| 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 | 55 | 2016 |
| 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 | 33 | 2016 |
| 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 | 23 | 2017 |
| 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 | 21 | 2017 |
| 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 | 21 | 2017 |
| Large scale genomic analysis shows no evidence for pathogen adaptation between the blood and cerebrospinal fluid niches during bacterial meningitis JA Lees, PHC Kremer, AS Manso, NJ Croucher, B Ferwerda, MV Serón, ... Microbial genomics 3 (1), 2017 | 16* | 2017 |
| Genome watch: Bacterial GWAS: not just gilding the lily JA Lees, SD Bentley Nature Reviews Microbiology 14 (7), 2016 | 7 | 2016 |
| Evaluation of phylogenetic reconstruction methods using bacterial whole genomes: a simulation based study JA Lees, M Kendall, J Parkhill, C Colijn, SD Bentley, SR Harris Wellcome Open Research 3 (33), 2018 | 6 | 2018 |
| SuperDCA for genome-wide epistasis analysis S Puranen, M Pesonen, J Pensar, YY Xu, JA Lees, SD Bentley, ... Microbial Genomics 4 (6), 2018 | 4 | 2018 |
| Sequential evolution of virulence and resistance during clonal spread of community-acquired methicillin-resistant Staphylococcus aureus R Copin, WE Sause, Y Fulmer, D Balasubramanian, S Dyzenhaus, ... Proceedings of the National Academy of Sciences 116 (5), 1745-1754, 2019 | 2 | 2019 |
| 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 | 2 | 2018 |
| 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, 2018 | 2 | 2018 |
| Bacterial hypervirulence in haemophilus influenzae meningitis identified by whole genome sequencing D Koelman, P Kremer, J Lees, M Brouwer, S Bentley, D van de Beek Journal of the Neurological Sciences 381, 181-182, 2017 | 2 | 2017 |
| 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 | 1 | 2019 |
| Pneumococcal quorum sensing drives an asymmetric owner–intruder competitive strategy during carriage via the competence regulon P Shen, JA Lees, GCW Bee, SP Brown, JN Weiser Nature microbiology 4 (1), 198, 2019 | 1 | 2019 |
| Within-host sampling of a natural population shows signs of selection on Pde1 during bacterial meningitis JA Lees, M Brouwer, A van der Ende, J Parkhill, D van de Beek, ... Infection and immunity 85 (3), e01061-16, 2017 | 1 | 2017 |
| R–M systems go on the offensive J Lees, R Gladstone Nature Reviews Microbiology 13 (3), 131, 2015 | 1 | 2015 |
| Genome-wide epistasis and co-selection study using mutual information J Pensar, S Puranen, N MacAlasdair, J Kuronen, G Tonkin-Hill, ... BioRxiv, 523407, 2019 | | 2019 |
| No evidence for host-pathogen genetic interaction in Neisseria meningitidis causing meningitis P Kremer, J Lees, B Ferwerda, A van der Ende, MC Brouwer, S Bentley, ... EUROPEAN JOURNAL OF NEUROLOGY 25, 552-552, 2018 | | 2018 |
| bacterial whole genomes: a simulation based study JA Lees, M Kendall, J Parkhill, C Colijn, SD Bentley, SR Harris | | 2018 |