John A Lees
John A Lees
Postdoctoral Fellow, NYU Medical Centre
Verified email at nyumc.org - Homepage
TitleCited byYear
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
552016
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
332016
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
232017
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
212017
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
212017
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
72016
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
62018
SuperDCA for genome-wide epistasis analysis
S Puranen, M Pesonen, J Pensar, YY Xu, JA Lees, SD Bentley, ...
Microbial Genomics 4 (6), 2018
42018
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
22019
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
22018
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
22018
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
22017
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
12019
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
12019
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
12017
R–M systems go on the offensive
J Lees, R Gladstone
Nature Reviews Microbiology 13 (3), 131, 2015
12015
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
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Articles 1–20