothy M.;
- Peto, Timothy E. A.;
- Miller, Grant;
- Lintott, Chris;
- Clifton, David;
- Crook, Derrick W.;
- Walker, A. Sarah
Publication type:
Article
Pathogen-based precision medicine for drug-resistant tuberculosis.
Published in:
PLoS Pathogens, 2018, v. 14, n. 10, p. 1, doi. 10.1371/journal.ppat.1007297
By:
- Gröschel, Matthias I.;
- Walker, Timothy M.;
- van der Werf, Tjip S.;
- Lange, Christoph;
- Niemann, Stefan;
- Merker, Matthias
Publication type:
Article
Transmission of community- and hospital-acquired SARS-CoV-2 in hospital settings in the UK: A cohort study.
Published in:
PLoS Medicine, 2021, v. 18, n. 10, p. 1, doi. 10.1371/journal.pmed.1003816
By:
- Mo, Yin;
- Eyre, David W.;
- Lumley, Sheila F.;
- Walker, Timothy M.;
- Shaw, Robert H.;
- O'Donnell, Denise;
- Butcher, Lisa;
- Jeffery, Katie;
- Donnelly, Christl A.;
- Cooper, Ben S.;
- Oxford COVID infection review team
Publication type:
Article
end-to-end heterogeneous graph attention network for Mycobacterium tuberculosis drug-resistance prediction.
Published in:
Briefings in Bioinformatics, 2021, v. 22, n. 6, p. 1, doi. 10.1093/bib/bbab299
By:
- Yang, Yang;
- Walker, Timothy M;
- Kouchaki, Samaneh;
- Wang, Chenyang;
- Peto, Timothy E A;
- Crook, Derrick W;
- Consortium, CRYPTIC;
- Clifton, David A
Publication type:
Article
Corrigendum: Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis.
Published in:
Nature Communications, 2016, v. 7, n. 4, p. 11465, doi. 10.1038/ncomms11465
By:
- Bradley, Phelim;
- Gordon, N. Claire;
- Walker, Timothy M.;
- Dunn, Laura;
- Heys, Simon;
- Huang, Bill;
- Earle, Sarah;
- Pankhurst, Louise J.;
- Anson, Luke;
- de Cesare, Mariateresa;
- Piazza, Paolo;
- Votintseva, Antonina A.;
- Golubchik, Tanya;
- Wilson, Daniel J.;
- Wyllie, David H.;
- Diel, Roland;
- Niemann, Stefan;
- Feuerriegel, Silke;
- Kohl, Thomas A.;
- Ismail, Nazir
Publication type:
Article
Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis.
Published in:
Nature Communications, 2015, v. 6, n. 12, p. 10063, doi. 10.1038/ncomms10063
By:
- Bradley, Phelim;
- Gordon, N. Claire;
- Walker, Timothy M.;
- Dunn, Laura;
- Heys, Simon;
- Huang, Bill;
- Earle, Sarah;
- Pankhurst, Louise J.;
- Anson, Luke;
- de Cesare, Mariateresa;
- Piazza, Paolo;
- Votintseva, Antonina A.;
- Golubchik, Tanya;
- Wilson, Daniel J.;
- Wyllie, David H.;
- Diel, Roland;
- Niemann, Stefan;
- Feuerriegel, Silke;
- Kohl, Thomas A.;
- Ismail, Nazir
Publication type:
Article
Sources of Multidrug Resistance in Patients With Previous Isoniazid-Resistant Tuberculosis Identified Using Whole Genome Sequencing: A Longitudinal Cohort Study.
Published in:
Clinical Infectious Diseases, 2020, v. 71, n. 10, p. e532, doi. 10.1093/cid/ciaa254
By:
- Srinivasan, Vijay;
- Ha, Vu T N;
- Vinh, Dao N;
- Thai, Phan V K;
- Ha, Dang T M;
- Lan, Nguyen H;
- Hai, Hoang T;
- Walker, Timothy M;
- Thu, Do D A;
- Dunstan, Sarah J;
- Thwaites, Guy E;
- Ashton, Philip M;
- Caws, Maxine;
- Thuong, Nguyen T T
Publication type:
Article
Building the Framework for Standardized Clinical Laboratory Reporting of Next-generation Sequencing Data for Resistance-associated Mutations in Mycobacterium tuberculosis Complex.
Published in:
Clinical Infectious Diseases, 2019, v. 69, n. 9, p. 1631, doi. 10.1093/cid/ciz219
By:
- Tornheim, Jeffrey A;
- Starks, Angela M;
- Rodwell, Timothy C;
- Gardy, Jennifer L;
- Walker, Timothy M;
- Cirillo, Daniela M;
- Jayashankar, Lakshmi;
- Miotto, Paolo;
- Zignol, Matteo;
- Schito, Marco
Publication type:
Article
A data compendium associating the genomes of 12,289 Mycobacterium tuberculosis isolates with quantitative resistance phenotypes to 13 antibiotics.
Published in:
PLoS Biology, 2022, v. 20, n. 8, p. 1, doi. 10.1371/journal.pbio.3001721
By:
- Crook, Derrick W.;
- Peto, Timothy E. A.;
- Hoosdally, Sarah J.;
- Cruz, Ana Lúıza Gibertoni;
- Walker, A. Sarah;
- Walker, Timothy M.;
- Fowler, Philip W.;
- Iqbal, Zamin;
- Cirillo, Daniela Maria;
- Brankin, Alice;
- Malone, Kerri M.;
- Hunt, Martin;
- Knaggs, Jeff;
- Mistry, Nerges;
- Rodrigues, Camilla;
- Moore, David;
- Ismail, Nazir Ahmed;
- Niemann, Stefan;
- Roohi, Aysha;
- Letcher, Brice
Publication type:
Article
Prediction of pyrazinamide resistance in Mycobacterium tuberculosis using structure-based machine-learning approaches.
Published in:
JAC-Antimicrobial Resistance, 2024, v. 6, n. 2, p. 1, doi. 10.1093/jacamr/dlae037
By:
- Carter, Joshua J;
- Walker, Timothy M;
- Walker, A Sarah;
- Whitfield, Michael G;
- Morlock, Glenn P;
- Lynch, Charlotte I;
- Adlard, Dylan;
- Peto, Timothy E A;
- Posey, James E;
- Crook, Derrick W;
- Fowler, Philip W
Publication type:
Article
Stringent thresholds in SARS-CoV-2 IgG assays lead to under-detection of mild infections.
Published in:
2021
By:
- 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.;
- Peto, Timothy E. A.
Publication type:
journal article
Using hospital network-based surveillance for antimicrobial resistance as a more robust alternative to self-reporting.
Published in:
PLoS ONE, 2019, v. 14, n. 7, p. 1, doi. 10.1371/journal.pone.0219994
By:
- Donker, Tjibbe;
- Smieszek, Timo;
- Henderson, Katherine L.;
- Walker, Timothy M.;
- Hope, Russell;
- Johnson, Alan P.;
- Woodford, Neil;
- Crook, Derrick W.;
- Peto, Tim E. A.;
- Walker, A. Sarah;
- Robotham, Julie V.
Publication type:
Article
DeepAMR for predicting co-occurrent resistance of Mycobacterium tuberculosis.
Published in:
Bioinformatics, 2019, v. 35, n. 18, p. 3240, doi. 10.1093/bioinformatics/btz067
By:
- Yang, Yang;
- Walker, Timothy M;
- Walker, A Sarah;
- Wilson, Daniel J;
- Peto, Timothy E A;
- Crook, Derrick W;
- Shamout, Farah;
- Consortium, CRyPTIC;
- Zhu, Tingting;
- Clifton, David A
Publication type:
Article
Application of machine learning techniques to tuberculosis drug resistance analysis.
Published in:
Bioinformatics, 2019, v. 35, n. 13, p. 2276, doi. 10.1093/bioinformatics/bty949
By:
- Kouchaki, Samaneh;
- Yang, Yang;
- Walker, Timothy M;
- Walker, A Sarah;
- Wilson, Daniel J;
- Peto, Timothy E A;
- Crook, Derrick W;
- Consortium, CRyPTIC;
- Clifton, David A
Publication type:
Article
Machine learning for classifying tuberculosis drug-resistance from DNA sequencing data.
Published in:
Bioinformatics, 2018, v. 34, n. 10, p. 1666, doi. 10.1093/bioinformatics/btx801
By:
- Yang, Yang;
- Niehaus, Katherine E;
- Walker, Timothy M;
- Iqbal, Zamin;
- Walker, A Sarah;
- Wilson, Daniel J;
- Peto, Tim E A;
- Crook, Derrick W;
- Smith, E Grace;
- Zhu, Tingting
Publication type:
Article
Genomic insights into anthropozoonotic tuberculosis in captive sun bears (Helarctos malayanus) and an Asiatic black bear (Ursus thibetanus) in Cambodia.
Published in:
Scientific Reports, 2024, v. 14, n. 1, p. 1, doi. 10.1038/s41598-024-57318-1
By:
- Officer, Kirsty;
- Walker, Timothy M.;
- Cheng, Sokleaph;
- Heng, Seiha;
- Hidé, Mallorie;
- Bañuls, Anne-Laure;
- Cracknell, Jonathan;
- Broadis, Nev;
- Thy, Nhim;
- Abraham, Sam;
- Warren, Kris;
- Jackson, Bethany
Publication type:
Article
Multi-Label Random Forest Model for Tuberculosis Drug Resistance Classification and Mutation Ranking.
Published in:
Frontiers in Microbiology, 2020, v. 11, p. 1, doi. 10.3389/fmicb.2020.00667
By:
- Kouchaki, Samaneh;
- Yang, Yang;
- Lachapelle, Alexander;
- Walker, Timothy M.;
- Walker, A. Sarah;
- Peto, Timothy E. A.;
- Crook, Derrick W.;
- Clifton, David A.
Publication type:
Article

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