|Genome-wide analysis of multi-and extensively drug-resistant Mycobacterium tuberculosis|
F Coll, J Phelan, GA Hill-Cawthorne, MB Nair, K Mallard, S Ali, ...
Nature genetics 50 (2), 307-316, 2018
|Outcomes, infectiousness, and transmission dynamics of patients with extensively drug-resistant tuberculosis and home-discharged patients with programmatically incurable …|
K Dheda, JD Limberis, E Pietersen, J Phelan, A Esmail, M Lesosky, ...
The lancet Respiratory medicine 5 (4), 269-281, 2017
|Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance|
J Phelan, F Coll, R McNerney, DB Ascher, DEV Pires, N Furnham, ...
BMC medicine 14 (1), 1-13, 2016
|Primary macrophages and J774 cells respond differently to infection with Mycobacterium tuberculosis|
N Andreu, J Phelan, F Paola, JM Cliff, TG Clark, ML Hibberd
Scientific reports 7 (1), 1-12, 2017
|Integrating informatics tools and portable sequencing technology for rapid detection of resistance to anti-tuberculous drugs|
JE Phelan, DM O’Sullivan, D Machado, J Ramos, YEA Oppong, ...
Genome medicine 11 (1), 1-7, 2019
|Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages|
JE Phelan, F Coll, I Bergval, RM Anthony, R Warren, SL Sampson, ...
BMC genomics 17 (1), 1-12, 2016
|Zika might not be acting alone: Using an ecological study approach to investigate potential co-acting risk factors for an unusual pattern of microcephaly in Brazil|
MC Campos, JG Dombrowski, J Phelan, CRF Marinho, M Hibberd, ...
PLoS One 13 (8), e0201452, 2018
|Identifying mixed Mycobacterium tuberculosis infections from whole genome sequence data|
B Sobkowiak, JR Glynn, RMGJ Houben, K Mallard, JE Phelan, ...
BMC genomics 19 (1), 1-15, 2018
|The variability and reproducibility of whole genome sequencing technology for detecting resistance to anti-tuberculous drugs|
J Phelan, DM O’Sullivan, D Machado, J Ramos, AS Whale, J O’Grady, ...
Genome medicine 8 (1), 1-9, 2016
|Understanding molecular consequences of putative drug resistant mutations in Mycobacterium tuberculosis|
S Portelli, JE Phelan, DB Ascher, TG Clark, N Furnham
Scientific reports 8 (1), 1-12, 2018
|Genome-wide mutagenesis and multi-drug resistance in American trypanosomes induced by the front-line drug benznidazole|
MC Campos, J Phelan, AF Francisco, MC Taylor, MD Lewis, A Pain, ...
Scientific reports 7 (1), 1-8, 2017
|Global analysis of Plasmodium falciparum histidine-rich protein-2 (pfhrp2) and pfhrp3 gene deletions using whole-genome sequencing data and meta-analysis|
N Sepúlveda, J Phelan, E Diez-Benavente, S Campino, TG Clark, ...
Infection, genetics and evolution 62, 211-219, 2018
|Discordant bioinformatic predictions of antimicrobial resistance from whole-genome sequencing data of bacterial isolates: an inter-laboratory study|
RM Doyle, DM O'sullivan, SD Aller, S Bruchmann, T Clark, AC Pelegrin, ...
Microbial genomics 6 (2), 2020
|Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax|
TC de Oliveira, PT Rodrigues, MJ Menezes, RM Goncalves-Lopes, ...
PLoS neglected tropical diseases 11 (7), e0005824, 2017
|Machine learning predicts accurately Mycobacterium tuberculosis drug resistance from whole genome sequencing data|
W Deelder, S Christakoudi, J Phelan, ED Benavente, S Campino, ...
Frontiers in genetics 10, 922, 2019
|Evidence for host-bacterial co-evolution via genome sequence analysis of 480 Thai Mycobacterium tuberculosis lineage 1 isolates|
P Palittapongarnpim, P Ajawatanawong, W Viratyosin, N Smittipat, ...
Scientific reports 8 (1), 1-14, 2018
|Methylation in Mycobacterium tuberculosis is lineage specific with associated mutations present globally|
J Phelan, PF De Sessions, L Tientcheu, J Perdigao, D Machado, R Hasan, ...
Scientific reports 8 (1), 1-7, 2018
|Controlling the SARS-CoV-2 outbreak, insights from large scale whole genome sequences generated across the world|
J Phelan, W Deelder, D Ward, S Campino, ML Hibberd, TG Clark
|The draft genome of Mycobacterium aurum, a potential model organism for investigating drugs against Mycobacterium tuberculosis and Mycobacterium leprae|
J Phelan, A Maitra, R McNerney, M Nair, A Gupta, F Coll, A Pain, S Bhakta, ...
International journal of mycobacteriology 4 (3), 207-216, 2015
|Genome-wide analysis of Mycobacterium tuberculosis polymorphisms reveals lineage-specific associations with drug resistance|
YEA Oppong, J Phelan, J Perdigão, D Machado, A Miranda, I Portugal, ...
BMC genomics 20 (1), 1-15, 2019