Publications

Publications

2018

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Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing.
CRyPTIC Consortium and the 100,000 Genomes Project, Allix-Béguec C, Arandjelovic I, Bi L, Beckert P, Bonnet M, Bradley P, Cabibbe AM, Cancino-Muñoz I, Caulfield MJ, Chaiprasert A, Cirillo DM, Clifton DA, Comas I, Crook DW, De Filippo MR, de Neeling H, Diel R, Drobniewski FA, Faksri K, Farhat MR, Fleming J, Fowler P, Fowler TA, Gao Q, Gardy J, Gascoyne-Binzi D, Gibertoni-Cruz AL, Gil-Brusola A, Golubchik T, Gonzalo X, Grandjean L, He G, Guthrie JL, Hoosdally S, Hunt M, Iqbal Z, Ismail N, Johnston J, Khanzada FM, Khor CC, Kohl TA, Kong C, Lipworth S, Liu Q, Maphalala G, Martinez E, Mathys V, Merker M, Miotto P, Mistry N, Moore DAJ, Murray M, Niemann S, Omar SV, Ong RT, Peto TEA, Posey JE, Prammananan T, Pym A, Rodrigues C, Rodrigues M, Rodwell T, Rossolini GM, Sánchez Padilla E, Schito M, Shen X, Shendure J, Sintchenko V, Sloutsky A, Smith EG, Snyder M, Soetaert K, Starks AM, Supply P, Suriyapol P, Tahseen S, Tang P, Teo YY, Thuong TNT, Thwaites G, Tortoli E, van Soolingen D, Walker AS, Walker TM, Wilcox M, Wilson DJ, Wyllie D, Yang Y, Zhang H, Zhao Y, Zhu B. The New England journal of medicine Volume 379 (2018) p.1403-1415 DOI: 10.1056/NEJMoa1800474
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Corrigendum: Resolving plasmid structures in Enterobacteriaceae using the MinION nanopore sequencer: assessment of MinION and MinION/Illumina hybrid data assembly approaches.
George S, Pankhurst L, Hubbard A, Votintseva A, Stoesser N, Sheppard AE, Mathers A, Norris R, Navickaite I, Eaton C, Iqbal Z, Crook DW, Phan HTT. Microbial genomics Volume 4 (2018) DOI: 10.1099/mgen.0.000130

2017

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Real-time search of all bacterial and viral genomic data
Bradley P, den Bakker H, Rocha E, McVean G, Iqbal Z. Preprint DOI: 10.1101/234955
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The global distribution and spread of the mobilized colistin resistance gene mcr-1
Wang R, van Dorp L, Shaw L, Bradley P, Wang Q, Wang X, Jin L, Zhang Q, Liu Y, Rieux A, Dorai-Schneiders T, Weinert LA, Iqbal Z, Didelot X, Wang H, Balloux F. Preprint DOI: 10.1101/220921
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A novel multi SNP based method for the identification of subspecies and associated lineages and sub-lineages of the Mycobacterium tuberculosis complex by whole genome sequencing
Lipworth SIW, Jajou R, de Neeling H, Bradley P, van der Hoek W, Maphalala G, Bonnet M, Sanchez-Padilla E, Diel R, Niemann S, Iqbal Z, Smith G, Peto T, Crook D, Walker TM, van Soolingen D. Preprint DOI: 10.1101/213850
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Inferring synteny between genome assemblies: a systematic evaluation
Liu D, Hunt M, Tsai IJ. Preprint DOI: 10.1101/149989
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Integrating long-range connectivity information into de Bruijn graphs
Turner I, Garimella KV, Iqbal Z, McVean G. Preprint DOI: 10.1101/147777
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ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads
Hunt M, Mather AE, Sánchez-Busó L, Page AJ, Parkhill J, Keane JA, Harris SR. Preprint DOI: 10.1101/118000
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Severe infections emerge from the microbiome by adaptive evolution
Young BC, Wu C, Gordon NC, Cole K, Price JR, Liu E, Sheppard A, Perera S, Charlesworth J, Golubchik T, Iqbal Z, Bowden R, Massey R, Paul J, Crook DW, Peto TE, Walker AS, Llewelyn M, Wyllie DH, Wilson D. Preprint DOI: 10.1101/116681