| Potential impact of the COVID-19 pandemic on HIV, tuberculosis, and malaria in low-income and middle-income countries: a modelling study AB Hogan, BL Jewell, E Sherrard-Smith, JF Vesga, OJ Watson, ... The Lancet Global Health 8 (9), e1132-e1141, 2020 | 320* | 2020 |
| Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes J Lees, M Vehkala, N Välimäki, S Harris, C Chewapreecha, N Croucher, ... Nature Communications 7, 12797, 2016 | 147 | 2016 |
| Fast and flexible bacterial genomic epidemiology with PopPUNK J Lees, S Harris, G Tonkin-Hill, R Gladstone, S Lo, J Weiser, J Corander, ... Genome Research 29 (2), 304-316, 2019 | 113 | 2019 |
| Report 21: Estimating COVID-19 cases and reproduction number in Brazil TA Mellan, HH Hoeltgebaum, S Mishra, C Whittaker, RP Schnekenberg, ... medRxiv, 2020 | 104* | 2020 |
| Reduction in mobility and COVID-19 transmission P Nouvellet, S Bhatia, A Cori, KEC Ainslie, M Baguelin, S Bhatt, ... Nature communications 12 (1), 1-9, 2021 | 101* | 2021 |
| State-level tracking of COVID-19 in the United States HJT Unwin, S Mishra, VC Bradley, A Gandy, TA Mellan, H Coupland, ... Nature communications 11 (1), 1-9, 2020 | 84 | 2020 |
| Pneumococcal lineages associated with serotype replacement and antibiotic resistance in childhood invasive pneumococcal disease in the post-PCV13 era: an international whole … SW Lo, RA Gladstone, AJ van Tonder, JA Lees, M du Plessis, R Benisty, ... The Lancet Infectious Diseases 19 (7), 759-769, 2019 | 74 | 2019 |
| RhierBAPS: an R implementation of the population clustering algorithm hierBAPS G Tonkin-Hill, JA Lees, SD Bentley, SDW Frost, J Corander Wellcome open research 3 (93), 2018 | 73 | 2018 |
| The potential public health consequences of COVID-19 on malaria in Africa E Sherrard-Smith, AB Hogan, A Hamlet, OJ Watson, C Whittaker, ... Nature medicine 26 (9), 1411-1416, 2020 | 69 | 2020 |
| Atlas of group A streptococcal vaccine candidates compiled using large-scale comparative genomics MR Davies, L McIntyre, A Mutreja, JA Lacey, JA Lees, RJ Towers, ... Nature genetics 51, 1035–1043, 2019 | 66 | 2019 |
| Benzalkonium tolerance genes and outcome in Listeria monocytogenes meningitis PHC Kremer, JA Lees, MM Koopmans, B Ferwerda, AWM Arends, ... Clinical microbiology and infection 23 (4), 265. e1-265. e7, 2017 | 62 | 2017 |
| International Genomic Definition of Pneumococcal Lineages, to Contextualise Disease, Antibiotic Resistance and Vaccine Impact RA Gladstone, SW Lo, JA Lees, NJ Croucher, AJ van Tonder, J Corander, ... EBioMedicine 43, 338-346, 2019 | 61 | 2019 |
| Genome-wide identification of lineage and locus specific variation associated with pneumococcal carriage duration JA Lees, NJ Croucher, D Goldblatt, F Nosten, J Parkhill, C Turner, ... eLife 6, e26255, 2017 | 61 | 2017 |
| Multiple major disease-associated clones of Legionella pneumophila have emerged recently and independently S David, C Rusniok, M Mentasti, L Gomez-Valero, SR Harris, P Lechat, ... Genome research 26 (11), 1555-1564, 2016 | 61 | 2016 |
| pyseer: a comprehensive tool for microbial pangenome-wide association studies JA Lees, M Galardini, SD Bentley, JN Weiser, J Corander Bioinformatics 34 (24), 4310--4312, 2018 | 59 | 2018 |
| Adults with suspected central nervous system infection: a prospective study of diagnostic accuracy U Khatib, D van de Beek, JA Lees, MC Brouwer Journal of Infection 74 (1), 1-9, 2017 | 57 | 2017 |
| Producing polished prokaryotic pangenomes with the Panaroo pipeline G Tonkin-Hill, N MacAlasdair, C Ruis, A Weimann, G Horesh, JA Lees, ... Genome Biology 21 (180), 2020 | 48 | 2020 |
| Fast hierarchical Bayesian analysis of population structure G Tonkin-Hill, JA Lees, SD Bentley, SDW Frost, J Corander Nucleic Acids Research 47 (11), 5539–5549, 2019 | 47 | 2019 |
| A sub-national analysis of the rate of transmission of COVID-19 in Italy MAC Vollmer, S Mishra, HJT Unwin, A Gandy, TA Mellan, V Bradley, ... medRxiv, 2020 | 44* | 2020 |
| Report 16: Role of testing in COVID-19 control N Grassly, M Pons Salort, E Parker, P White, K Ainslie, M Baguelin, ... | 41 | 2020 |
