John A. Lees

8.8k citations

50 papers · 2.1k indexed · 1 hit paper · h-index 18

Impact in

Molecular Medicine top 1%
- Antibiotic Resistance in Bacteria
Endocrinology top 1%

Papers in ⓘ

Microbiology 14
- Bacterial Infections and Vaccines 12
- Microbial infections and disease research 3
Endocrinology 5

Co-authors: Stephen D. Bentley (21 shared papers)Jukka Corander (12 shared papers)Gerry Tonkin‐Hill (8 shared papers)Simon D. W. Frost (2 shared papers)Jeffrey N. Weiser (6 shared papers)Julian Parkhill (8 shared papers)Rebecca A. Gladstone (6 shared papers)Stephanie W. Lo (4 shared papers)
Journals: Microbial Genomics (7 papers)Genome Research (7 papers)Bioinformatics (3 papers)Nature Reviews Microbiology (3 papers)Nature Communications (2 papers)
Partner nations: United Kingdom United States Finland

In The Last Decade

John A. Lees

45 papers receiving 2.0k citations

Hit Papers

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Producing polished prokaryotic pangenomes with the Panaroo pipeline 2020 · 576 citations

Peers

Countries citing papers authored by John A. Lees

Since Specialization

Citations

This map shows the geographic impact of John A. Lees's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by John A. Lees with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites John A. Lees more than expected).

Fields of papers citing papers by John A. Lees

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by John A. Lees. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by John A. Lees. The network helps show where John A. Lees may publish in the future.

Co-authors

The 25 scholars most cited alongside John A. Lees, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.

Border = papers with John A. Lees Line = papers co-authored together John A. Lees links everyone, so they are left out of the graph.

All Works

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20 of 20 papers shown

Showing the 20 most-cited of 50 papers — load more, or switch the sort, to bring in the rest.

#	Work
1	Producing polished prokaryotic pangenomes with the Panaroo pipeline Genome biology ·Gerry Tonkin‐Hill, Neil MacAlasdair, Christopher Ruis, Aaron Weimann, Gal Horesh, John A. Lees, Rebecca A. Gladstone, Stephanie W. Lo, Christopher A. Beaudoin, R. Andrés Floto, Simon D. W. Frost, Jukka Corander, Stephen D. Bentley, Julian Parkhill Hit paper breakdown →	2020	576
2	Fast and flexible bacterial genomic epidemiology with PopPUNK Genome Research ·John A. Lees, Simon R. Harris, Gerry Tonkin‐Hill, Rebecca A. Gladstone, Stephanie W. Lo, Jeffrey N. Weiser, Jukka Corander, Stephen D. Bentley, Nicholas J. Croucher	2019	220
3	Fast hierarchical Bayesian analysis of population structure Nucleic Acids Research ·Gerry Tonkin‐Hill, John A. Lees, Stephen D. Bentley, Simon D. W. Frost, Jukka Corander	2019	188
4	pyseer: a comprehensive tool for microbial pangenome-wide association studies Bioinformatics ·John A. Lees, Marco Galardini, Stephen D. Bentley, Jeffrey N. Weiser, Jukka Corander	2018	172
5	Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes Nature Communications ·John A. Lees, Minna Vehkala, Niko Välimäki, Simon R. Harris, Claire Chewapreecha, Nicholas J. Croucher, Pekka Marttinen, Mark R. Davies, Andrew C. Steer, Steven Y. C. Tong, Antti Honkela, Julian Parkhill, Stephen D. Bentley, Jukka Corander	2016	121
6	Benzalkonium tolerance genes and outcome in Listeria monocytogenes meningitis Clinical Microbiology and Infection ·P.H.C. Kremer, John A. Lees, Marion Koopmans, Bart Ferwerda, A. Arends, Moniek Feller, Kim Schipper, Mercedes Valls Serón, Arie van der Ende, Matthijs C. Brouwer, Diederik van de Beek, Stephen D. Bentley	2016	80
7	Within-country age-based prioritisation, global allocation, and public health impact of a vaccine against SARS-CoV-2: A mathematical modelling analysis Vaccine ·Alexandra B. Hogan, Peter Winskill, Oliver J. Watson, Patrick Walker, Charles Whittaker, Marc Baguelin, Nicholas F. Brazeau, Giovanni Charles, Katy A. M. Gaythorpe, Arran Hamlet, Edward Knock, Daniel J. Laydon, John A. Lees, Alessandra Løchen, Robert Verity, Lilith K. Whittles, Farzana Muhib, Katharina Hauck, Neil M. Ferguson, Azra C. Ghani	2021	72
8	Genome-wide identification of lineage and locus specific variation associated with pneumococcal carriage duration eLife ·John A. Lees, Nicholas J. Croucher, David Goldblatt, François Nosten, Julian Parkhill, Claudia Turner, Paul Turner, Stephen D. Bentley	2017	69
9	Multiple major disease-associated clones ofLegionella pneumophilahave emerged recently and independently Genome Research ·Sophia David, Christophe Rusniok, M. Mentasti, Laura Gómez-Valero, Simon R. Harris, P Lechat, John A. Lees, Christophe Ginévra, Philippe Glaser, Laurence Ma, Christiane Bouchier, Anthony Underwood, Sophie Jarraud, Timothy G. Harrison, Julian Parkhill, Carmen Buchrieser	2016	65
10	Improved Prediction of Bacterial Genotype-Phenotype Associations Using Interpretable Pangenome-Spanning Regressions mBio ·John A. Lees, The Tien Mai, Marco Galardini, Nicole E. Wheeler, Samuel Horsfield, Julian Parkhill, Jukka Corander	2020	63
11	Adults with suspected central nervous system infection: A prospective study of diagnostic accuracy Journal of Infection ·Ula Khatib, Diederik van de Beek, John A. Lees, Matthijs C. Brouwer	2016	57
12	Pneumococcal quorum sensing drives an asymmetric owner–intruder competitive strategy during carriage via the competence regulon Nature Microbiology ·Pamela Shen, John A. Lees, Gavyn Chern Wei Bee, Sam P. Brown, Jeffrey N. Weiser	2018	35
13	Genome-wide epistasis and co-selection study using mutual information Nucleic Acids Research ·Johan Pensar, Santeri Puranen, Brian J. Arnold, Neil MacAlasdair, Juri Kuronen, Gerry Tonkin‐Hill, Maiju Pesonen, Yingying Xu, Aleksi Sipola, Leonor Sánchez-Busó, John A. Lees, Claire Chewapreecha, Stephen D. Bentley, Simon R. Harris, Julian Parkhill, Nicholas J. Croucher, Jukka Corander	2019	30
14	Large scale genomic analysis shows no evidence for pathogen adaptation between the blood and cerebrospinal fluid niches during bacterial meningitis Microbial Genomics ·John A. Lees, Philip H. C. Kremer, Ana Sousa Manso, Nicholas J. Croucher, Bart Ferwerda, Mercedes Valls Serón, Marco R. Oggioni, Julian Parkhill, Matthijs C. Brouwer, Arie van der Ende, Diederik van de Beek, Stephen D. Bentley	2016	30
15	Immune exclusion by naturally acquired secretory IgA against pneumococcal pilus-1 Journal of Clinical Investigation ·Ulrike Binsker, John A. Lees, Alexandria J. Hammond, Jeffrey N. Weiser	2019	27
16	Potential impact of the COVID-19 pandemic on HIV, TB and malaria in low- and middle-income countries: a modelling study Spiral (Imperial College London) ·Alexandra B. Hogan, Britta L. Jewell, Ellie Sherrard-Smith, (unknown), (unknown), (unknown), (unknown), John A. Smith, Kylie E. C. Ainslie, Marc Baguelin, (unknown), (unknown), Nicholas F. Brazeau, (unknown), (unknown), (unknown), (unknown), (unknown), (unknown), (unknown), Christl A. Donnelly, (unknown), Jeffrey W. Eaton, (unknown), Richard G. FitzJohn, (unknown), Katy A. M. Gaythorpe, (unknown), (unknown), Sandra C. Hayes, (unknown), (unknown), (unknown), Daniel J. Laydon, John A. Lees, Tara D. Mangal, Thomas A. Mellan, (unknown), (unknown), (unknown), (unknown), (unknown), Kris V. Parag, (unknown), Isaac J. Stopard, (unknown), H. Juliette T. Unwin, (unknown), (unknown), Caroline E. Walters	2020	26
17	Modelling intensive care unit capacity under different epidemiological scenarios of the COVID-19 pandemic in three Western European countries International Journal of Epidemiology ·Ruth McCabe, Mara D. Kont, Nora Schmit, Charles Whittaker, Alessandra Løchen, Marc Baguelin, Edward Knock, Lilith K. Whittles, John A. Lees, Nicholas F. Brazeau, Patrick Walker, Azra C. Ghani, Neil M. Ferguson, Peter J White, Christl A. Donnelly, Katharina Hauck, Oliver J. Watson	2021	24
18	SuperDCA for genome-wide epistasis analysis Microbial Genomics ·Santeri Puranen, Maiju Pesonen, Johan Pensar, Ying Xu, John A. Lees, Stephen D. Bentley, Nicholas J. Croucher, Jukka Corander	2018	17
19	Negative frequency-dependent selection and asymmetrical transformation stabilise multi-strain bacterial population structures The ISME Journal ·Gabrielle L. Harrow, John A. Lees, William P. Hanage, Marc Lipsitch, Jukka Corander, Caroline Colijn, Nicholas J. Croucher	2021	16
20	Horizontal gene transfer rate is not the primary determinant of observed antibiotic resistance frequencies in Streptococcus pneumoniae Science Advances ·Sonja Lehtinen, Claire Chewapreecha, John A. Lees, William P. Hanage, Marc Lipsitch, Nicholas J. Croucher, Stephen D. Bentley, Paul Turner, Christophe Fraser, Rafal Mostowy	2020	16

About John A. Lees

John A. Lees is a scholar working on Microbiology, Endocrinology, Epidemiology, Modeling and Simulation and Molecular Medicine, having authored 50 papers that have together received 2.1k indexed citations. Recurring topics across this work include Genomics and Phylogenetic Studies (20 papers), Pneumonia and Respiratory Infections (19 papers), Bacterial Infections and Vaccines (12 papers), Respiratory viral infections research (5 papers), Evolution and Genetic Dynamics (3 papers), Plant Pathogenic Bacteria Studies (3 papers), Microbial infections and disease research (3 papers) and Machine Learning in Bioinformatics (3 papers). The work is most often cited by research in Molecular Medicine (352 citations), Endocrinology (329 citations), Microbiology (322 citations), Clinical Biochemistry (178 citations) and Infectious Diseases (449 citations). John A. Lees has collaborated with scholars based in United Kingdom, United States and Finland. Frequent co-authors include Stephen D. Bentley, Jukka Corander, Gerry Tonkin‐Hill, Simon D. W. Frost, Jeffrey N. Weiser, Julian Parkhill, Rebecca A. Gladstone, Stephanie W. Lo, Nicholas J. Croucher and Marco Galardini. Their work appears in journals such as Microbial Genomics, Genome Research, Bioinformatics, Nature Reviews Microbiology and Nature Communications.

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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